Psyllid ID: psy3698

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530----
Protein Sequence
SQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPIVRNVRKSPPSSPSGPHSGGLTLNTLNGFSSREDITTSSATSSPWFDSPLLTPMTPQIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNSPRSSGARHSPPSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSSDDVR
Secondary Structure (PSIPRED)
cccccEEEEcccccccccccccccccEEEccccccccHHHHHHHHcccccEEEEccccccccccccccccccHHHHHHHHHHHHcccccccccEEEcccccccccccccccccccccccEEEEcccccccHHHHHHHHHHcccccEEEEEEEEccccccccEEEEEEccHHHHHHHHHHcccccccccEEEEEEEccccccccccccccccccEEccccccHHHccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccEEEccccccccHHHHHHHHcccccEEEEccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEcccccccccccccccccEEEEccccccccHHHHHHHHHccccEEEEcccccccccccccccHHHHHHHHHHHHHHHHHHccccccEEEEEEEEccccccccccccccccccEEEEEcccccccHHHHHHHHHHHcccEEEEEEEcccccccccccEEEEccHHHHHHHHHHcEEEEEcccccEEEEEccccHHHHHHHHccccccccccccHHHHHHHHHHHHHHHccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccccHEccccccccccccccccccccccccccccccccccccccccccEEcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccHHccccccccccccccccccEEEEcccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccEEEEccccccccHHHHHHHHcccccEEEEEEEcccccccccc
Coil and Loop (DISEMBL)
sqipqktwegvlplrtqfsdeilsnkifiggvpwdtpEYLLLTVFSqfgpvkvewpqgtpesptapkaiSLDVISELVLILGQWategnlcgrvevvpwaisdsnyspqghstklepgktifVGALHGRLTAQALYNVMNDLFGDVvyagidtdkhkypigsgritfgstrAYSDAIRAAFIEVKSGrickklqidpylednvcsecqthsgpyfcregicyryfcrscwlkvhigeysqhdpivrnvrksppsspsgphsggltlntlngfssredittssatsspwfdsplltpmtpqivrspfesnsyaihgsshsppfgshsmescsppyltdegdyspyyqtggstdyfsynnapshlnlngsmtdssnlDNIEDLLASLSLnntgqsnvrangtagsvpsphtsplnsprssgarhsppsnggyyggggggqylhngdgggqgglqsTLDIAARHhrssansqipqktwegvlplrtqfsdeilsnkifiggvpwdtpEYLLLTVFSQFGPVKAVVMNraemssddvr
Flexible Loop (DISEMBL)
sqipqktwegvlplrTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIdtdkhkypigsgritfgstrAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPIVRNVRKSPPSSPSGPHSGGLTLNTLNGFSSREDITTSsatsspwfdspLLTPMTPQIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNSPRSSGARHSPPSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAARHHRssansqipqktwegVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNraemssddvr
Low Complexity Region (SEG)
SQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPIVRNVRKsppsspsgphsggLTLNTLNGFSSREDITTSSATSSPWFDSPLLTPMTPQIVRSPFESNSYAIhgsshsppfgshsMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNSPRSSGARHSPPSnggyyggggggqylhngdgggqgglqSTLDIAARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSSDDVR
Disordered region (IsUnstruct)
*******WEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWP**********KAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSN***********PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPI***************************************************************************************************YY*******YF***********************************************************************************************************************TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM***********
Disordered Region (DISOPRED)
***PQKT*******************IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEV************************IFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYS************************************************************QIV*******************************************************************************************************************************************************************************VLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVV************
Disordered Region (DISEMBL)
SQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEW********TAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPIVRN**************GGLTLNTLNGFSSRE*********SPWFDSPLLTPMTPQIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANG*************************PSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAA**********IPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRA********
Disordered Region (DISPRO)
**IPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHD***RN*******************************************SPLLTPMTPQIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNSPRSSGARHSPPSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR*********
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
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TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
SQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQHDPIVRNVRKSPPSSPSGPHSGGLTLNTLNGFSSREDITTSSATSSPWFDSPLLTPMTPQIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPYYQTGGSTDYFSYNNAPSHLNLNGSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNSPRSSGARHSPPSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSSDDVR
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	534	2.2.26 [Sep-21-2011]
Q9DED5	559	Cytoplasmic polyadenylati	N/A	N/A	0.453	0.432	0.450	1e-64
Q91572	568	Cytoplasmic polyadenylati	N/A	N/A	0.451	0.424	0.451	1e-64
Q9YGX5	559	Cytoplasmic polyadenylati	yes	N/A	0.453	0.432	0.446	2e-64
Q52KN7	568	Cytoplasmic polyadenylati	N/A	N/A	0.451	0.424	0.448	3e-64
Q5R733	486	Cytoplasmic polyadenylati	yes	N/A	0.451	0.495	0.456	6e-63
Q9BZB8	566	Cytoplasmic polyadenylati	no	N/A	0.451	0.425	0.444	3e-62
P0C279	561	Cytoplasmic polyadenylati	yes	N/A	0.447	0.426	0.448	7e-62
P70166	561	Cytoplasmic polyadenylati	yes	N/A	0.447	0.426	0.448	1e-61
Q6E3D5	753	Cytoplasmic polyadenylati	N/A	N/A	0.554	0.393	0.338	1e-43
O01835	745	Cytoplasmic polyadenylati	yes	N/A	0.471	0.338	0.348	2e-43

>sp|Q9DED5|CPEB1_CARAU Cytoplasmic polyadenylation element-binding protein 1 OS=Carassius auratus GN=cpeb1 PE=2 SV=1

 Score =  248 bits (632), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 122/271 (45%), Positives = 165/271 (60%), Gaps = 29/271 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + I S K+F+GGVPWD  E  L+  F  +GP+ VEWP    + P  P
Sbjct: 287 TWSGQLPPR-HYQNPIYSCKVFLGGVPWDITEAGLINTFKCYGPLSVEWPGKDGKHPRCP 345

Query: 67  --------------------KAISLDVISELVLILG------QWATEGNLCGRVEVVPWA 100
                               +A+  D   +L+   G      + ++    C   +V+PW 
Sbjct: 346 PKGNMPKGYVYLVFESDKSVRALLQDCTEDLLHPEGYSEYYFKMSSRRMRCKDAQVIPWV 405

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ISDSNY     S +L+P  T+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPI
Sbjct: 406 ISDSNYV-SCPSQRLDPRNTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPI 464

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED +C  C    GP+FCR+  
Sbjct: 465 GSGRVTFNNQRSYLKAVSAAFVEIKTPKFTKKVQIDPYLEDAICQSCSREPGPFFCRDKT 524

Query: 221 CYRYFCRSCWLKVH-IGEYSQHDPIVRNVRK 250
           C++Y+CRSCW + H +   S H P++RN +K
Sbjct: 525 CFKYYCRSCWHRQHSMDILSNHRPLMRNQKK 555

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation and early development.Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR.
Carassius auratus (taxid: 7957)

>sp|Q91572|CPE1A_XENLA Cytoplasmic polyadenylation element-binding protein 1-A OS=Xenopus laevis GN=cpeb1-a PE=1 SV=2

 Score =  248 bits (632), Expect = 1e-64,   Method: Compositional matrix adjust.
 Identities = 122/270 (45%), Positives = 167/270 (61%), Gaps = 29/270 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + + S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 296 TWSGQLPPR-NYKNPVYSCKVFLGGVPWDITETGLINTFRVFGALSVEWPGKDGKHPRCP 354

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A S D++S+  L     + ++    C  V+V+PW 
Sbjct: 355 PKGNMPKGYVYLVFESEKSVRALLQACSQDLLSQDGLSEHYFKMSSRRMRCKEVQVIPWV 414

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ++DSN+  +  S +L+P KT+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPI
Sbjct: 415 LADSNFV-RSPSQRLDPSKTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPI 473

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C    GP+FCR+ +
Sbjct: 474 GSGRVTFNNQRSYLKAVSAAFVEIKTAKFTKKVQIDPYLEDSVCQVCNAQPGPFFCRDQV 533

Query: 221 CYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
           C++YFCRSCW   H  E    H P++RN +
Sbjct: 534 CFKYFCRSCWHWQHSMEILRHHRPLMRNQK 563

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation and early development. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR. In the absence of phosphorylation and in association with tacc3/maskin, also acts as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation. Requires zinc for RNA binding. Involved in the cell cycle progression from S phase into M phase.

Xenopus laevis (taxid: 8355)

>sp|Q9YGX5|CPEB1_DANRE Cytoplasmic polyadenylation element-binding protein 1 OS=Danio rerio GN=cpeb1 PE=1 SV=1

 Score =  246 bits (629), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 121/271 (44%), Positives = 165/271 (60%), Gaps = 29/271 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + + S K+F+GGVPWD  E  L+  F  +GP+ VEWP    + P  P
Sbjct: 287 TWSGQLPPR-HYQNPVYSCKVFLGGVPWDITEAGLINTFKCYGPLSVEWPGKDGKHPRCP 345

Query: 67  --------------------KAISLDVISELVLILG------QWATEGNLCGRVEVVPWA 100
                               +A+  D   +L+   G      + ++    C   +V+PW 
Sbjct: 346 PKGNMPKGYVYLVFESDKSVRALLQDCTEDLLHPEGYSEYYFKMSSRRMRCKDAQVIPWV 405

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ISDSNY     S +L+P  T+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPI
Sbjct: 406 ISDSNYV-SCPSQRLDPRNTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPI 464

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED +C  C    GP+FCR+  
Sbjct: 465 GSGRVTFNNQRSYLKAVSAAFVEIKTPKFTKKVQIDPYLEDAICQSCSREPGPFFCRDKT 524

Query: 221 CYRYFCRSCWLKVH-IGEYSQHDPIVRNVRK 250
           C++Y+CRSCW + H +   S H P++RN +K
Sbjct: 525 CFKYYCRSCWHRQHSMDILSNHRPLMRNQKK 555

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation and early development. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR.

Danio rerio (taxid: 7955)

>sp|Q52KN7|CPE1B_XENLA Cytoplasmic polyadenylation element-binding protein 1-B OS=Xenopus laevis GN=cpeb1-b PE=2 SV=1

 Score =  246 bits (629), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 121/270 (44%), Positives = 167/270 (61%), Gaps = 29/270 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + + S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 296 TWSGQLPPR-NYKNPVYSCKVFLGGVPWDITETGLINTFRVFGALSVEWPGKDGKHPRCP 354

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A + D++S+  L     + ++    C  V+V+PW 
Sbjct: 355 PKGNMPKGYVYLVFESEKSVRALLQACTQDLLSQDGLSEHYFKMSSRRMRCKEVQVIPWV 414

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ++DSN+  +  S +L+P KT+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPI
Sbjct: 415 LADSNFV-RSPSQRLDPSKTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPI 473

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C    GP+FCR+ +
Sbjct: 474 GSGRVTFNNQRSYLKAVSAAFVEIKTAKFTKKVQIDPYLEDSVCQVCNAQPGPFFCRDQV 533

Query: 221 CYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
           C++YFCRSCW   H  E    H P++RN +
Sbjct: 534 CFKYFCRSCWHWQHSMEILRHHRPLMRNQK 563

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation and early development. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR. In the absence of phosphorylation and in association with tacc3/maskin, also acts as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation. Requires zinc for RNA binding. Involved in the cell cycle progression from S phase into M phase.

Xenopus laevis (taxid: 8355)

>sp|Q5R733|CPEB1_PONAB Cytoplasmic polyadenylation element-binding protein 1 OS=Pongo abelii GN=CPEB1 PE=2 SV=1

 Score =  242 bits (617), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 121/265 (45%), Positives = 164/265 (61%), Gaps = 24/265 (9%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + I S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 219 TWSGQLPPR-NYKNPIYSCKVFLGGVPWDITEAGLVNTFRVFGSLSVEWPGKDGKHPRCP 277

Query: 67  KAISLDVISEL---VLILGQWATEGNL------------------CGRVEVVPWAISDSN 105
               + ++ EL   V  L Q  +   L                  C  V+V+PW ++DSN
Sbjct: 278 PKGYVYLVFELEKSVRSLLQACSHDPLSPDGLSEYYFKMSSRRMRCKEVQVIPWVLADSN 337

Query: 106 YSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRI 165
           +  +  S +L P +T+FVGALHG L A+AL  ++NDLFG VVYAGIDTDKHKYPIGSGR+
Sbjct: 338 FV-RSPSQRLNPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAGIDTDKHKYPIGSGRV 396

Query: 166 TFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYF 225
           TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C +  GP+FCR+ +C++YF
Sbjct: 397 TFNNQRSYLKAVTAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQPGPFFCRDQVCFKYF 456

Query: 226 CRSCWLKVHIGE-YSQHDPIVRNVR 249
           CRSCW   H  E    H P++RN +
Sbjct: 457 CRSCWHWRHSMEGLRHHSPLMRNQK 481

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation, early development and at postsynapse sites of neurons. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR. In absence of phosphorylation and in association with TACC3 is also involved as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation. Involved in the transport of CPE-containing mRNA to dendrites; those mRNAs may be transported to dendrites in a translationally dormant form and translationally activated at synapses. Its interaction with APLP1 promotes local CPE-containing mRNA polyadenylation and translation activation. Induces the assembly of stress granules in the absence of stress.

Pongo abelii (taxid: 9601)

>sp|Q9BZB8|CPEB1_HUMAN Cytoplasmic polyadenylation element-binding protein 1 OS=Homo sapiens GN=CPEB1 PE=1 SV=1

 Score =  239 bits (611), Expect = 3e-62,   Method: Compositional matrix adjust.
 Identities = 120/270 (44%), Positives = 165/270 (61%), Gaps = 29/270 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + I S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 294 TWSGQLPPR-NYKNPIYSCKVFLGGVPWDITEAGLVNTFRVFGSLSVEWPGKDGKHPRCP 352

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A S D +S   L     + ++    C  V+V+PW 
Sbjct: 353 PKGNMPKGYVYLVFELEKSVRSLLQACSHDPLSPDGLSEYYFKMSSRRMRCKEVQVIPWV 412

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAGIDTDKHKYPI
Sbjct: 413 LADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAGIDTDKHKYPI 471

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C +  GP+FCR+ +
Sbjct: 472 GSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQPGPFFCRDQV 531

Query: 221 CYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
           C++YFCRSCW   H  E    H P++RN +
Sbjct: 532 CFKYFCRSCWHWRHSMEGLRHHSPLMRNQK 561

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation, early development and at postsynapse sites of neurons. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the mRNA 3'-UTR. In absence of phosphorylation and in association with TACC3 is also involved as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation (By similarity). Involved in the transport of CPE-containing mRNA to dendrites; those mRNAs may be transported to dendrites in a translationally dormant form and translationally activated at synapses (By similarity). Its interaction with APLP1 promotes local CPE-containing mRNA polyadenylation and translation activation (By similarity). Induces the assembly of stress granules in the absence of stress.

Homo sapiens (taxid: 9606)

>sp|P0C279|CPEB1_RAT Cytoplasmic polyadenylation element-binding protein 1 OS=Rattus norvegicus GN=Cpeb1 PE=1 SV=1

 Score =  238 bits (608), Expect = 7e-62,   Method: Compositional matrix adjust.
 Identities = 122/272 (44%), Positives = 166/272 (61%), Gaps = 33/272 (12%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + I S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 293 TWSGQLPPRN-YKNPIYSCKVFLGGVPWDITEAGLVNTFRVFGSLSVEWPGKDGKHPRCP 351

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A S D +S   L     + ++    C  V+V+PW 
Sbjct: 352 PKGNMPKGYVYLVFELEKSVRALLQACSHDPLSPDGLSEYYFKMSSRRMRCKEVQVIPWV 411

Query: 101 ISDSNY--SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKY 158
           ++DSN+  SP   S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAGIDTDKHKY
Sbjct: 412 LADSNFVWSP---SQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAGIDTDKHKY 468

Query: 159 PIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCRE 218
           PIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C +  GP+FCR+
Sbjct: 469 PIGSGRVTFNNQRSYLKAVTAAFVEIKTTKFTKKVQIDPYLEDSLCLICSSQPGPFFCRD 528

Query: 219 GICYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
            +C++YFCRSCW   H  E    H P++RN +
Sbjct: 529 QVCFKYFCRSCWHWRHSMEGLRHHSPLMRNQK 560

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation, early development and at postsynapse sites of neurons. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the 3'-UTR of mRNAs. In absence of phosphorylation and in association with TACC3 is also involved as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation. Involved in the transport of CPE-containing mRNA to dendrites; those mRNAs may be transported to dendrites in a translationally dormant form and translationally activated at synapses. Its interaction with APLP1 promotes local CPE-containing mRNA polyadenylation and translation activation. Induces the assembly of stress granules in the absence of stress.

Rattus norvegicus (taxid: 10116)

>sp|P70166|CPEB1_MOUSE Cytoplasmic polyadenylation element-binding protein 1 OS=Mus musculus GN=Cpeb1 PE=1 SV=1

 Score =  238 bits (606), Expect = 1e-61,   Method: Compositional matrix adjust.
 Identities = 122/272 (44%), Positives = 166/272 (61%), Gaps = 33/272 (12%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + I S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 293 TWSGQLPPRN-YKNPIYSCKVFLGGVPWDITEAGLVNTFRVFGSLSVEWPGKDGKHPRCP 351

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A S D +S   L     + ++    C  V+V+PW 
Sbjct: 352 PKGNMPKGYVYLVFELEKSVRALLQACSHDPLSPDGLSEYYFKMSSRRMRCKEVQVIPWV 411

Query: 101 ISDSNY--SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKY 158
           ++DSN+  SP   S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAGIDTDKHKY
Sbjct: 412 LADSNFVWSP---SQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAGIDTDKHKY 468

Query: 159 PIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCRE 218
           PIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C +  GP+FCR+
Sbjct: 469 PIGSGRVTFNNQRSYLKAVTAAFVEIKTTKFTKKVQIDPYLEDSLCLICSSQPGPFFCRD 528

Query: 219 GICYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
            +C++YFCRSCW   H  E    H P++RN +
Sbjct: 529 QVCFKYFCRSCWHWRHSMEGLRHHSPLMRNQK 560

Sequence-specific RNA-binding protein that regulates mRNA cytoplasmic polyadenylation and translation initiation during oocyte maturation, early development and at postsynapse sites of neurons. Binds to the cytoplasmic polyadenylation element (CPE), an uridine-rich sequence element (consensus sequence 5'-UUUUUAU-3') within the 3'-UTR of mRNAs. In absence of phosphorylation and in association with TACC3 is also involved as a repressor of translation of CPE-containing mRNA; a repression that is relieved by phosphorylation or degradation (By similarity). Involved in the transport of CPE-containing mRNA to dendrites; those mRNAs may be transported to dendrites in a translationally dormant form and translationally activated at synapses. Its interaction with APLP1 promotes local CPE-containing mRNA polyadenylation and translation activation. Induces the assembly of stress granules in the absence of stress.

Mus musculus (taxid: 10090)

>sp|Q6E3D5|CPB3_CAEBR Cytoplasmic polyadenylation element-binding protein 3 OS=Caenorhabditis briggsae GN=cpb-3 PE=2 SV=1

 Score =  178 bits (451), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 120/354 (33%), Positives = 175/354 (49%), Gaps = 58/354 (16%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWP-----QGTPE 61
           +W G LP R  ++    S KIF+GGVPWD  E  L   F +FG   VEWP       + +
Sbjct: 279 SWHGELPPR-DYTSPTFSRKIFVGGVPWDITEAALKDSFGEFGSCAVEWPGQEARYRSGQ 337

Query: 62  SPTAP--------------------------KAIS--LDVISELVLILGQW-------AT 86
           S  AP                          +A++  L   S+ +   G+W        +
Sbjct: 338 SNIAPLTNLRNQSKYAGQAATGYVYMIFEDERAVASLLHECSQEIGGAGEWYFKIRAQRS 397

Query: 87  EGNLCGRVEVVPWAISDSNYSPQGH--STKLEPGKTIFVGALHGRLTAQALYNVMNDLFG 144
           +     +V+++PW  SDS +        T +EP +T+FVGALHG +TAQ L+ +M D FG
Sbjct: 398 KSTEIRQVQIIPWVTSDSMFCEDESLLETGIEPKRTVFVGALHGMMTAQVLHWIMEDCFG 457

Query: 145 DVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVC 204
            V    +DTDK KYPIGSGR+TF    AY  AI   ++ V + +  K++QIDP+LE   C
Sbjct: 458 SVECVQLDTDKFKYPIGSGRVTFREHGAYFKAIEMGYLHVHTSKFRKRVQIDPFLESTSC 517

Query: 205 SECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQ--HDPIVRNVRKSPPSSPSGPHSG 262
             C T S   FCR   C++Y+C +CW   H  + +   H P++  V  S   + +GPH  
Sbjct: 518 MVCTTESAQCFCRNRNCFKYYCHTCWAIDHGKDNADDVHVPVI--VPSSASKAYAGPHRR 575

Query: 263 -GLTLNTLNGFSSREDITTSSATSSPWFDSPLLTPMTPQIVRSPFESNSYAIHG 315
             LT N+L   S     +T++  S       +L+P  P IV  P ++ S A++G
Sbjct: 576 PHLTSNSL---SKSHGCSTNNQLSH------VLSPGFPMIVGGPSQTLS-ALYG 619

Cytoplasmic polyadenylation element binding protein that binds to and regulates the translation of specific mRNAs.

Caenorhabditis briggsae (taxid: 6238)

>sp|O01835|CPB3_CAEEL Cytoplasmic polyadenylation element-binding protein 3 OS=Caenorhabditis elegans GN=cpb-3 PE=2 SV=2

 Score =  177 bits (449), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 106/304 (34%), Positives = 148/304 (48%), Gaps = 52/304 (17%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWP-----QGTPE 61
           TW G LP R  ++    S KIF+GGVPWD  E  L   F +FG   VEWP       + +
Sbjct: 278 TWFGELPPR-DYTSPTFSRKIFVGGVPWDITEAALKDSFGEFGSCAVEWPGQEARYRSGQ 336

Query: 62  SPTAPKAISLDVISE---------LVLIL--------------------GQW-------A 85
           S  AP   SL   ++         + +I                     G+W        
Sbjct: 337 SNLAPSNGSLRAQTKYTGQAATGYVYMIFEDERAVASLLHECSQEIGGAGEWYFKIRAQR 396

Query: 86  TEGNLCGRVEVVPWAISDSNYSPQGH--STKLEPGKTIFVGALHGRLTAQALYNVMNDLF 143
           ++     +V+++PW  SDS +        T +EP +T+FVGALHG +TAQ L+++M D F
Sbjct: 397 SKSTEIRQVQIIPWVTSDSMFCEDDTLLETGIEPKRTVFVGALHGMMTAQVLHSIMEDCF 456

Query: 144 GDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNV 203
           G V    +DTDK KYPIGSGR+TF    AY  AI   ++ V + +  K++QIDP+LE   
Sbjct: 457 GAVECVQLDTDKFKYPIGSGRVTFREHGAYFKAIEMGYLHVYTSKFRKRVQIDPFLESTC 516

Query: 204 CSECQTHSGPYFCREGICYRYFCRSCWLKVHIGEYSQ--HDPIVRNVRKSPPSSPSGPHS 261
           C  C + S   FCR   C++Y+C +CW   H  +  Q  H P++       PSS S    
Sbjct: 517 CMVCNSQSAHCFCRNKNCFKYYCHNCWALDHGKDDDQEVHIPVIV------PSSASKAFP 570

Query: 262 GGLT 265
           G  T
Sbjct: 571 GATT 574

Cytoplasmic polyadenylation element binding protein that binds to and regulates the translation of specific mRNAs (By similarity). May not be required for oogenesis.

Caenorhabditis elegans (taxid: 6239)

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	534
350417069	695	PREDICTED: cytoplasmic polyadenylation e	0.455	0.349	0.496	7e-68
340713134	694	PREDICTED: cytoplasmic polyadenylation e	0.455	0.350	0.496	8e-68
380015500	685	PREDICTED: cytoplasmic polyadenylation e	0.455	0.354	0.492	6e-67
328777570	685	PREDICTED: cytoplasmic polyadenylation e	0.455	0.354	0.492	6e-67
242019529	375	Cytoplasmic polyadenylation element-bind	0.453	0.645	0.475	5e-66
91091468	490	PREDICTED: similar to GA10609-PA [Tribol	0.455	0.495	0.471	2e-64
390350417	562	PREDICTED: cytoplasmic polyadenylation e	0.455	0.432	0.473	1e-63
328707243	591	PREDICTED: cytoplasmic polyadenylation e	0.496	0.448	0.456	5e-63
195539617	563	cpeb1 protein [Xenopus (Silurana) tropic	0.451	0.428	0.456	6e-63
213625306	568	Cpeb1 protein [Xenopus laevis]	0.451	0.424	0.451	6e-63

>gi|350417069|ref|XP_003491241.1| PREDICTED: cytoplasmic polyadenylation element-binding protein 1-like [Bombus impatiens]

 Score =  264 bits (675), Expect = 7e-68,   Method: Compositional matrix adjust.
 Identities = 131/264 (49%), Positives = 170/264 (64%), Gaps = 21/264 (7%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G+LP RTQ      S+K+F+GGVPWD  E LL+  F QFGP++VEWP G  +S 
Sbjct: 412 PTCTWSGILPQRTQ-KPSGYSSKVFLGGVPWDITESLLIATFKQFGPIRVEWP-GKDQSA 469

Query: 64  TAPKA---ISLDVISELVLIL----------GQW----ATEGNLCGRVEVVPWAISDSNY 106
           T PK    I  +   ++  +L          G W    +++      V+V+PW + DSNY
Sbjct: 470 TQPKGYVYIIFESEKQVRTLLTCCTHDFTNGGSWYYKISSKRMKAKEVQVIPWILEDSNY 529

Query: 107 SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRIT 166
             +  S KL+P KT+FVGALHG LTA  L  +M+DLF  V+YAGIDTDKHKYPIGSGR+T
Sbjct: 530 V-KSSSQKLDPHKTVFVGALHGMLTAAGLAKIMDDLFRGVIYAGIDTDKHKYPIGSGRVT 588

Query: 167 FGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFC 226
           F +  +Y  AI AAFIE+K+ +  KK+Q+DPYLED++CS C    GPYFCRE +C+RYFC
Sbjct: 589 FSTKHSYMKAISAAFIEIKTAKFTKKVQVDPYLEDSMCSGCSVQQGPYFCREVVCFRYFC 648

Query: 227 RSCWLKVHIGEYS-QHDPIVRNVR 249
           RSCW   H  E    H P++RN +
Sbjct: 649 RSCWQWQHSMESMWHHKPLMRNSK 672

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340713134|ref|XP_003395103.1| PREDICTED: cytoplasmic polyadenylation element-binding protein 1-like [Bombus terrestris]

 Score =  264 bits (675), Expect = 8e-68,   Method: Compositional matrix adjust.
 Identities = 131/264 (49%), Positives = 170/264 (64%), Gaps = 21/264 (7%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G+LP RTQ      S+K+F+GGVPWD  E LL+  F QFGP++VEWP G  +S 
Sbjct: 411 PTCTWSGILPQRTQ-KPSGYSSKVFLGGVPWDITESLLIATFKQFGPIRVEWP-GKDQSA 468

Query: 64  TAPKA---ISLDVISELVLIL----------GQW----ATEGNLCGRVEVVPWAISDSNY 106
           T PK    I  +   ++  +L          G W    +++      V+V+PW + DSNY
Sbjct: 469 TQPKGYVYIIFESEKQVRTLLTCCTHDFTNGGSWYYKISSKRMKAKEVQVIPWILEDSNY 528

Query: 107 SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRIT 166
             +  S KL+P KT+FVGALHG LTA  L  +M+DLF  V+YAGIDTDKHKYPIGSGR+T
Sbjct: 529 V-KSSSQKLDPHKTVFVGALHGMLTAAGLAKIMDDLFRGVIYAGIDTDKHKYPIGSGRVT 587

Query: 167 FGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFC 226
           F +  +Y  AI AAFIE+K+ +  KK+Q+DPYLED++CS C    GPYFCRE +C+RYFC
Sbjct: 588 FSTKHSYMKAISAAFIEIKTAKFTKKVQVDPYLEDSMCSGCSVQQGPYFCREVVCFRYFC 647

Query: 227 RSCWLKVHIGEYS-QHDPIVRNVR 249
           RSCW   H  E    H P++RN +
Sbjct: 648 RSCWQWQHSMESMWHHKPLMRNSK 671

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380015500|ref|XP_003691739.1| PREDICTED: cytoplasmic polyadenylation element-binding protein 1-like [Apis florea]

 Score =  261 bits (668), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 130/264 (49%), Positives = 169/264 (64%), Gaps = 21/264 (7%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G+LP RTQ      S+K+F+GGVPWD  E LL+  F QFG ++VEWP G  +S 
Sbjct: 402 PTCTWSGILPQRTQRPSG-YSSKVFLGGVPWDITESLLIATFKQFGQIRVEWP-GKDQSA 459

Query: 64  TAPKA---ISLDVISELVLIL----------GQW----ATEGNLCGRVEVVPWAISDSNY 106
           T PK    I  +   ++  +L          G W    +++      V+V+PW + DSNY
Sbjct: 460 TQPKGYVYIIFESEKQVRTLLACCTHDFTNGGSWYYKISSKRMKAKEVQVIPWILEDSNY 519

Query: 107 SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRIT 166
             +  S KL+P KT+FVGALHG LTA  L  +M+DLF  V+YAGIDTDKHKYPIGSGR+T
Sbjct: 520 V-KSSSQKLDPHKTVFVGALHGMLTAAGLAKIMDDLFRGVIYAGIDTDKHKYPIGSGRVT 578

Query: 167 FGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFC 226
           F +  +Y  AI AAFIE+K+ +  KK+Q+DPYLED++CS C    GPYFCRE +C+RYFC
Sbjct: 579 FSTKHSYMKAISAAFIEIKTAKFTKKVQVDPYLEDSMCSGCSVQQGPYFCREVVCFRYFC 638

Query: 227 RSCWLKVHIGEYS-QHDPIVRNVR 249
           RSCW   H  E    H P++RN +
Sbjct: 639 RSCWQWQHSMESMWHHKPLMRNSK 662

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328777570|ref|XP_395376.3| PREDICTED: cytoplasmic polyadenylation element-binding protein 1 [Apis mellifera]

 Score =  261 bits (668), Expect = 6e-67,   Method: Compositional matrix adjust.
 Identities = 130/264 (49%), Positives = 169/264 (64%), Gaps = 21/264 (7%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G+LP RTQ      S+K+F+GGVPWD  E LL+  F QFG ++VEWP G  +S 
Sbjct: 402 PTCTWSGILPQRTQRPSG-YSSKVFLGGVPWDITESLLIATFKQFGQIRVEWP-GKDQSA 459

Query: 64  TAPKA---ISLDVISELVLIL----------GQW----ATEGNLCGRVEVVPWAISDSNY 106
           T PK    I  +   ++  +L          G W    +++      V+V+PW + DSNY
Sbjct: 460 TQPKGYVYIIFESEKQVRTLLACCTHDFTNGGSWYYKISSKRMKAKEVQVIPWILEDSNY 519

Query: 107 SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRIT 166
             +  S KL+P KT+FVGALHG LTA  L  +M+DLF  V+YAGIDTDKHKYPIGSGR+T
Sbjct: 520 V-KSSSQKLDPHKTVFVGALHGMLTAAGLAKIMDDLFRGVIYAGIDTDKHKYPIGSGRVT 578

Query: 167 FGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFC 226
           F +  +Y  AI AAFIE+K+ +  KK+Q+DPYLED++CS C    GPYFCRE +C+RYFC
Sbjct: 579 FSTKHSYMKAISAAFIEIKTAKFTKKVQVDPYLEDSMCSGCSVQQGPYFCREVVCFRYFC 638

Query: 227 RSCWLKVHIGEYS-QHDPIVRNVR 249
           RSCW   H  E    H P++RN +
Sbjct: 639 RSCWQWQHSMESMWHHKPLMRNSK 662

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|242019529|ref|XP_002430213.1| Cytoplasmic polyadenylation element-binding protein, putative [Pediculus humanus corporis] gi|212515309|gb|EEB17475.1| Cytoplasmic polyadenylation element-binding protein, putative [Pediculus humanus corporis]

 Score =  258 bits (659), Expect = 5e-66,   Method: Compositional matrix adjust.
 Identities = 125/263 (47%), Positives = 169/263 (64%), Gaps = 21/263 (7%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G+LP+  +  + + S K+F+GGVPWD  E  L  VF  FGP++VEWP G  +  T P
Sbjct: 97  TWSGILPVPNE-KNAVYSCKVFLGGVPWDLSENTLEQVFRVFGPIRVEWP-GKEQQATQP 154

Query: 67  KA---ISLDVISELVLIL----------GQW----ATEGNLCGRVEVVPWAISDSNYSPQ 109
           K    I  +   ++  +L          G W    ++       V+V+PW IS+SNYS +
Sbjct: 155 KGYVYIIFESEKQVKALLSSCCKDYANGGSWFYKISSRKMKSKEVQVIPWVISNSNYS-K 213

Query: 110 GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGS 169
               KL+P KT+FVGALHG +TA+ L  +MNDLF  V+YAGIDTDK KYPIGS R+TF +
Sbjct: 214 SPCQKLDPQKTVFVGALHGMITAEGLAKIMNDLFDGVLYAGIDTDKFKYPIGSARVTFSN 273

Query: 170 TRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSC 229
           T++Y  A+ AAFIE+K+ + CKK+Q+DPYLED++CS C    GPYFCRE IC++YFCR+C
Sbjct: 274 TKSYMKAVAAAFIEIKTAKFCKKIQVDPYLEDSLCSSCNLQQGPYFCREMICFKYFCRTC 333

Query: 230 WLKVH-IGEYSQHDPIVRNVRKS 251
           W   H  G    H P++RN + S
Sbjct: 334 WQWQHTFGTMKSHKPLMRNSKNS 356

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|91091468|ref|XP_973177.1| PREDICTED: similar to GA10609-PA [Tribolium castaneum] gi|270001277|gb|EEZ97724.1| oo18 RNA-binding protein [Tribolium castaneum]

 Score =  253 bits (645), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 124/263 (47%), Positives = 164/263 (62%), Gaps = 20/263 (7%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW GVLP RT       S+K+F+GGVPWD  E  L+  F QFGP++VEWP G  +  + P
Sbjct: 223 TWSGVLPPRTS-KPSGYSSKVFLGGVPWDISEQSLIQAFKQFGPIRVEWP-GKEKQISQP 280

Query: 67  KAI-------SLDVISELVLILGQWATEGNL----------CGRVEVVPWAISDSNYSPQ 109
           K           +V + L      +A  GN              V+V+PW ++DSN + +
Sbjct: 281 KGYVYIIFESEKNVRALLQACTSDYANSGNWYYKISSKRMKAKEVQVIPWILNDSNCT-K 339

Query: 110 GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGS 169
             + KL+P KT+FVGALHG L A+ L  +MNDLF  VVY GIDTDK+KYPIGSGR+TF +
Sbjct: 340 STTQKLDPSKTVFVGALHGMLNAEGLAKIMNDLFDGVVYTGIDTDKYKYPIGSGRVTFNN 399

Query: 170 TRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRSC 229
            R+Y  A+ AAFIE+K+ +  KK+Q+DPYLED++CS C    GPYFCR+ +C+RYFCR+C
Sbjct: 400 PRSYMKAVAAAFIEIKTSKFSKKVQVDPYLEDSLCSVCGVQQGPYFCRDILCFRYFCRTC 459

Query: 230 WLKVHIGEYSQHDPIVRNVRKSP 252
           W   H      H P+ RN + SP
Sbjct: 460 WQWQHNNGLRHHKPLTRNSKNSP 482

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|390350417|ref|XP_003727407.1| PREDICTED: cytoplasmic polyadenylation element-binding protein 1-B-like [Strongylocentrotus purpuratus]

 Score =  250 bits (639), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 126/266 (47%), Positives = 168/266 (63%), Gaps = 23/266 (8%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G LP +  + +   S K+F+GGVPWD  E  L   F  FG ++VEWP    + P
Sbjct: 294 PTCTWSGQLPPKV-YRNPTYSGKVFLGGVPWDITEAGLQASFKPFGLIRVEWPGKDGKHP 352

Query: 64  TAPKAISLDVISE---LVLILGQWATEGNLCGR----------------VEVVPWAISDS 104
             P    + V+ E    V  L Q  T  ++ GR                V+V+PW +SDS
Sbjct: 353 RYPPKGYVYVLFESEKAVKALLQSCTH-DMSGRGEYYYKITSRRMRSKEVQVIPWVLSDS 411

Query: 105 NYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGR 164
           NY  +  S +L+P KT+FVGALHG L A+ L ++MNDLFG VVYAGIDTDKHKYPIGSGR
Sbjct: 412 NYV-RCPSQRLDPDKTVFVGALHGMLNAEGLAHLMNDLFGGVVYAGIDTDKHKYPIGSGR 470

Query: 165 ITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRY 224
           +TF +T +Y  A+ AAF+E+K+ +  KK+QIDPYLED++C+ C T  GP+FCRE  C++Y
Sbjct: 471 VTFNNTNSYMKAVAAAFVEIKTAKFTKKVQIDPYLEDSLCTLCHTQPGPFFCRETTCFKY 530

Query: 225 FCRSCWLKVH-IGEYSQHDPIVRNVR 249
           FCRSCW   H + + S H P++RN +
Sbjct: 531 FCRSCWFWQHSLSQISDHKPLMRNTK 556

Source: Strongylocentrotus purpuratus

Species: Strongylocentrotus purpuratus

Genus: Strongylocentrotus

Family: Strongylocentrotidae

Order: Echinoida

Class: Echinoidea

Phylum: Echinodermata

Superkingdom: Eukaryota

>gi|328707243|ref|XP_003243340.1| PREDICTED: cytoplasmic polyadenylation element-binding protein 1-like [Acyrthosiphon pisum]

 Score =  248 bits (633), Expect = 5e-63,   Method: Compositional matrix adjust.
 Identities = 131/287 (45%), Positives = 179/287 (62%), Gaps = 22/287 (7%)

Query: 4   PQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
           P  TW G LP +   S    S K+F+GGVPWD  E  L   F QFG VK+EWP GT  + 
Sbjct: 302 PVFTWSGQLP-KIVHSSPNYSCKVFLGGVPWDITEDALSMAFGQFGSVKIEWP-GTSTNI 359

Query: 64  TAPKAISLDVIS--ELVLILGQWATEGN------------LCGR-VEVVPWAISDSNYSP 108
             PK     ++   ++V  L + +T+G+            + G+ V+V+PW I+DSN   
Sbjct: 360 NQPKGYVYVIMQSDQMVKQLLESSTKGSNGNYYFKISSRKMKGKEVQVIPWLINDSN-CV 418

Query: 109 QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFG 168
           +  S KL+P +T+FVGALHG + AQ L+ +M+DLFG+V YAGIDTDK+KYPIGSGR+TF 
Sbjct: 419 KHPSQKLDPTRTVFVGALHGMMNAQGLFRIMDDLFGNVSYAGIDTDKYKYPIGSGRVTFS 478

Query: 169 STRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYFCRS 228
           + ++Y+ A+ A+F+EVK+ + CK +Q+DPYLED+ CS C    GPYFCR+ +CYRY+CR 
Sbjct: 479 TYQSYTKAVAASFVEVKTPKFCKVIQVDPYLEDSACSVCNIQLGPYFCRDQLCYRYYCRG 538

Query: 229 CWLKVHIG-EYSQHDPIVRNVRKSPPSSPSGPHSGGLTLNTLNGFSS 274
           CW   H     S H P++RN + +P S  S P     T    N FSS
Sbjct: 539 CWNWKHTSTTLSTHRPLMRNSKHTPTSISSPPR---FTSPNNNSFSS 582

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195539617|gb|AAI67996.1| cpeb1 protein [Xenopus (Silurana) tropicalis]

 Score =  248 bits (633), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 121/265 (45%), Positives = 167/265 (63%), Gaps = 24/265 (9%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + + S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 296 TWSGQLPPR-NYKNPVYSCKVFLGGVPWDITETGLINTFRVFGALSVEWPGKDGKHPRCP 354

Query: 67  -------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWAISDSN 105
                              +A + D++S+  L     + ++    C  V+V+PW ++DSN
Sbjct: 355 PKGYVYLVFESEKSVRALLQACTQDLLSQDGLSEHYFKMSSRRMRCKEVQVIPWVLADSN 414

Query: 106 YSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRI 165
           +  +  S +L+P KT+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPIGSGR+
Sbjct: 415 FV-RSPSQRLDPSKTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPIGSGRV 473

Query: 166 TFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGICYRYF 225
           TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C    GP+FCR+ +C++YF
Sbjct: 474 TFNNQRSYLKAVSAAFVEIKTAKFTKKVQIDPYLEDSVCQVCNAQPGPFFCRDQVCFKYF 533

Query: 226 CRSCWLKVHIGE-YSQHDPIVRNVR 249
           CRSCW   H  E    H P++RN +
Sbjct: 534 CRSCWHWQHSMEILRHHRPLMRNQK 558

Source: Xenopus (Silurana) tropicalis

Species: Xenopus (Silurana) tropicalis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|213625306|gb|AAI70313.1| Cpeb1 protein [Xenopus laevis]

 Score =  248 bits (632), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 122/270 (45%), Positives = 167/270 (61%), Gaps = 29/270 (10%)

Query: 7   TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
           TW G LP R  + + + S K+F+GGVPWD  E  L+  F  FG + VEWP    + P  P
Sbjct: 296 TWSGQLPPR-NYKNPVYSCKVFLGGVPWDITETGLINTFRVFGALSVEWPGKDGKHPRCP 354

Query: 67  ------------------------KAISLDVISE--LVLILGQWATEGNLCGRVEVVPWA 100
                                   +A S D++S+  L     + ++    C  V+V+PW 
Sbjct: 355 PKGNMPKGYVYLVFESEKSVRALLQACSQDLLSQDGLSEHYFKMSSRRMRCKEVQVIPWV 414

Query: 101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPI 160
           ++DSN+  +  S +L+P KT+FVGALHG L A+AL ++MNDLFG VVYAGIDTDKHKYPI
Sbjct: 415 LADSNFV-RSPSQRLDPSKTVFVGALHGMLNAEALASIMNDLFGGVVYAGIDTDKHKYPI 473

Query: 161 GSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTHSGPYFCREGI 220
           GSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C    GP+FCR+ +
Sbjct: 474 GSGRVTFNNQRSYLKAVSAAFVEIKTAKFTKKVQIDPYLEDSVCQVCNAQPGPFFCRDQV 533

Query: 221 CYRYFCRSCWLKVHIGE-YSQHDPIVRNVR 249
           C++YFCRSCW   H  E    H P++RN +
Sbjct: 534 CFKYFCRSCWHWQHSMEILRHHRPLMRNQK 563

Source: Xenopus laevis

Species: Xenopus laevis

Genus: Xenopus

Family: Pipidae

Order: Anura

Class: Amphibia

Phylum: Chordata

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	534
UNIPROTKB|Q91572	568	cpeb1-a "Cytoplasmic polyadeny	0.292	0.274	0.575	1.6e-63
ZFIN|ZDB-GENE-990927-1	601	cepb1b "cytoplasmic polyadenyl	0.297	0.264	0.565	4.2e-63
UNIPROTKB|F1MSH0	505	CPEB1 "Uncharacterized protein	0.292	0.308	0.569	1.1e-62
UNIPROTKB|G8JLI7	335	CPEB1 "Cytoplasmic polyadenyla	0.292	0.465	0.556	4.8e-62
UNIPROTKB|H3BUA9	588	CPEB1 "Cytoplasmic polyadenyla	0.292	0.265	0.556	4.8e-62
UNIPROTKB|J3KN28	564	CPEB1 "Cytoplasmic polyadenyla	0.292	0.276	0.556	4.8e-62
UNIPROTKB|Q9BZB8	566	CPEB1 "Cytoplasmic polyadenyla	0.292	0.275	0.556	6.1e-62
UNIPROTKB|F1RI92	572	F1RI92 "Uncharacterized protei	0.292	0.272	0.556	6.1e-62
UNIPROTKB|F1RI95	566	CPEB1 "Uncharacterized protein	0.292	0.275	0.556	6.1e-62
UNIPROTKB|F1RI96	574	F1RI96 "Uncharacterized protei	0.292	0.271	0.556	6.1e-62

UNIPROTKB|Q91572 cpeb1-a "Cytoplasmic polyadenylation element-binding protein 1-A" [Xenopus laevis (taxid:8355)]

 Score = 529 (191.3 bits), Expect = 1.6e-63, Sum P(2) = 1.6e-63
 Identities = 91/158 (57%), Positives = 121/158 (76%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P KT+FVGALHG L A+AL ++MNDLFG VVYAG
Sbjct:   405 CKEVQVIPWVLADSNFV-RSPSQRLDPSKTVFVGALHGMLNAEALASIMNDLFGGVVYAG 463

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C   
Sbjct:   464 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTAKFTKKVQIDPYLEDSVCQVCNAQ 523

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGEYSQHD-PIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E  +H  P++RN
Sbjct:   524 PGPFFCRDQVCFKYFCRSCWHWQHSMEILRHHRPLMRN 561

GO:0005515 "protein binding" evidence=IPI

GO:0030529 "ribonucleoprotein complex" evidence=IPI

GO:0043234 "protein complex" evidence=IPI

ZFIN|ZDB-GENE-990927-1 cepb1b "cytoplasmic polyadenylation element binding protein 1b" [Danio rerio (taxid:7955)]

 Score = 520 (188.1 bits), Expect = 4.2e-63, Sum P(2) = 4.2e-63
 Identities = 91/161 (56%), Positives = 119/161 (73%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C   +V+PW ISDSNY     S +L+P  T+FVGALHG L A+AL ++MNDLFG VVYAG
Sbjct:   396 CKDAQVIPWVISDSNYV-SCPSQRLDPRNTVFVGALHGMLNAEALASIMNDLFGGVVYAG 454

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED +C  C   
Sbjct:   455 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTPKFTKKVQIDPYLEDAICQSCSRE 514

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGEY-SQHDPIVRNVRK 250
              GP+FCR+  C++Y+CRSCW + H  +  S H P++RN +K
Sbjct:   515 PGPFFCRDKTCFKYYCRSCWHRQHSMDILSNHRPLMRNQKK 555

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005737 "cytoplasm" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

UNIPROTKB|F1MSH0 CPEB1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 521 (188.5 bits), Expect = 1.1e-62, Sum P(2) = 1.1e-62
 Identities = 90/158 (56%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  Q  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   342 CKEVQVIPWVLADSNFV-QSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 400

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED+VC  C + 
Sbjct:   401 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSVCHICSSQ 460

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   461 PGPFFCRDQVCFKYFCRSCWHWRHSMEGLRHHSPLMRN 498

GO:0048168 "regulation of neuronal synaptic plasticity" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0007130 "synaptonemal complex assembly" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

GO:0003729 "mRNA binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|G8JLI7 CPEB1 "Cytoplasmic polyadenylation element-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 514 (186.0 bits), Expect = 4.8e-62, Sum P(2) = 4.8e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   172 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 230

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   231 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 290

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   291 PGPFFCRDQVCFKYFCRSCWHWRHSMEGLRHHSPLMRN 328

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|H3BUA9 CPEB1 "Cytoplasmic polyadenylation element-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 514 (186.0 bits), Expect = 4.8e-62, Sum P(2) = 4.8e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   425 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 483

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   484 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 543

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   544 PGPFFCRDQVCFKYFCRSCWHWRHSMEGLRHHSPLMRN 581

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|J3KN28 CPEB1 "Cytoplasmic polyadenylation element-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 514 (186.0 bits), Expect = 4.8e-62, Sum P(2) = 4.8e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   401 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 459

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   460 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 519

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   520 PGPFFCRDQVCFKYFCRSCWHWRHSMEGLRHHSPLMRN 557

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q9BZB8 CPEB1 "Cytoplasmic polyadenylation element-binding protein 1" [Homo sapiens (taxid:9606)]

 Score = 514 (186.0 bits), Expect = 6.1e-62, Sum P(2) = 6.1e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   403 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 461

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   462 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 521

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   522 PGPFFCRDQVCFKYFCRSCWHWRHSMEGLRHHSPLMRN 559

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0006417 "regulation of translation" evidence=IEA

GO:0030054 "cell junction" evidence=IEA

GO:0045211 "postsynaptic membrane" evidence=IEA

GO:0000932 "cytoplasmic mRNA processing body" evidence=IEA

GO:0014069 "postsynaptic density" evidence=IEA

UNIPROTKB|F1RI92 F1RI92 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 514 (186.0 bits), Expect = 6.1e-62, Sum P(2) = 6.1e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   409 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 467

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   468 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 527

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   528 PGPFFCRDQVCFKYFCRSCWHWRHSVEGLRHHSPLMRN 565

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RI95 CPEB1 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 514 (186.0 bits), Expect = 6.1e-62, Sum P(2) = 6.1e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   403 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 461

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   462 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 521

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   522 PGPFFCRDQVCFKYFCRSCWHWRHSVEGLRHHSPLMRN 559

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RI96 F1RI96 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 514 (186.0 bits), Expect = 6.1e-62, Sum P(2) = 6.1e-62
 Identities = 88/158 (55%), Positives = 120/158 (75%)

Query:    91 CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG 150
             C  V+V+PW ++DSN+  +  S +L+P +T+FVGALHG L A+AL  ++NDLFG VVYAG
Sbjct:   411 CKEVQVIPWVLADSNFV-RSPSQRLDPSRTVFVGALHGMLNAEALAAILNDLFGGVVYAG 469

Query:   151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYLEDNVCSECQTH 210
             IDTDKHKYPIGSGR+TF + R+Y  A+ AAF+E+K+ +  KK+QIDPYLED++C  C + 
Sbjct:   470 IDTDKHKYPIGSGRVTFNNQRSYLKAVSAAFVEIKTTKFTKKVQIDPYLEDSLCHICSSQ 529

Query:   211 SGPYFCREGICYRYFCRSCWLKVHIGE-YSQHDPIVRN 247
              GP+FCR+ +C++YFCRSCW   H  E    H P++RN
Sbjct:   530 PGPFFCRDQVCFKYFCRSCWHWRHSVEGLRHHSPLMRN 567

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	534
cd12725	86	cd12725, RRM2_CPEB1, RNA recognition motif 2 in cy	2e-46
cd12445	81	cd12445, RRM2_CPEBs, RNA recognition motif 2 in cy	6e-22
cd12726	81	cd12726, RRM2_CPEB2_like, RNA recognition motif 2	3e-20
cd12723	100	cd12723, RRM1_CPEB1, RNA recognition motif 1 in cy	9e-13
cd12444	112	cd12444, RRM1_CPEBs, RNA recognition motif 1 in cy	5e-07
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	1e-06
smart00360	73	smart00360, RRM, RNA recognition motif	5e-06
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	6e-06
cd12723	100	cd12723, RRM1_CPEB1, RNA recognition motif 1 in cy	2e-05
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	2e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	6e-05
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	7e-05
smart00360	73	smart00360, RRM, RNA recognition motif	8e-05
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	1e-04
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	2e-04
cd12673	81	cd12673, RRM_BOULE, RNA recognition motif in prote	2e-04
cd12329	75	cd12329, RRM2_hnRNPD_like, RNA recognition motif 2	4e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	5e-04
cd12724	92	cd12724, RRM1_CPEB2_like, RNA recognition motif 1	5e-04
cd12329	75	cd12329, RRM2_hnRNPD_like, RNA recognition motif 2	7e-04
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	8e-04
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.001
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	0.002
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	0.002
cd12327	80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	0.002
cd12444	112	cd12444, RRM1_CPEBs, RNA recognition motif 1 in cy	0.004
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	0.004

>gnl|CDD|241169 cd12725, RRM2_CPEB1, RNA recognition motif 2 in cytoplasmic polyadenylation element-binding protein 1 (CPEB-1) and similar proteins

 Score =  156 bits (396), Expect = 2e-46
 Identities = 58/86 (67%), Positives = 74/86 (86%)

Query: 116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSD 175
           +P KT+FVGALHG L A+AL ++MNDLFG VVYAGIDTDK+KYPIGSGR+TF + R+Y  
Sbjct: 1   DPSKTVFVGALHGMLNAEALAHIMNDLFGGVVYAGIDTDKYKYPIGSGRVTFNNQRSYMK 60

Query: 176 AIRAAFIEVKSGRICKKLQIDPYLED 201
           A++AAF+E+K+ +  KK+QIDPYLED
Sbjct: 61  AVKAAFVEIKTPKFTKKVQIDPYLED 86

This subgroup corresponds to the RRM2 of CPEB-1 (also termed CPE-BP1 or CEBP), an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. CPEB-1 contains an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. Both of the RRMs and the Zn finger are required for CPEB-1 to bind CPE. The N-terminal regulatory region may be responsible for CPEB-1 interacting with other proteins. . Length = 86

>gnl|CDD|240891 cd12445, RRM2_CPEBs, RNA recognition motif 2 in cytoplasmic polyadenylation element-binding protein CPEB-1, CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 89.3 bits (222), Expect = 6e-22
 Identities = 32/81 (39%), Positives = 48/81 (59%), Gaps = 1/81 (1%)

Query: 119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHK-YPIGSGRITFGSTRAYSDAI 177
           +T+FVG L   LTA  L  ++  L+G V Y  IDTD+   YP G  R+TF + ++Y  A+
Sbjct: 1   RTVFVGGLPLPLTAAELAAILERLYGGVCYVEIDTDEFYLYPTGCARVTFNNEQSYIKAV 60

Query: 178 RAAFIEVKSGRICKKLQIDPY 198
              F+E+    I K+++I PY
Sbjct: 61  SEVFVELPFNDINKRVRIRPY 81

This subfamily corresponds to the RRM2 of CPEB family of proteins that bind to defined groups of mRNAs and act as either translational repressors or activators to regulate their translation. CPEB proteins are well conserved in both, vertebrates and invertebrates. Based on sequence similarity, RNA-binding specificity, and functional regulation of translation, the CPEB proteins has been classified into two subfamilies. The first subfamily includes CPEB-1 and related proteins. CPEB-1 is an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. The second subfamily includes CPEB-2, CPEB-3, CPEB-4, and related protiens. Due to the high sequence similarity, members in this subfamily may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. Moreover, CPEB-2 impedes target RNA translation at elongation. It directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All CPEB proteins are nucleus-cytoplasm shuttling proteins. They contain an N-terminal unstructured region, followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. CPEB-2, -3, and -4 have conserved nuclear export signals that are not present in CPEB-1. . Length = 81

>gnl|CDD|241170 cd12726, RRM2_CPEB2_like, RNA recognition motif 2 found in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 84.5 bits (209), Expect = 3e-20
 Identities = 37/81 (45%), Positives = 55/81 (67%), Gaps = 1/81 (1%)

Query: 119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTD-KHKYPIGSGRITFGSTRAYSDAI 177
           KTIFVG +   L A  L  +M+ L+G V YAGIDTD + KYP G+GR+ F + ++Y  AI
Sbjct: 1   KTIFVGGVPRPLRAVELAMIMDRLYGGVCYAGIDTDPELKYPKGAGRVAFSNQQSYIAAI 60

Query: 178 RAAFIEVKSGRICKKLQIDPY 198
            A F++++ G I K++++ PY
Sbjct: 61  SARFVQLQHGDIDKRVEVKPY 81

This subgroup corresponds to the RRM2 of the paralog proteins CPEB-2, CPEB-3 and CPEB-4, all well conserved in both, vertebrates and invertebrates. Due to the high sequence similarity, members in this family may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. Moreover, CPEB-2 impedes target RNA translation at elongation; it directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All family members contain an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. In addition, they do have conserved nuclear export signals that are not present in CPEB-1. . Length = 81

>gnl|CDD|241167 cd12723, RRM1_CPEB1, RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein 1 (CPEB-1) and similar proteins

 Score = 64.0 bits (156), Expect = 9e-13
 Identities = 36/100 (36%), Positives = 45/100 (45%), Gaps = 18/100 (18%)

Query: 23  LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISEL---VL 79
            S K+F+GGVPWD  E  L+  F  FG V VEWP    + P  P    + +I E    V 
Sbjct: 1   YSCKVFLGGVPWDITEAGLINTFKPFGSVSVEWPGKDGKHPRHPPKGYVYLIFESEKSVK 60

Query: 80  ILGQWATEGNLCGR---------------VEVVPWAISDS 104
            L Q  T   L G                V+V+PW +SDS
Sbjct: 61  ALLQACTHDFLNGGEYYFKISSRRMRSKEVQVIPWVLSDS 100

This subgroup corresponds to the RRM2 of CPEB-1 (also termed CPE-BP1 or CEBP), an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. CPEB-1 contains an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. Both of the RRMs and the Zn finger are required for CPEB-1 to bind CPE. The N-terminal regulatory region may be responsible for CPEB-1 interacting with other proteins. . Length = 100

>gnl|CDD|240890 cd12444, RRM1_CPEBs, RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-1, CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 48.0 bits (114), Expect = 5e-07
 Identities = 16/41 (39%), Positives = 25/41 (60%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAP 66
          K+F+GG+PWD  E  +L  F +FG ++V+WP    E  +  
Sbjct: 2  KVFVGGLPWDITEADILNSFRRFGSLQVDWPGKHYECKSDS 42

This subfamily corresponds to the RRM1 of the CPEB family of proteins that bind to defined groups of mRNAs and act as either translational repressors or activators to regulate their translation. CPEB proteins are well conserved in both, vertebrates and invertebrates. Based on sequence similarity, RNA-binding specificity, and functional regulation of translation, the CPEB proteins have been classified into two subfamilies. The first subfamily includes CPEB-1 and related proteins. CPEB-1 is an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bind to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. The second subfamily includes CPEB-2, CPEB-3, CPEB-4, and related protiens. Due to high sequence similarity, members in this subfamily may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. CPEB-2 impedes target RNA translation at elongation; it directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All CPEB proteins are nucleus-cytoplasm shuttling proteins. They contain an N-terminal unstructured region, followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. CPEB-2, -3, and -4 have conserved nuclear export signals that are not present in CPEB-1. . Length = 112

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

 Score = 45.7 bits (109), Expect = 1e-06
 Identities = 16/31 (51%), Positives = 22/31 (70%), Gaps = 1/31 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPV-KAVV 522
           KIF+GG+P+ T +  L   FSQFG + +AVV
Sbjct: 2   KIFVGGLPYHTTDDSLRKYFSQFGEIEEAVV 32

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

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

 Score = 44.1 bits (105), Expect = 5e-06
 Identities = 14/33 (42%), Positives = 22/33 (66%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            +F+G +P DT E  L  +FS+FG V++V + R
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVR 33

Length = 73

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

 Score = 43.8 bits (104), Expect = 6e-06
 Identities = 13/26 (50%), Positives = 18/26 (69%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          KIF+GG+P+ T +  L   FSQFG +
Sbjct: 2  KIFVGGLPYHTTDDSLRKYFSQFGEI 27

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

>gnl|CDD|241167 cd12723, RRM1_CPEB1, RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein 1 (CPEB-1) and similar proteins

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 15/30 (50%), Positives = 18/30 (60%)

Query: 490 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
            S K+F+GGVPWD  E  L+  F  FG V 
Sbjct: 1   YSCKVFLGGVPWDITEAGLINTFKPFGSVS 30

This subgroup corresponds to the RRM2 of CPEB-1 (also termed CPE-BP1 or CEBP), an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bound to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. CPEB-1 contains an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. Both of the RRMs and the Zn finger are required for CPEB-1 to bind CPE. The N-terminal regulatory region may be responsible for CPEB-1 interacting with other proteins. . Length = 100

>gnl|CDD|240858 cd12412, RRM_DAZL_BOULE, RNA recognition motif in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 20/40 (50%), Positives = 27/40 (67%), Gaps = 2/40 (5%)

Query: 492 NKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRAEMS 529
           N+IF+GG+P DT E  L   FS+FG VK V  + +RA +S
Sbjct: 3   NRIFVGGIPPDTTEEELRDFFSRFGSVKDVKIITDRAGVS 42

This subfamily corresponds to the RRM domain of two Deleted in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE. BOULE is the founder member of the family and DAZL arose from BOULE in an ancestor of vertebrates. The DAZ gene subsequently originated from a duplication transposition of the DAZL gene. Invertebrates contain a single DAZ homolog, BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. The family members encode closely related RNA-binding proteins that are required for fertility in numerous organisms. These proteins contain an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a varying number of copies of a DAZ motif, believed to mediate protein-protein interactions. DAZL and BOULE contain a single copy of the DAZ motif, while DAZ proteins can contain 8-24 copies of this repeat. Although their specific biochemical functions remain to be investigated, DAZL proteins may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 80

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

 Score = 41.1 bits (97), Expect = 6e-05
 Identities = 13/32 (40%), Positives = 22/32 (68%)

Query: 494 IFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           +F+G +P DT E  L  +FS+FG +++V + R
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVR 32

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|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 40.7 bits (96), Expect = 7e-05
 Identities = 12/30 (40%), Positives = 22/30 (73%)

Query: 494 IFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           +F+G +P DT E  L  +FS+FGP++++ +
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRI 30

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

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

 Score = 40.7 bits (96), Expect = 8e-05
 Identities = 12/27 (44%), Positives = 18/27 (66%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVK 52
           +F+G +P DT E  L  +FS+FG V+
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKVE 27

Length = 73

>gnl|CDD|240895 cd12449, RRM_CIRBP_RBM3, RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 15/31 (48%), Positives = 22/31 (70%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           K+FIGG+ +DT E  L  VFS++G +  VV+
Sbjct: 2   KLFIGGLSFDTNEQSLEQVFSKYGQISEVVV 32

This subfamily corresponds to the RRM domain of two structurally related heterogenous nuclear ribonucleoproteins, CIRBP (also termed CIRP or A18 hnRNP) and RBM3 (also termed RNPL), both of which belong to a highly conserved cold shock proteins family. The cold shock proteins can be induced after exposure to a moderate cold-shock and other cellular stresses such as UV radiation and hypoxia. CIRBP and RBM3 may function in posttranscriptional regulation of gene expression by binding to different transcripts, thus allowing the cell to response rapidly to environmental signals. However, the kinetics and degree of cold induction are different between CIRBP and RBM3. Tissue distribution of their expression is different. CIRBP and RBM3 may be differentially regulated under physiological and stress conditions and may play distinct roles in cold responses of cells. CIRBP, also termed glycine-rich RNA-binding protein CIRP, is localized in the nucleus and mediates the cold-induced suppression of cell cycle progression. CIRBP also binds DNA and possibly serves as a chaperone that assists in the folding/unfolding, assembly/disassembly and transport of various proteins. RBM3 may enhance global protein synthesis and the formation of active polysomes while reducing the levels of ribonucleoprotein complexes containing microRNAs. RBM3 may also serve to prevent the loss of muscle mass by its ability to decrease cell death. Furthermore, RBM3 may be essential for cell proliferation and mitosis. Both, CIRBP and RBM3, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), that is involved in RNA binding, and C-terminal glycine-rich domain (RGG motif) that probably enhances RNA-binding via protein-protein and/or protein-RNA interactions. Like CIRBP, RBM3 can also bind to both RNA and DNA via its RRM domain. . Length = 80

>gnl|CDD|240858 cd12412, RRM_DAZL_BOULE, RNA recognition motif in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE

 Score = 39.6 bits (93), Expect = 2e-04
 Identities = 16/28 (57%), Positives = 20/28 (71%)

Query: 25 NKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          N+IF+GG+P DT E  L   FS+FG VK
Sbjct: 3  NRIFVGGIPPDTTEEELRDFFSRFGSVK 30

This subfamily corresponds to the RRM domain of two Deleted in AZoospermia (DAZ) autosomal homologs, DAZL (DAZ-like) and BOULE. BOULE is the founder member of the family and DAZL arose from BOULE in an ancestor of vertebrates. The DAZ gene subsequently originated from a duplication transposition of the DAZL gene. Invertebrates contain a single DAZ homolog, BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. The family members encode closely related RNA-binding proteins that are required for fertility in numerous organisms. These proteins contain an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a varying number of copies of a DAZ motif, believed to mediate protein-protein interactions. DAZL and BOULE contain a single copy of the DAZ motif, while DAZ proteins can contain 8-24 copies of this repeat. Although their specific biochemical functions remain to be investigated, DAZL proteins may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 80

>gnl|CDD|241117 cd12673, RRM_BOULE, RNA recognition motif in protein BOULE

 Score = 40.2 bits (94), Expect = 2e-04
 Identities = 19/40 (47%), Positives = 26/40 (65%), Gaps = 2/40 (5%)

Query: 492 NKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRAEMS 529
           N+IF+GG+ + T E  L   FSQ+G VK V  V +RA +S
Sbjct: 3   NRIFVGGIDFKTNENDLRKFFSQYGTVKEVKIVNDRAGVS 42

This subgroup corresponds to the RRM of BOULE, the founder member of the human DAZ gene family. Invertebrates contain a single BOULE, while vertebrates, other than catarrhine primates, possess both BOULE and DAZL genes. The catarrhine primates possess BOULE, DAZL, and DAZ genes. BOULE encodes an RNA-binding protein containing an RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a single copy of the DAZ motif. Although its specific biochemical functions remains to be investigated, BOULE protein may interact with poly(A)-binding proteins (PABPs), and act as translational activators of specific mRNAs during gametogenesis. . Length = 81

>gnl|CDD|240775 cd12329, RRM2_hnRNPD_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 38.5 bits (90), Expect = 4e-04
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           KIF+GG+  +T E  +   F +FG +  + +
Sbjct: 1   KIFVGGLSPETTEEKIREYFGKFGNIVEIEL 31

This subfamily corresponds to the RRM2 of hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0, a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. It has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All memembers in this family contain two putative RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 75

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

 Score = 38.3 bits (90), Expect = 5e-04
 Identities = 12/26 (46%), Positives = 19/26 (73%)

Query: 27 IFIGGVPWDTPEYLLLTVFSQFGPVK 52
          +F+G +P DT E  L  +FS+FGP++
Sbjct: 1  LFVGNLPPDTTEEDLKDLFSKFGPIE 26

(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|241168 cd12724, RRM1_CPEB2_like, RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 39.0 bits (91), Expect = 5e-04
 Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 1/37 (2%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES 62
          K+F+GG+P D  E  +   F +FGP+ V+WP    ES
Sbjct: 2  KVFVGGLPPDIDEDEITASFRRFGPLVVDWPH-KAES 37

This subgroup corresponds to the RRM1 of the paralog proteins CPEB-2, CPEB-3 and CPEB-4, all well-conserved in both, vertebrates and invertebrates. Due to the high sequence similarity, members in this family may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. Moreover, CPEB-2 impedes target RNA translation at elongation; it directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All family members contain an N-terminal unstructured region, two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. In addition, they do have conserved nuclear export signals that are not present in CPEB-1. . Length = 92

>gnl|CDD|240775 cd12329, RRM2_hnRNPD_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 38.1 bits (89), Expect = 7e-04
 Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVK-VEWP 56
          KIF+GG+  +T E  +   F +FG +  +E P
Sbjct: 1  KIFVGGLSPETTEEKIREYFGKFGNIVEIELP 32

This subfamily corresponds to the RRM2 of hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0, a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. It has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All memembers in this family contain two putative RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glycine- and tyrosine-rich C-terminus. . Length = 75

>gnl|CDD|240771 cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP A and hnRNP D subfamilies and similar proteins

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 15/31 (48%), Positives = 20/31 (64%), Gaps = 1/31 (3%)

Query: 494 IFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           +FIGG+ WDT E  L   FS++G V   V+M
Sbjct: 1   LFIGGLSWDTTEESLREYFSKYGEVVDCVIM 31

This subfamily corresponds to the RRM1 in the hnRNP A subfamily which includes hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The hnRNP D subfamily includes hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus, plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this subfamily contain two putative RRMs and a glycine- and tyrosine-rich C-terminus. The family also contains DAZAP1 (Deleted in azoospermia-associated protein 1), RNA-binding protein Musashi homolog Musashi-1, Musashi-2 and similar proteins. They all harbor two RRMs. . Length = 72

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

 Score = 37.3 bits (87), Expect = 0.001
 Identities = 11/26 (42%), Positives = 18/26 (69%)

Query: 27 IFIGGVPWDTPEYLLLTVFSQFGPVK 52
          +F+G +P DT E  L  +FS+FG ++
Sbjct: 1  LFVGNLPPDTTEEDLRELFSKFGEIE 26

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

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 4/59 (6%)

Query: 121 IFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA 179
           +FVG L    T + L  + +  FG++    I  DK     G   + F S     DA +A
Sbjct: 1   LFVGNLPPDTTEEDLRELFSK-FGEIESVRIVRDKDGKSKGFAFVEFES---PEDAEKA 55

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|240895 cd12449, RRM_CIRBP_RBM3, RNA recognition motif in cold inducible RNA binding protein (CIRBP), RNA binding motif protein 3 (RBM3) and similar proteins

 Score = 37.1 bits (86), Expect = 0.002
 Identities = 13/26 (50%), Positives = 19/26 (73%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          K+FIGG+ +DT E  L  VFS++G +
Sbjct: 2  KLFIGGLSFDTNEQSLEQVFSKYGQI 27

This subfamily corresponds to the RRM domain of two structurally related heterogenous nuclear ribonucleoproteins, CIRBP (also termed CIRP or A18 hnRNP) and RBM3 (also termed RNPL), both of which belong to a highly conserved cold shock proteins family. The cold shock proteins can be induced after exposure to a moderate cold-shock and other cellular stresses such as UV radiation and hypoxia. CIRBP and RBM3 may function in posttranscriptional regulation of gene expression by binding to different transcripts, thus allowing the cell to response rapidly to environmental signals. However, the kinetics and degree of cold induction are different between CIRBP and RBM3. Tissue distribution of their expression is different. CIRBP and RBM3 may be differentially regulated under physiological and stress conditions and may play distinct roles in cold responses of cells. CIRBP, also termed glycine-rich RNA-binding protein CIRP, is localized in the nucleus and mediates the cold-induced suppression of cell cycle progression. CIRBP also binds DNA and possibly serves as a chaperone that assists in the folding/unfolding, assembly/disassembly and transport of various proteins. RBM3 may enhance global protein synthesis and the formation of active polysomes while reducing the levels of ribonucleoprotein complexes containing microRNAs. RBM3 may also serve to prevent the loss of muscle mass by its ability to decrease cell death. Furthermore, RBM3 may be essential for cell proliferation and mitosis. Both, CIRBP and RBM3, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), that is involved in RNA binding, and C-terminal glycine-rich domain (RGG motif) that probably enhances RNA-binding via protein-protein and/or protein-RNA interactions. Like CIRBP, RBM3 can also bind to both RNA and DNA via its RRM domain. . Length = 80

>gnl|CDD|240773 cd12327, RRM2_DAZAP1, RNA recognition motif 2 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins

 Score = 37.0 bits (86), Expect = 0.002
 Identities = 16/33 (48%), Positives = 21/33 (63%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           + KIF+GG+P +  E  L   FSQFG V  VV+
Sbjct: 2   TKKIFVGGLPPNVTETDLRKYFSQFGTVTEVVV 34

This subfamily corresponds to the RRM2 of DAZAP1 or DAZ-associated protein 1, also termed proline-rich RNA binding protein (Prrp), a multi-functional ubiquitous RNA-binding protein expressed most abundantly in the testis and essential for normal cell growth, development, and spermatogenesis. DAZAP1 is a shuttling protein whose acetylated is predominantly nuclear and the nonacetylated form is in cytoplasm. DAZAP1 also functions as a translational regulator that activates translation in an mRNA-specific manner. DAZAP1 was initially identified as a binding partner of Deleted in Azoospermia (DAZ). It also interacts with numerous hnRNPs, including hnRNP U, hnRNP U like-1, hnRNPA1, hnRNPA/B, and hnRNP D, suggesting DAZAP1 might associate and cooperate with hnRNP particles to regulate adenylate-uridylate-rich elements (AU-rich element or ARE)-containing mRNAs. DAZAP1 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal proline-rich domain. . Length = 80

>gnl|CDD|240890 cd12444, RRM1_CPEBs, RNA recognition motif 1 in cytoplasmic polyadenylation element-binding protein CPEB-1, CPEB-2, CPEB-3, CPEB-4 and similar protiens

 Score = 36.9 bits (85), Expect = 0.004
 Identities = 12/25 (48%), Positives = 17/25 (68%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGP 517
           K+F+GG+PWD  E  +L  F +FG 
Sbjct: 2   KVFVGGLPWDITEADILNSFRRFGS 26

This subfamily corresponds to the RRM1 of the CPEB family of proteins that bind to defined groups of mRNAs and act as either translational repressors or activators to regulate their translation. CPEB proteins are well conserved in both, vertebrates and invertebrates. Based on sequence similarity, RNA-binding specificity, and functional regulation of translation, the CPEB proteins have been classified into two subfamilies. The first subfamily includes CPEB-1 and related proteins. CPEB-1 is an RNA-binding protein that interacts with the cytoplasmic polyadenylation element (CPE), a short U-rich motif in the 3' untranslated regions (UTRs) of certain mRNAs. It functions as a translational regulator that plays a major role in the control of maternal CPE-containing mRNA in oocytes, as well as of subsynaptic CPE-containing mRNA in neurons. Once phosphorylated and recruiting the polyadenylation complex, CPEB-1 may function as a translational activator stimulating polyadenylation and translation. Otherwise, it may function as a translational inhibitor when dephosphorylated and bind to a protein such as maskin or neuroguidin, which blocks translation initiation through interfering with the assembly of eIF-4E and eIF-4G. Although CPEB-1 is mainly located in cytoplasm, it can shuttle between nucleus and cytoplasm. The second subfamily includes CPEB-2, CPEB-3, CPEB-4, and related protiens. Due to high sequence similarity, members in this subfamily may share similar expression patterns and functions. CPEB-2 is an RNA-binding protein that is abundantly expressed in testis and localized in cytoplasm in transfected HeLa cells. It preferentially binds to poly(U) RNA oligomers and may regulate the translation of stored mRNAs during spermiogenesis. CPEB-2 impedes target RNA translation at elongation; it directly interacts with the elongation factor, eEF2, to reduce eEF2/ribosome-activated GTP hydrolysis in vitro and inhibit peptide elongation of CPEB2-bound RNA in vivo. CPEB-3 is a sequence-specific translational regulatory protein that regulates translation in a polyadenylation-independent manner. It functions as a translational repressor that governs the synthesis of the AMPA receptor GluR2 through binding GluR2 mRNA. It also represses translation of a reporter RNA in transfected neurons and stimulates translation in response to NMDA. CPEB-4 is an RNA-binding protein that mediates meiotic mRNA cytoplasmic polyadenylation and translation. It is essential for neuron survival and present on the endoplasmic reticulum (ER). It is accumulated in the nucleus upon ischemia or the depletion of ER calcium. CPEB-4 is overexpressed in a large variety of tumors and is associated with many mRNAs in cancer cells. All CPEB proteins are nucleus-cytoplasm shuttling proteins. They contain an N-terminal unstructured region, followed by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a Zn-finger motif. CPEB-2, -3, and -4 have conserved nuclear export signals that are not present in CPEB-1. . Length = 112

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

 Score = 35.7 bits (83), Expect = 0.004
 Identities = 11/30 (36%), Positives = 20/30 (66%)

Query: 494 IFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           +F+G +P+D  E  L+ +FS+ GPV +  +
Sbjct: 1   VFVGNIPYDATEEQLIEIFSEVGPVVSFRL 30

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	534
KOG0129|consensus	520		100.0
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.95
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.92
KOG0144|consensus	510		99.92
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.92
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.91
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.91
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.9
KOG4205|consensus	311		99.89
KOG0117|consensus	506		99.88
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.87
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.87
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.86
KOG0148|consensus	321		99.84
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.83
KOG0109|consensus	346		99.81
KOG0145|consensus	360		99.81
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.8
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.79
KOG0127|consensus	678		99.78
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.78
KOG0131|consensus	203		99.78
KOG0124|consensus	544		99.76
KOG0117|consensus	506		99.75
KOG0127|consensus	678		99.74
KOG0145|consensus	360		99.72
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.7
KOG0123|consensus	369		99.7
KOG0147|consensus	549		99.7
KOG0123|consensus	369		99.66
KOG0129|consensus	520		99.63
KOG0148|consensus	321		99.61
KOG0146|consensus	371		99.58
KOG0144|consensus	510		99.52
KOG0149|consensus	247		99.5
KOG0110|consensus	725		99.46
KOG0105|consensus	241		99.43
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.41
KOG4211|consensus	510		99.41
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.41
KOG0149|consensus	247		99.4
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.36
KOG4212|consensus	608		99.31
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.27
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.24
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.19
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.13
PLN03120	260	nucleic acid binding protein; Provisional	99.1
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.09
smart00362	72	RRM_2 RNA recognition motif.	99.06
KOG0125|consensus	376		99.06
PLN03121	243	nucleic acid binding protein; Provisional	99.02
KOG4206|consensus	221		99.01
KOG0113|consensus	335		99.0
KOG0113|consensus	335		99.0
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.0
KOG0110|consensus	725		98.98
KOG0121|consensus	153		98.97
smart00362	72	RRM_2 RNA recognition motif.	98.97
KOG0106|consensus	216		98.97
PLN03120	260	nucleic acid binding protein; Provisional	98.97
KOG0122|consensus	270		98.96
smart00360	71	RRM RNA recognition motif.	98.95
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.94
smart00360	71	RRM RNA recognition motif.	98.92
KOG0125|consensus	376		98.86
PLN03121	243	nucleic acid binding protein; Provisional	98.85
KOG0147|consensus	549		98.85
KOG0107|consensus	195		98.81
KOG4207|consensus	256		98.8
PLN03213	759	repressor of silencing 3; Provisional	98.79
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.78
KOG0122|consensus	270		98.76
KOG0126|consensus	219		98.75
KOG1457|consensus	284		98.75
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.75
KOG0126|consensus	219		98.74
KOG4205|consensus	311		98.72
KOG0107|consensus	195		98.72
PLN03213	759	repressor of silencing 3; Provisional	98.71
KOG4454|consensus	267		98.69
KOG4210|consensus	285		98.69
KOG0128|consensus	881		98.68
KOG0146|consensus	371		98.65
KOG0108|consensus	435		98.62
KOG4207|consensus	256		98.58
KOG4212|consensus	608		98.55
KOG0121|consensus	153		98.54
KOG0108|consensus	435		98.53
KOG0131|consensus	203		98.53
KOG0111|consensus	298		98.47
KOG0114|consensus	124		98.46
KOG1365|consensus	508		98.46
KOG1548|consensus	382		98.46
KOG0132|consensus	894		98.43
smart00361	70	RRM_1 RNA recognition motif.	98.43
KOG0130|consensus	170		98.42
KOG0120|consensus	500		98.4
KOG0111|consensus	298		98.39
KOG0109|consensus	346		98.37
KOG0114|consensus	124		98.36
KOG0226|consensus	290		98.3
smart00361	70	RRM_1 RNA recognition motif.	98.29
KOG0105|consensus	241		98.25
KOG0120|consensus	500		98.22
KOG0112|consensus	975		98.2
KOG4211|consensus	510		98.16
KOG0132|consensus	894		98.11
KOG0130|consensus	170		98.11
KOG0124|consensus	544		98.03
KOG0415|consensus	479		97.95
KOG0116|consensus	419		97.93
KOG1190|consensus	492		97.92
KOG4208|consensus	214		97.92
KOG0153|consensus	377		97.87
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	97.86
KOG0116|consensus	419		97.84
KOG4209|consensus	231		97.81
KOG4208|consensus	214		97.74
KOG4206|consensus	221		97.73
KOG0415|consensus	479		97.7
KOG0153|consensus	377		97.7
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	97.65
KOG0533|consensus	243		97.61
KOG1365|consensus	508		97.54
KOG4661|consensus	940		97.54
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.51
KOG1190|consensus	492		97.51
KOG4660|consensus	549		97.49
KOG0226|consensus	290		97.48
KOG4209|consensus	231		97.44
KOG4454|consensus	267		97.43
KOG4307|consensus	944		97.25
KOG4661|consensus	940		97.24
KOG1457|consensus	284		97.12
KOG0533|consensus	243		97.1
KOG1456|consensus	494		97.09
KOG0128|consensus	881		97.04
KOG1456|consensus	494		96.8
KOG4660|consensus	549		96.75
KOG0151|consensus	877		96.53
KOG0151|consensus	877		96.5
KOG0106|consensus	216		96.45
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.43
KOG1548|consensus	382		96.18
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.77
KOG4210|consensus	285		95.76
KOG4849|consensus	498		95.66
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	95.18
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	95.13
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	95.1
KOG4676|consensus	479		94.87
KOG1855|consensus	484		94.66
KOG1995|consensus	351		94.63
KOG1995|consensus	351		92.98
KOG1855|consensus	484		92.79
KOG4849|consensus	498		92.49
KOG0115|consensus	275		92.49
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.91
KOG2193|consensus	584		91.36
KOG2314|consensus	698		91.26
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	91.23
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	89.13
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	89.09
COG5175	480	MOT2 Transcriptional repressor [Transcription]	87.83
KOG3152|consensus	278		87.71
KOG0115|consensus	275		85.31
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	85.1
KOG0112|consensus	975		84.27
KOG2314|consensus	698		83.44
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	82.39
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	82.34
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	81.74
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	81.3
KOG4307|consensus	944		81.12

>KOG0129|consensus

Probab=100.00  E-value=4.8e-61  Score=506.61  Aligned_cols=245  Identities=41%  Similarity=0.839  Sum_probs=231.5

Q ss_pred             cccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCC-CCCCc---EEEEEe-hH-HHHH
Q psy3698           7 TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP-TAPKA---ISLDVI-SE-LVLI   80 (534)
Q Consensus         7 tWsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg-~rsRG---YAFVtF-sE-sAea   80 (534)
                      ||+|.+|++. +..+++++|||||+|||+|+|++|...|..||.|.+.|+.+....+ ..++|   |+|+.| .| +|++
T Consensus       243 ~~~~~~~~~~-~~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~  321 (520)
T KOG0129|consen  243 TWSGSLPPRG-YRSPRYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQS  321 (520)
T ss_pred             hhccccCCCC-CCccccccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHH
Confidence            8999999999 9999999999999999999999999999999999999997654322 24678   999999 88 9999


Q ss_pred             HHhh------------cCCCCccccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEE
Q psy3698          81 LGQW------------ATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY  148 (534)
Q Consensus        81 ALq~------------ssr~i~~k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~  148 (534)
                      +|.+            +.++++.+.||++||.+.|.+|+. ..++.+|+++|||||+||..+|+++|+.+|++.||.|++
T Consensus       322 Ll~aC~~~~~~~yf~vss~~~k~k~VQIrPW~laDs~fv~-d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~y  400 (520)
T KOG0129|consen  322 LLSACSEGEGNYYFKVSSPTIKDKEVQIRPWVLADSDFVL-DHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLY  400 (520)
T ss_pred             HHHHHhhcccceEEEEecCcccccceeEEeeEeccchhhh-ccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEE
Confidence            9987            678899999999999999999998 689999999999999999999999999999889999999


Q ss_pred             EEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeecccc-ccccccccCC-----CCccccCCCCcc
Q psy3698         149 AGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPYL-EDNVCSECQT-----HSGPYFCREGIC  221 (534)
Q Consensus       149 V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIkPyL-eDq~CdeC~~-----~~g~YfC~~~~C  221 (534)
                      |.|++|+ .|||||.|+|+|++.+++.+||.++||+|.+.++.||||||||+ |||+|+||++     +.+||||+++.|
T Consensus       401 aGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~KRVEIkPYv~eDq~CdeC~g~~c~~q~aPfFC~n~~C  480 (520)
T KOG0129|consen  401 VGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDKRVEIKPYVMEDQLCDECGGRRCGGQFAPFFCRNATC  480 (520)
T ss_pred             EEeccCcccCCCCCcceeeecccHHHHHHHhhheEEEeccccceeeeecceeccccchhhhcCeeccCccCCcccCCccH
Confidence            9999995 99999999999999999999999999999999999999999997 9999999998     899999999999


Q ss_pred             cccccccccccccCCC-CCCCCceecCCCCCCC
Q psy3698         222 YRYFCRSCWLKVHIGE-YSQHDPIVRNVRKSPP  253 (534)
Q Consensus       222 ~~YyC~sCw~~~H~~~-~~~HkPl~r~~~~~~~  253 (534)
                      |||||+.||+++|+++ ...||||+|+++++.+
T Consensus       481 ~QYYCe~CWa~~HS~~~r~~HkPlvr~~~dr~~  513 (520)
T KOG0129|consen  481 FQYYCESCWAKIHSGPGREHHKPLVRPGKDRPR  513 (520)
T ss_pred             HhhhchHHHHHhhcCCchhcCCceecccccCCC
Confidence            9999999999999999 8899999999999843

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.95  E-value=6.1e-27  Score=243.49  Aligned_cols=151  Identities=17%  Similarity=0.157  Sum_probs=130.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .+....++|||+|||+++||++|+++|++||+|+.++|++|..++ ++||||||+| ++ +|++||+. ....+..+.+.
T Consensus       102 ~~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg-~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~  180 (346)
T TIGR01659       102 DTNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTG-YSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLK  180 (346)
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-ccCcEEEEEEccHHHHHHHHHHcCCCccCCceee
Confidence            455567899999999999999999999999999999999999988 9999999999 66 88888864 66677777776


Q ss_pred             ecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHH
Q psy3698          96 VVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        96 VrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~  174 (534)
                      +.. ..         +........+|||+|||..+|+++|+++| ++||.|+.+.|+.|+ ++++||||||+|.+.++|+
T Consensus       181 V~~-a~---------p~~~~~~~~~lfV~nLp~~vtee~L~~~F-~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~  249 (346)
T TIGR01659       181 VSY-AR---------PGGESIKDTNLYVTNLPRTITDDQLDTIF-GKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQ  249 (346)
T ss_pred             eec-cc---------ccccccccceeEEeCCCCcccHHHHHHHH-HhcCCEEEEEEeecCCCCccceEEEEEECCHHHHH
Confidence            652 11         11111235689999999999999999999 999999999999998 9999999999999999999


Q ss_pred             HHHHhcC
Q psy3698         175 DAIRAAF  181 (534)
Q Consensus       175 kAIea~~  181 (534)
                      +||++.+
T Consensus       250 ~Ai~~ln  256 (346)
T TIGR01659       250 EAISALN  256 (346)
T ss_pred             HHHHHhC
Confidence            9999977

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).

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

Probab=99.92  E-value=8.5e-25  Score=240.74  Aligned_cols=163  Identities=15%  Similarity=0.216  Sum_probs=131.6

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVP   98 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrP   98 (534)
                      ...++|||||||+++||++|+++|++||+|..+.+++|+.++ ++||||||+| +. +|++|++. ++..+.++.+.+..
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tg-kskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r  183 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATG-KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR  183 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCC-CcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence            456899999999999999999999999999999999999998 9999999999 55 89999874 66667777776651


Q ss_pred             cc-cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHH
Q psy3698          99 WA-ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus        99 w~-lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kA  176 (534)
                      -. ..................++|||+|||..+++++|+++| +.||.|+.++|..|+ ++++||||||+|.+.++|.+|
T Consensus       184 p~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lF-s~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kA  262 (612)
T TIGR01645       184 PSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVF-EAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEA  262 (612)
T ss_pred             cccccccccccccccccccccceEEeecCCCCCCHHHHHHHH-hhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHH
Confidence            10 000000000001112345789999999999999999999 899999999999998 889999999999999999999


Q ss_pred             HHhcC-ceeec
Q psy3698         177 IRAAF-IEVKS  186 (534)
Q Consensus       177 Iea~~-veIk~  186 (534)
                      |++.+ .++.+
T Consensus       263 I~amNg~elgG  273 (612)
T TIGR01645       263 IASMNLFDLGG  273 (612)
T ss_pred             HHHhCCCeeCC
Confidence            99876 45543

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.

>KOG0144|consensus

Probab=99.92  E-value=2.2e-25  Score=232.58  Aligned_cols=160  Identities=18%  Similarity=0.158  Sum_probs=134.1

Q ss_pred             cCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh--
Q psy3698           9 EGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW--   84 (534)
Q Consensus         9 sG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~--   84 (534)
                      .|.++..+  .+..+.-|+|||.||+.++|+|||++|++||.|.++.++||+.|+ .+||||||+| +. ++++|++.  
T Consensus        21 ~~~~~~~d--~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~-~s~gcCFv~~~trk~a~~a~~Alh   97 (510)
T KOG0144|consen   21 NGSLDHTD--NPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTG-QSKGCCFVKYYTRKEADEAINALH   97 (510)
T ss_pred             cCCCCCCC--CCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccC-cccceEEEEeccHHHHHHHHHHhh
Confidence            45555444  344778899999999999999999999999999999999999999 9999999999 44 66666665  


Q ss_pred             cCCCCcc--ccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceE
Q psy3698          85 ATEGNLC--GRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGS  162 (534)
Q Consensus        85 ssr~i~~--k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGf  162 (534)
                      +.+.+.+  .+||+++...+.         .++...++||||-|+..+||.+++++| .+||.|+++.|.+|+.+.+|||
T Consensus        98 n~ktlpG~~~pvqvk~Ad~E~---------er~~~e~KLFvg~lsK~~te~evr~iF-s~fG~Ied~~ilrd~~~~sRGc  167 (510)
T KOG0144|consen   98 NQKTLPGMHHPVQVKYADGER---------ERIVEERKLFVGMLSKQCTENEVREIF-SRFGHIEDCYILRDPDGLSRGC  167 (510)
T ss_pred             cccccCCCCcceeecccchhh---------hccccchhhhhhhccccccHHHHHHHH-HhhCccchhhheecccccccce
Confidence            3334443  567877532221         223346889999999999999999999 9999999999999999999999


Q ss_pred             EEEEeCCHHHHHHHHHhcC
Q psy3698         163 GRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       163 GFVtF~d~EsA~kAIea~~  181 (534)
                      |||+|.++|-|+.||++.+
T Consensus       168 aFV~fstke~A~~Aika~n  186 (510)
T KOG0144|consen  168 AFVKFSTKEMAVAAIKALN  186 (510)
T ss_pred             eEEEEehHHHHHHHHHhhc
Confidence            9999999999999999987

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.92  E-value=1.5e-24  Score=220.57  Aligned_cols=146  Identities=14%  Similarity=0.143  Sum_probs=126.3

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      ..+|||||||.++||++|+++|++||+|..+++++|+.++ ++||||||+| ++ +|++||+. .+..+.++.+.+.. .
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   80 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTG-QSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSY-A   80 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCC-ccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEe-e
Confidence            4689999999999999999999999999999999999888 8999999999 55 88888874 66677777777752 1


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      ..         ........+|||+|||..+++++|+++| +.||.|+.+.|..|. ++.++|||||+|.+.++|.+||+.
T Consensus        81 ~~---------~~~~~~~~~l~v~~l~~~~~~~~l~~~f-~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~  150 (352)
T TIGR01661        81 RP---------SSDSIKGANLYVSGLPKTMTQHELESIF-SPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKT  150 (352)
T ss_pred             cc---------cccccccceEEECCccccCCHHHHHHHH-hccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHH
Confidence            11         1111235689999999999999999999 999999999999987 889999999999999999999988


Q ss_pred             cC
Q psy3698         180 AF  181 (534)
Q Consensus       180 ~~  181 (534)
                      .+
T Consensus       151 l~  152 (352)
T TIGR01661       151 LN  152 (352)
T ss_pred             hC
Confidence            65

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

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

Probab=99.91  E-value=7.9e-24  Score=223.42  Aligned_cols=160  Identities=18%  Similarity=0.173  Sum_probs=131.7

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      .+...++|||+|||+++||++|+++|++||+|..+.+++|+.++ ++||||||+| +. +|++||++.+..+.++.+.+.
T Consensus        85 ~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~-~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~  163 (457)
T TIGR01622        85 AERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSR-RSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQ  163 (457)
T ss_pred             cccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCC-CcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEe
Confidence            44567899999999999999999999999999999999999888 9999999999 55 999999988777777777665


Q ss_pred             ccccCCCCCCC--CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHH
Q psy3698          98 PWAISDSNYSP--QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        98 Pw~lsds~~~~--~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~  174 (534)
                      .-.........  ...........+|||+|||..+|+++|+++| +.||.|..|.|..|+ +|.++|||||+|.+.++|.
T Consensus       164 ~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f-~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~  242 (457)
T TIGR01622       164 SSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIF-EPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAK  242 (457)
T ss_pred             ecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHH-HhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHH
Confidence            32111000000  0001111235899999999999999999999 999999999999998 7899999999999999999


Q ss_pred             HHHHhcC
Q psy3698         175 DAIRAAF  181 (534)
Q Consensus       175 kAIea~~  181 (534)
                      +||+..+
T Consensus       243 ~A~~~l~  249 (457)
T TIGR01622       243 EALEVMN  249 (457)
T ss_pred             HHHHhcC
Confidence            9998765

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.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.91  E-value=3.3e-23  Score=210.89  Aligned_cols=161  Identities=17%  Similarity=0.161  Sum_probs=121.6

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc--cccee
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC--GRVEV   96 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~--k~VQV   96 (534)
                      ...++|||+|||.++++++|+++|++||+|..+.++++..++ .++|||||+| +. +|++|++. .+..+.+  +++.+
T Consensus        87 ~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~-~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v  165 (352)
T TIGR01661        87 IKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTG-LSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITV  165 (352)
T ss_pred             cccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCC-CcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEE
Confidence            446789999999999999999999999999999999988777 8999999999 55 88888875 3332222  11111


Q ss_pred             cccccCCC-----------------CCC----------------------------------------------------
Q psy3698          97 VPWAISDS-----------------NYS----------------------------------------------------  107 (534)
Q Consensus        97 rPw~lsds-----------------~~~----------------------------------------------------  107 (534)
                      . |.....                 ...                                                    
T Consensus       166 ~-~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (352)
T TIGR01661       166 K-FANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRA  244 (352)
T ss_pred             E-ECCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccC
Confidence            1 000000                 000                                                    


Q ss_pred             -CC-------------CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHH
Q psy3698         108 -PQ-------------GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRA  172 (534)
Q Consensus       108 -~~-------------~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~Es  172 (534)
                       ..             .........++|||+|||..+++++|+++| ++||.|++|+|.+|+ ++.+||||||+|.+.++
T Consensus       245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F-~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~  323 (352)
T TIGR01661       245 SPPATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLF-GPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDE  323 (352)
T ss_pred             CCccccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHH-HhCCCeEEEEEeEcCCCCCccceEEEEECCHHH
Confidence             00             000001123479999999999999999999 999999999999998 99999999999999999


Q ss_pred             HHHHHHhcC-ceee
Q psy3698         173 YSDAIRAAF-IEVK  185 (534)
Q Consensus       173 A~kAIea~~-veIk  185 (534)
                      |.+||++.+ ..+.
T Consensus       324 A~~Ai~~lnG~~~~  337 (352)
T TIGR01661       324 AAMAILSLNGYTLG  337 (352)
T ss_pred             HHHHHHHhCCCEEC
Confidence            999999866 4443

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

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

Probab=99.90  E-value=2.8e-23  Score=225.84  Aligned_cols=146  Identities=18%  Similarity=0.249  Sum_probs=125.9

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccccC
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAIS  102 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~ls  102 (534)
                      .|||||||.++||++|+++|++||+|..+++++|..|+ +++|||||+| +. +|++||+. ....+.++.+.+. |...
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~~   79 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTR-RSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIM-WSQR   79 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEee-cccc
Confidence            59999999999999999999999999999999999988 9999999999 55 89999976 4444777777664 3322


Q ss_pred             CCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         103 DSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       103 ds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.       ........+|||+|||.++++++|+++| +.||.|..|+|..|.+|++||||||.|.+.++|.+||+..+
T Consensus        80 ~~-------~~~~~~~~~vfV~nLp~~~~~~~L~~~F-~~~G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~ln  150 (562)
T TIGR01628        80 DP-------SLRRSGVGNIFVKNLDKSVDNKALFDTF-SKFGNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQKVN  150 (562)
T ss_pred             cc-------cccccCCCceEEcCCCccCCHHHHHHHH-HhcCCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHHhc
Confidence            21       1122335689999999999999999999 99999999999999999999999999999999999998865

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

>KOG4205|consensus

Probab=99.89  E-value=1.4e-23  Score=215.53  Aligned_cols=167  Identities=26%  Similarity=0.296  Sum_probs=142.3

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPWA  100 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw~  100 (534)
                      .++|||||+|+|++|||.|++.|++||+|.+|.+|+|+.++ ++|||+||+| .+ .+.++|......+.++.|.+.+..
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 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTG-RSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAV   83 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCC-CcccccceecCCCcchheeecccccccCCccccceecc
Confidence            78999999999999999999999999999999999999998 9999999999 45 899999887777777777665433


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      .....    .........++||||+||.++++++|+++| ++||.|..+.|+.|+ +.++||||||+|.+++++.+++..
T Consensus        84 ~r~~~----~~~~~~~~tkkiFvGG~~~~~~e~~~r~yf-e~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~  158 (311)
T KOG4205|consen   84 SREDQ----TKVGRHLRTKKIFVGGLPPDTTEEDFKDYF-EQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQ  158 (311)
T ss_pred             Ccccc----cccccccceeEEEecCcCCCCchHHHhhhh-hccceeEeeEEeecccccccccceeeEeccccccceeccc
Confidence            22111    111122356899999999999999999999 999999999999998 999999999999999999999999


Q ss_pred             cCceeeccceeeeeeecccc
Q psy3698         180 AFIEVKSGRICKKLQIDPYL  199 (534)
Q Consensus       180 ~~veIk~~k~~KrVeIkPyL  199 (534)
                      .+.++.    .|.|+++-++
T Consensus       159 ~f~~~~----gk~vevkrA~  174 (311)
T KOG4205|consen  159 KFHDFN----GKKVEVKRAI  174 (311)
T ss_pred             ceeeec----CceeeEeecc
Confidence            887777    4667776654

>KOG0117|consensus

Probab=99.88  E-value=7.6e-22  Score=206.92  Aligned_cols=148  Identities=19%  Similarity=0.185  Sum_probs=123.8

Q ss_pred             ccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHhh-
Q psy3698           8 WEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQW-   84 (534)
Q Consensus         8 WsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq~-   84 (534)
                      |+|..||+.        |.||||+||.|+.|++|..+|++.|+|.++++|+|+.+| .+||||||+|  +|+|++|++. 
T Consensus        75 weg~~p~~G--------~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG-~nRGYAFVtf~~Ke~Aq~Aik~l  145 (506)
T KOG0117|consen   75 WEGPPPPRG--------CEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSG-DNRGYAFVTFCTKEEAQEAIKEL  145 (506)
T ss_pred             ccCCCCCCC--------ceEEecCCCccccchhhHHHHHhccceeeEEEeecccCC-CCcceEEEEeecHHHHHHHHHHh
Confidence            999999999        999999999999999999999999999999999999999 9999999999  4577777775 


Q ss_pred             cCCCCc-cccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC--CCCCce
Q psy3698          85 ATEGNL-CGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK--HKYPIG  161 (534)
Q Consensus        85 ssr~i~-~k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk--TG~pKG  161 (534)
                      ++..|+ +|.+.|-                -...+.+|||||+|.+.++++|.+.|+..--.|+.|.+..++  ..+.||
T Consensus       146 nn~Eir~GK~igvc----------------~Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRG  209 (506)
T KOG0117|consen  146 NNYEIRPGKLLGVC----------------VSVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRG  209 (506)
T ss_pred             hCccccCCCEeEEE----------------EeeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccc
Confidence            444444 2333332                012357799999999999999999994444578888887776  678899


Q ss_pred             EEEEEeCCHHHHHHHHHhc
Q psy3698         162 SGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       162 fGFVtF~d~EsA~kAIea~  180 (534)
                      ||||+|.++..|..|-++.
T Consensus       210 FaFveYe~H~~Aa~aRrKl  228 (506)
T KOG0117|consen  210 FAFVEYESHRAAAMARRKL  228 (506)
T ss_pred             eEEEEeecchhHHHHHhhc
Confidence            9999999999998886664

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

Probab=99.87  E-value=1.1e-21  Score=215.37  Aligned_cols=140  Identities=16%  Similarity=0.103  Sum_probs=111.6

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCc-cccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNL-CGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~-~k~VQVr   97 (534)
                      ...++|||||||++++|++|+++|++||+|..+.+++| .++ ++||||||+| ++ +|++||+. ....+. ++.+.+.
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG-~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~  133 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSG-QNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVC  133 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCC-CccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccc
Confidence            34599999999999999999999999999999999999 667 9999999999 55 89898886 333332 2222221


Q ss_pred             ccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCC-CeEEEEEecCC--CCCCceEEEEEeCCHHHHH
Q psy3698          98 PWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVYAGIDTDK--HKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        98 Pw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~I~~Dk--TG~pKGfGFVtF~d~EsA~  174 (534)
                                      ......+|||+|||..+|+++|.+.| ++++ .|+.+.+...+  .++++|||||+|.++++|.
T Consensus       134 ----------------~S~~~~rLFVgNLP~~~TeeeL~eeF-skv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa  196 (578)
T TIGR01648       134 ----------------ISVDNCRLFVGGIPKNKKREEILEEF-SKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAA  196 (578)
T ss_pred             ----------------ccccCceeEeecCCcchhhHHHHHHh-hcccCCceEEEEeccccccCccCceEEEEcCCHHHHH
Confidence                            01235789999999999999999999 7775 45555443322  6788999999999999999


Q ss_pred             HHHHhc
Q psy3698         175 DAIRAA  180 (534)
Q Consensus       175 kAIea~  180 (534)
                      +|++..
T Consensus       197 ~AirkL  202 (578)
T TIGR01648       197 MARRKL  202 (578)
T ss_pred             HHHHHh
Confidence            999764

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.

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

Probab=99.87  E-value=3e-21  Score=210.05  Aligned_cols=151  Identities=15%  Similarity=0.118  Sum_probs=123.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPW   99 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw   99 (534)
                      ...+|||+|||.++|+++|+++|++||.|..+.++++. ++ ++||||||.| ++ +|++|++. .+..+.++.+.+...
T Consensus        87 ~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i~~~~-~g-~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~~  164 (562)
T TIGR01628        87 GVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDE-NG-KSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGRF  164 (562)
T ss_pred             CCCceEEcCCCccCCHHHHHHHHHhcCCcceeEeeecC-CC-CcccEEEEEECCHHHHHHHHHHhcccEecCceEEEecc
Confidence            34679999999999999999999999999999999885 35 7899999999 66 88888875 455556666655422


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      ......     .........+|||+|||.++|+++|+++| +.||.|+++.|..|.++.+||||||+|.+.++|.+||+.
T Consensus       165 ~~~~~~-----~~~~~~~~~~l~V~nl~~~~tee~L~~~F-~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~  238 (562)
T TIGR01628       165 IKKHER-----EAAPLKKFTNLYVKNLDPSVNEDKLRELF-AKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEE  238 (562)
T ss_pred             cccccc-----ccccccCCCeEEEeCCCCcCCHHHHHHHH-HhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHH
Confidence            211100     01122345789999999999999999999 999999999999999999999999999999999999987


Q ss_pred             cC
Q psy3698         180 AF  181 (534)
Q Consensus       180 ~~  181 (534)
                      .+
T Consensus       239 l~  240 (562)
T TIGR01628       239 MN  240 (562)
T ss_pred             hC
Confidence            54

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

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

Probab=99.86  E-value=9.9e-21  Score=202.27  Aligned_cols=155  Identities=14%  Similarity=0.103  Sum_probs=116.7

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccC------------CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFG------------PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG------------~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      .....+++|||||||+++|+++|+++|.+++            .|..+++      . +.+|||||+| +. +|.+||++
T Consensus       170 ~~~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~------~-~~kg~afVeF~~~e~A~~Al~l  242 (509)
T TIGR01642       170 QATRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI------N-KEKNFAFLEFRTVEEATFAMAL  242 (509)
T ss_pred             cCCccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE------C-CCCCEEEEEeCCHHHHhhhhcC
Confidence            3445678999999999999999999999862            2333333      2 4579999999 44 88889987


Q ss_pred             cCCCCccccceecccc-cCCC------C-------CCC-----CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCC
Q psy3698          85 ATEGNLCGRVEVVPWA-ISDS------N-------YSP-----QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGD  145 (534)
Q Consensus        85 ssr~i~~k~VQVrPw~-lsds------~-------~~~-----~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~  145 (534)
                      .+..+.++.+.+.... ....      .       ...     .......+...+|||||||..+|+++|+++| +.||.
T Consensus       243 ~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f-~~~G~  321 (509)
T TIGR01642       243 DSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELL-ESFGD  321 (509)
T ss_pred             CCeEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHH-HhcCC
Confidence            6666666666553111 0000      0       000     0001123456899999999999999999999 89999


Q ss_pred             eEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         146 VVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       146 Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |..+.|+.|+ +|.++|||||+|.+.++|.+||+..+
T Consensus       322 i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~  358 (509)
T TIGR01642       322 LKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALN  358 (509)
T ss_pred             eeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcC
Confidence            9999999997 89999999999999999999998865

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

>KOG0148|consensus

Probab=99.84  E-value=3.6e-20  Score=184.94  Aligned_cols=148  Identities=16%  Similarity=0.152  Sum_probs=119.6

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccccC
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAIS  102 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~ls  102 (534)
                      .||||.|..+|+-|.||+.|.+||+|.+++|+||..|+ ++||||||.| .. +|+.||+. .+.=+..|.|. ..|...
T Consensus        64 hvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~-KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IR-TNWATR  141 (321)
T KOG0148|consen   64 HVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTG-KSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIR-TNWATR  141 (321)
T ss_pred             eEEehhcchhcchHHHHHHhccccccccceEeecccCC-cccceeEEeccchHHHHHHHHHhCCeeeccceee-cccccc
Confidence            69999999999999999999999999999999999999 9999999999 44 88888875 33333333332 245543


Q ss_pred             CCCCCCC-------CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHH
Q psy3698         103 DSNYSPQ-------GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSD  175 (534)
Q Consensus       103 ds~~~~~-------~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~k  175 (534)
                      .......       .-++......+|||||++.-+||++|++.| +.||.|.+|+|-.|     +||+||.|+++|+|.+
T Consensus       142 Kp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~F-s~fG~I~EVRvFk~-----qGYaFVrF~tkEaAah  215 (321)
T KOG0148|consen  142 KPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTF-SPFGPIQEVRVFKD-----QGYAFVRFETKEAAAH  215 (321)
T ss_pred             CccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhc-ccCCcceEEEEecc-----cceEEEEecchhhHHH
Confidence            3311100       112233456899999999999999999999 99999999999884     7999999999999999


Q ss_pred             HHHhcC
Q psy3698         176 AIRAAF  181 (534)
Q Consensus       176 AIea~~  181 (534)
                      ||...+
T Consensus       216 AIv~mN  221 (321)
T KOG0148|consen  216 AIVQMN  221 (321)
T ss_pred             HHHHhc
Confidence            998765

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

Probab=99.83  E-value=1.5e-19  Score=194.78  Aligned_cols=147  Identities=16%  Similarity=0.077  Sum_probs=114.4

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh---cCCCCccccceecc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW---ATEGNLCGRVEVVP   98 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~---ssr~i~~k~VQVrP   98 (534)
                      |+.|||||||+++||++|+++|++||+|..+.++++       ||||||+| ++ +|++|++.   ....+.++.+.+..
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            578999999999999999999999999999988753       57999999 55 89999874   45667778777752


Q ss_pred             cccCCCCCCCCC--CCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHH
Q psy3698          99 WAISDSNYSPQG--HSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus        99 w~lsds~~~~~~--~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kA  176 (534)
                      ............  .........+|||+||+..+|+++|+++| +.||.|..|.|..++   .+|+|||+|.+.++|.+|
T Consensus        75 s~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F-~~~G~V~~v~i~~~~---~~~~afVef~~~~~A~~A  150 (481)
T TIGR01649        75 STSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQIF-NPYGKVLRIVTFTKN---NVFQALVEFESVNSAQHA  150 (481)
T ss_pred             cCCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHHH-hccCCEEEEEEEecC---CceEEEEEECCHHHHHHH
Confidence            111110000000  01112234579999999999999999999 999999999987754   247999999999999999


Q ss_pred             HHhcC
Q psy3698         177 IRAAF  181 (534)
Q Consensus       177 Iea~~  181 (534)
                      |+..+
T Consensus       151 ~~~Ln  155 (481)
T TIGR01649       151 KAALN  155 (481)
T ss_pred             HHHhc
Confidence            98765

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).

>KOG0109|consensus

Probab=99.81  E-value=5.4e-20  Score=185.17  Aligned_cols=157  Identities=21%  Similarity=0.263  Sum_probs=127.6

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceeccccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw~l  101 (534)
                      -||||||||..+++.+|+.+|++||+|++|.|+|+         ||||.. .+ +++.|++ +....+.+..|.|..   
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN---------YgFVHiEdktaaedairNLhgYtLhg~nInVea---   70 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN---------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEA---   70 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc---------cceEEeecccccHHHHhhcccceecceEEEEEe---
Confidence            48999999999999999999999999999999984         899999 55 7777777 577788887777762   


Q ss_pred             CCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         102 SDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       102 sds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                               ...+.....+|+||||.+.++.++|++.| ++||.|+++.|+.       +++||.|+-.++|..||+...
T Consensus        71 ---------SksKsk~stkl~vgNis~tctn~ElRa~f-e~ygpviecdivk-------dy~fvh~d~~eda~~air~l~  133 (346)
T KOG0109|consen   71 ---------SKSKSKASTKLHVGNISPTCTNQELRAKF-EKYGPVIECDIVK-------DYAFVHFDRAEDAVEAIRGLD  133 (346)
T ss_pred             ---------ccccCCCccccccCCCCccccCHHHhhhh-cccCCceeeeeec-------ceeEEEEeeccchHHHHhccc
Confidence                     11123456789999999999999999999 9999999999976       799999999999999997754


Q ss_pred             -ceeeccce-----eeeeeecccccc-ccccccCCC
Q psy3698         182 -IEVKSGRI-----CKKLQIDPYLED-NVCSECQTH  210 (534)
Q Consensus       182 -veIk~~k~-----~KrVeIkPyLeD-q~CdeC~~~  210 (534)
                       .++...++     ..|+..+|-|-| ..|..|+.+
T Consensus       134 ~~~~~gk~m~vq~stsrlrtapgmgDq~~cyrcGke  169 (346)
T KOG0109|consen  134 NTEFQGKRMHVQLSTSRLRTAPGMGDQSGCYRCGKE  169 (346)
T ss_pred             ccccccceeeeeeeccccccCCCCCCHHHheecccc
Confidence             22222221     125667888877 589999853

>KOG0145|consensus

Probab=99.81  E-value=1e-19  Score=181.02  Aligned_cols=152  Identities=13%  Similarity=0.095  Sum_probs=132.8

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVP   98 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrP   98 (534)
                      .....|.|--||..+|+||||.+|...|+|++|+++||+.+| ++.|||||-| .+ +|++|++. ++.++..|.++|.-
T Consensus        39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitG-qSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy  117 (360)
T KOG0145|consen   39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITG-QSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY  117 (360)
T ss_pred             cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccc-cccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence            334579999999999999999999999999999999999999 9999999999 66 99999986 66677777777762


Q ss_pred             cccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHH
Q psy3698          99 WAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAI  177 (534)
Q Consensus        99 w~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAI  177 (534)
                              .+  ++........|||.+||..+|..||.++| +.||.|+-.+|..|. +|.+||.|||.|+.+++|+.||
T Consensus       118 --------AR--PSs~~Ik~aNLYvSGlPktMtqkelE~iF-s~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AI  186 (360)
T KOG0145|consen  118 --------AR--PSSDSIKDANLYVSGLPKTMTQKELEQIF-SPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAI  186 (360)
T ss_pred             --------cc--CChhhhcccceEEecCCccchHHHHHHHH-HHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHH
Confidence                    21  22333456789999999999999999999 999999999999999 9999999999999999999999


Q ss_pred             HhcCceee
Q psy3698         178 RAAFIEVK  185 (534)
Q Consensus       178 ea~~veIk  185 (534)
                      ...+.+..
T Consensus       187 k~lNG~~P  194 (360)
T KOG0145|consen  187 KGLNGQKP  194 (360)
T ss_pred             HhccCCCC
Confidence            99875544

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

Probab=99.80  E-value=1.8e-18  Score=185.04  Aligned_cols=157  Identities=11%  Similarity=0.097  Sum_probs=117.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPW   99 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw   99 (534)
                      ..++|||||||+.+|+++|+++|++||.|..+.++++..++ .++|||||+| .. +|++||+. .+..+.++.+.|...
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 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATG-LSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA  372 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCC-CcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            45799999999999999999999999999999999998888 8999999999 54 78888864 555566555555321


Q ss_pred             ccCCCCCC-------------CC-----CCCCCCCCCceeEeccccCcC----------CHHHHHHHhhhcCCCeEEEEE
Q psy3698         100 AISDSNYS-------------PQ-----GHSTKLEPGKTIFVGALHGRL----------TAQALYNVMNDLFGDVVYAGI  151 (534)
Q Consensus       100 ~lsds~~~-------------~~-----~~s~~~d~~ktIFVGNLP~~~----------TeedLreiF~s~FG~Vv~V~I  151 (534)
                      ........             ..     .......+.++|+|.||...-          ..++|+++| ++||.|+.|.|
T Consensus       373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f-~~~G~v~~v~i  451 (509)
T TIGR01642       373 CVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEF-SKYGPLINIVI  451 (509)
T ss_pred             ccCCCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHH-HhcCCeeEEEe
Confidence            11000000             00     000111356889999996321          236789999 99999999999


Q ss_pred             ecCC----CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         152 DTDK----HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       152 ~~Dk----TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.+.    ++..+|+|||+|.+.++|.+||++++
T Consensus       452 ~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~ln  485 (509)
T TIGR01642       452 PRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMN  485 (509)
T ss_pred             eccCcCCCcCCCcceEEEEECCHHHHHHHHHHcC
Confidence            8763    45678999999999999999999876

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

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

Probab=99.79  E-value=1.7e-18  Score=190.53  Aligned_cols=150  Identities=14%  Similarity=0.138  Sum_probs=109.9

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCe-eEEeec-CCCCCCCCCCcEEEEEe-hH-HHHHHHhhc---CCCCccccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPV-KVEWPQ-GTPESPTAPKAISLDVI-SE-LVLILGQWA---TEGNLCGRV   94 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V-~~v~~~-rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s---sr~i~~k~V   94 (534)
                      ...++|||+|||+++|+++|++.|+++++. +.+.+. .+...+ ++||||||+| ++ +|.+|++..   ...+.++.+
T Consensus       136 ~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kg-KnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I  214 (578)
T TIGR01648       136 VDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKK-KNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVI  214 (578)
T ss_pred             ccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccC-ccCceEEEEcCCHHHHHHHHHHhhccceEecCceE
Confidence            346899999999999999999999999753 333332 333334 7899999999 55 777777642   123445555


Q ss_pred             eecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcC--CCeEEEEEecCCCCCCceEEEEEeCCHHH
Q psy3698          95 EVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLF--GDVVYAGIDTDKHKYPIGSGRITFGSTRA  172 (534)
Q Consensus        95 QVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~F--G~Vv~V~I~~DkTG~pKGfGFVtF~d~Es  172 (534)
                      .+. |......    .........++|||+||+..+|+++|+++| +.|  |.|+.|.+.       +|||||+|.+.++
T Consensus       215 ~Vd-wA~p~~~----~d~~~~~~~k~LfVgNL~~~~tee~L~~~F-~~f~~G~I~rV~~~-------rgfAFVeF~s~e~  281 (578)
T TIGR01648       215 AVD-WAEPEEE----VDEDVMAKVKILYVRNLMTTTTEEIIEKSF-SEFKPGKVERVKKI-------RDYAFVHFEDRED  281 (578)
T ss_pred             EEE-eeccccc----ccccccccccEEEEeCCCCCCCHHHHHHHH-HhcCCCceEEEEee-------cCeEEEEeCCHHH
Confidence            554 3322111    111223446889999999999999999999 899  999998764       5799999999999


Q ss_pred             HHHHHHhcC-ceee
Q psy3698         173 YSDAIRAAF-IEVK  185 (534)
Q Consensus       173 A~kAIea~~-veIk  185 (534)
                      |.+||+.++ .+|.
T Consensus       282 A~kAi~~lnG~~i~  295 (578)
T TIGR01648       282 AVKAMDELNGKELE  295 (578)
T ss_pred             HHHHHHHhCCCEEC
Confidence            999998765 4444

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.

>KOG0127|consensus

Probab=99.78  E-value=1.5e-18  Score=185.58  Aligned_cols=154  Identities=25%  Similarity=0.280  Sum_probs=121.9

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      .-+|.|.||||.+.+++|+.+|++||.|.++.|.+....  +-.|||||.|.+  +|..||+. +...|.+|+|.|- |.
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dg--klcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVD-WA  193 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDG--KLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVD-WA  193 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCC--CccceEEEEEeeHHHHHHHHHhccCceecCceeEEe-ee
Confidence            458999999999999999999999999999999877664  344999999944  78888875 5566666666553 33


Q ss_pred             cCCCCCCC--------------------------------------------C--------------------CC--C--
Q psy3698         101 ISDSNYSP--------------------------------------------Q--------------------GH--S--  112 (534)
Q Consensus       101 lsds~~~~--------------------------------------------~--------------------~~--s--  112 (534)
                      +....|..                                            .                    ..  +  
T Consensus       194 V~Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~  273 (678)
T KOG0127|consen  194 VDKDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGK  273 (678)
T ss_pred             cccccccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhcccccccccccccccccccc
Confidence            21100000                                            0                    00  0  


Q ss_pred             -------------CCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHH
Q psy3698         113 -------------TKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIR  178 (534)
Q Consensus       113 -------------~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIe  178 (534)
                                   ...+-.++|||.|||+++|+++|.+.| ++||.|.++.|+.|+ |+.++|.|||.|.+..++..||+
T Consensus       274 ~~~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~~~f-skFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~  352 (678)
T KOG0127|consen  274 KESDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELKEHF-SKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIE  352 (678)
T ss_pred             CcccchhccccccccccccceEEEecCCccccHHHHHHHH-HhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHH
Confidence                         000123899999999999999999999 999999999999999 99999999999999999999999


Q ss_pred             hcC
Q psy3698         179 AAF  181 (534)
Q Consensus       179 a~~  181 (534)
                      ++.
T Consensus       353 ~As  355 (678)
T KOG0127|consen  353 AAS  355 (678)
T ss_pred             hcC
Confidence            973

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

Probab=99.78  E-value=3.8e-18  Score=183.87  Aligned_cols=152  Identities=14%  Similarity=0.102  Sum_probs=116.1

Q ss_pred             CccCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ..+++|||+|||+ .+|+++|+++|++||.|..+.+++++      +|||||+| +. +|++||+. .+..+.++.+.|.
T Consensus       273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~------~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~  346 (481)
T TIGR01649       273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK------KETALIEMADPYQAQLALTHLNGVKLFGKPLRVC  346 (481)
T ss_pred             CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEE
Confidence            3567999999998 69999999999999999999998852      58999999 55 88888864 6666677766664


Q ss_pred             ccccC-----------C-----CCCCCC------CC-----CCCCCCCceeEeccccCcCCHHHHHHHhhhcCCC--eEE
Q psy3698          98 PWAIS-----------D-----SNYSPQ------GH-----STKLEPGKTIFVGALHGRLTAQALYNVMNDLFGD--VVY  148 (534)
Q Consensus        98 Pw~ls-----------d-----s~~~~~------~~-----s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~--Vv~  148 (534)
                      .-...           +     ..+...      .+     .....+.++|||+|||..+|+++|+++| +.||.  |+.
T Consensus       347 ~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF-~~~G~~~i~~  425 (481)
T TIGR01649       347 PSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELF-AENGVHKVKK  425 (481)
T ss_pred             EcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHH-HhcCCccceE
Confidence            21110           0     001000      00     0011356799999999999999999999 89998  888


Q ss_pred             EEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         149 AGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       149 V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +++..++++ .+|+|||+|.+.++|.+||...+
T Consensus       426 ik~~~~~~~-~~~~gfVeF~~~e~A~~Al~~ln  457 (481)
T TIGR01649       426 FKFFPKDNE-RSKMGLLEWESVEDAVEALIALN  457 (481)
T ss_pred             EEEecCCCC-cceeEEEEcCCHHHHHHHHHHhc
Confidence            887654444 58999999999999999999866

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).

>KOG0131|consensus

Probab=99.78  E-value=5e-19  Score=168.62  Aligned_cols=152  Identities=21%  Similarity=0.248  Sum_probs=125.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPW   99 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw   99 (534)
                      ...+||||||+..++|+.|.++|-+.|+|+.+.+.+|+.+. .++|||||+| +| +|+-|++. +.-.+-+|++.+...
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~-~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~ka   86 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQ-KHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKA   86 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcc-cccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEec
Confidence            45799999999999999999999999999999999999987 8999999999 77 88887775 222333455555421


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEE-EEecCC-CCCCceEEEEEeCCHHHHHHHH
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYA-GIDTDK-HKYPIGSGRITFGSTRAYSDAI  177 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V-~I~~Dk-TG~pKGfGFVtF~d~EsA~kAI  177 (534)
                      .         ......+-..+||||||.+.++|..|.+.| +.||.+... .|++|+ +|.++|||||.|++.+++.+||
T Consensus        87 s---------~~~~nl~vganlfvgNLd~~vDe~~L~dtF-safG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai  156 (203)
T KOG0131|consen   87 S---------AHQKNLDVGANLFVGNLDPEVDEKLLYDTF-SAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAI  156 (203)
T ss_pred             c---------cccccccccccccccccCcchhHHHHHHHH-HhccccccCCcccccccCCCCCCCeEEechhHHHHHHHH
Confidence            1         111223445889999999999999999999 999988765 689998 8999999999999999999999


Q ss_pred             HhcCceee
Q psy3698         178 RAAFIEVK  185 (534)
Q Consensus       178 ea~~veIk  185 (534)
                      ++++-++-
T Consensus       157 ~s~ngq~l  164 (203)
T KOG0131|consen  157 GSMNGQYL  164 (203)
T ss_pred             HHhccchh
Confidence            99875554

>KOG0124|consensus

Probab=99.76  E-value=7.6e-19  Score=181.00  Aligned_cols=156  Identities=17%  Similarity=0.245  Sum_probs=126.4

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHh-hcCCCCccccceec-cc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQ-WATEGNLCGRVEVV-PW   99 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq-~ssr~i~~k~VQVr-Pw   99 (534)
                      -|+||||.|.+++.|+.||..|..||+|+++.+..|..|+ ++||||||+|  .|+++-|++ +++.-+.+|.++|. |-
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~-kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs  191 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATG-KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  191 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeecccccccc-cccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence            3789999999999999999999999999999999999999 9999999999  776666665 57777777777764 21


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHH
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIR  178 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIe  178 (534)
                      ......-....-......-.+|||..++.+++|+||+..| +.||+|++|.+.+++ .+..|||||++|.+.++...||.
T Consensus       192 NmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVF-EAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAia  270 (544)
T KOG0124|consen  192 NMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVF-EAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIA  270 (544)
T ss_pred             CCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHH-HhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhh
Confidence            1110000000000011234789999999999999999999 999999999999999 67789999999999999999999


Q ss_pred             hcC
Q psy3698         179 AAF  181 (534)
Q Consensus       179 a~~  181 (534)
                      ..+
T Consensus       271 sMN  273 (544)
T KOG0124|consen  271 SMN  273 (544)
T ss_pred             hcc
Confidence            877

>KOG0117|consensus

Probab=99.75  E-value=1.4e-17  Score=175.22  Aligned_cols=155  Identities=15%  Similarity=0.224  Sum_probs=111.9

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCC-eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC--Cccccc
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGP-VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG--NLCGRV   94 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~-V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~--i~~k~V   94 (534)
                      .+.-|+|||||||...++++|.+.|++.++ |+++.+..+.....++||||||+| +. +|..+-+. ....  +-+..+
T Consensus       161 Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~  240 (506)
T KOG0117|consen  161 SVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAI  240 (506)
T ss_pred             eeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcc
Confidence            355689999999999999999999999998 555666665555558999999999 54 44333332 1111  222233


Q ss_pred             eecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHH
Q psy3698          95 EVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        95 QVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~  174 (534)
                      .|. |.-....  .  +.......+.|||.||+.++|+|.|+++| ++||.|+.|+.++       -||||.|.++++|+
T Consensus       241 tVd-WAep~~e--~--ded~ms~VKvLYVRNL~~~tTeE~lk~~F-~~~G~veRVkk~r-------DYaFVHf~eR~dav  307 (506)
T KOG0117|consen  241 TVD-WAEPEEE--P--DEDTMSKVKVLYVRNLMESTTEETLKKLF-NEFGKVERVKKPR-------DYAFVHFAEREDAV  307 (506)
T ss_pred             eee-ccCcccC--C--ChhhhhheeeeeeeccchhhhHHHHHHHH-HhccceEEeeccc-------ceeEEeecchHHHH
Confidence            333 4322111  1  11123446889999999999999999999 8999999998765       49999999999999


Q ss_pred             HHHHhcC-ceeeccc
Q psy3698         175 DAIRAAF-IEVKSGR  188 (534)
Q Consensus       175 kAIea~~-veIk~~k  188 (534)
                      +|++..+ .+|....
T Consensus       308 kAm~~~ngkeldG~~  322 (506)
T KOG0117|consen  308 KAMKETNGKELDGSP  322 (506)
T ss_pred             HHHHHhcCceecCce
Confidence            9999876 4454433

>KOG0127|consensus

Probab=99.74  E-value=1.4e-17  Score=178.36  Aligned_cols=155  Identities=17%  Similarity=0.122  Sum_probs=121.8

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~l  101 (534)
                      .+|||++||++++.++|.++|+.+|+|..+.++.+..++ .+||||||+| -+ ++++|+++ ....+.++.+.+.+...
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~-~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~   84 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSS-EKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK   84 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcc-cccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence            689999999999999999999999999999999999887 9999999999 44 88888887 22233444433332222


Q ss_pred             CCCCC---------CC-----CCCC-C-CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEE
Q psy3698         102 SDSNY---------SP-----QGHS-T-KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRI  165 (534)
Q Consensus       102 sds~~---------~~-----~~~s-~-~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFV  165 (534)
                      ..+.-         +.     ..+. . ...+.-+|.|.|||+.+...+|+.+| +.||.|+.|.|++.+.|+-.|||||
T Consensus        85 R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vF-s~~G~V~Ei~IP~k~dgklcGFaFV  163 (678)
T KOG0127|consen   85 RARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVF-SNFGKVVEIVIPRKKDGKLCGFAFV  163 (678)
T ss_pred             cccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHH-hhcceEEEEEcccCCCCCccceEEE
Confidence            11111         00     0000 0 01346789999999999999999999 9999999999998776666799999


Q ss_pred             EeCCHHHHHHHHHhcC
Q psy3698         166 TFGSTRAYSDAIRAAF  181 (534)
Q Consensus       166 tF~d~EsA~kAIea~~  181 (534)
                      +|.+..+|.+||+..+
T Consensus       164 ~fk~~~dA~~Al~~~N  179 (678)
T KOG0127|consen  164 QFKEKKDAEKALEFFN  179 (678)
T ss_pred             EEeeHHHHHHHHHhcc
Confidence            9999999999999865

>KOG0145|consensus

Probab=99.72  E-value=6.3e-17  Score=161.33  Aligned_cols=161  Identities=18%  Similarity=0.201  Sum_probs=121.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCc---ccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNL---CGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~---~k~   93 (534)
                      .+.+....|||.|||..+|..||.++|++||.|.-.+|..|..|+ .+||.|||.| +. +|++||+.......   ..+
T Consensus       122 s~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg-~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tep  200 (360)
T KOG0145|consen  122 SDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTG-LSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEP  200 (360)
T ss_pred             hhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccc-eecceeEEEecchhHHHHHHHhccCCCCCCCCCC
Confidence            345566789999999999999999999999999999999999998 9999999999 44 78888775110000   011


Q ss_pred             ceec--------------------c--------------cccC--------CCCCCC-C----------CCCCCCCCCce
Q psy3698          94 VEVV--------------------P--------------WAIS--------DSNYSP-Q----------GHSTKLEPGKT  120 (534)
Q Consensus        94 VQVr--------------------P--------------w~ls--------ds~~~~-~----------~~s~~~d~~kt  120 (534)
                      +.|+                    |              .++.        ...+.. .          .-........+
T Consensus       201 ItVKFannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~c  280 (360)
T KOG0145|consen  201 ITVKFANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWC  280 (360)
T ss_pred             eEEEecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeE
Confidence            1110                    0              0000        000000 0          00001123589


Q ss_pred             eEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         121 IFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       121 IFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |||.||..+.+|.-|.++| ..||.|..|+|.+|. +.+-||||||++.+.++|..||.+.+
T Consensus       281 iFvYNLspd~de~~LWQlF-gpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLN  341 (360)
T KOG0145|consen  281 IFVYNLSPDADESILWQLF-GPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLN  341 (360)
T ss_pred             EEEEecCCCchHhHHHHHh-CcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhc
Confidence            9999999999999999999 999999999999998 79999999999999999999999866

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

Probab=99.70  E-value=3.9e-16  Score=165.15  Aligned_cols=170  Identities=18%  Similarity=0.119  Sum_probs=120.1

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      .++|||+|||.++||++|+++|++||.|..+.++++..++ +++|||||+| +. +|.+|++. .+..+.++.+.|....
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 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETG-RSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-ccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            6899999999999999999999999999999999998887 8999999999 44 78878764 4444444444443100


Q ss_pred             cC------------------------------------CCC-------------------C---------CC-----C--
Q psy3698         101 IS------------------------------------DSN-------------------Y---------SP-----Q--  109 (534)
Q Consensus       101 ls------------------------------------ds~-------------------~---------~~-----~--  109 (534)
                      ..                                    ...                   .         ..     .  
T Consensus       265 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (457)
T TIGR01622       265 DSTYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGAL  344 (457)
T ss_pred             CCCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhcccccccccccccccccccccc
Confidence            00                                    000                   0         00     0  


Q ss_pred             --------CCCC-CCCCCceeEeccccCcCC----------HHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCH
Q psy3698         110 --------GHST-KLEPGKTIFVGALHGRLT----------AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGST  170 (534)
Q Consensus       110 --------~~s~-~~d~~ktIFVGNLP~~~T----------eedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~  170 (534)
                              .... ...+.+.|+|.||-...+          .+||++.| ++||.|+.|.|..   ..+.|++||.|.+.
T Consensus       345 ~~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~-~k~G~v~~v~v~~---~~~~G~~fV~F~~~  420 (457)
T TIGR01622       345 AIMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEEC-SKYGGVVHIYVDT---KNSAGKIYLKFSSV  420 (457)
T ss_pred             ccccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHH-HhcCCeeEEEEeC---CCCceeEEEEECCH
Confidence                    0000 113457899999955544          36799999 9999999998864   23679999999999


Q ss_pred             HHHHHHHHhcCceeeccceeeeeeecccccc
Q psy3698         171 RAYSDAIRAAFIEVKSGRICKKLQIDPYLED  201 (534)
Q Consensus       171 EsA~kAIea~~veIk~~k~~KrVeIkPyLeD  201 (534)
                      ++|.+||++.+...-.   .+.|++..+-++
T Consensus       421 e~A~~A~~~lnGr~f~---gr~i~~~~~~~~  448 (457)
T TIGR01622       421 DAALAAFQALNGRYFG---GKMITAAFVVND  448 (457)
T ss_pred             HHHHHHHHHhcCcccC---CeEEEEEEEcHH
Confidence            9999999986632222   235666555333

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.

>KOG0123|consensus

Probab=99.70  E-value=1.5e-16  Score=167.32  Aligned_cols=145  Identities=18%  Similarity=0.259  Sum_probs=121.1

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccccC
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAIS  102 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~ls  102 (534)
                      -||||   +++||..|.++|+++|+|+.+.+.+|. |   +-|||||.| .. +|++||+. +-..+.++++.+. |...
T Consensus         3 sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t---slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim-~s~r   74 (369)
T KOG0123|consen    3 SLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T---SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIM-WSQR   74 (369)
T ss_pred             ceecC---CcCChHHHHHHhcccCCceeEEEeecC-C---ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEee-hhcc
Confidence            48999   999999999999999999999999998 6   799999999 55 99999986 4445566666554 3322


Q ss_pred             CCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCc
Q psy3698         103 DSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       103 ds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~v  182 (534)
                      |..             . |||.||+..++..+|.++| +.||+|++|++.+|..| +||| ||.|+++++|.+||+..+-
T Consensus        75 d~~-------------~-~~i~nl~~~~~~~~~~d~f-~~~g~ilS~kv~~~~~g-~kg~-FV~f~~e~~a~~ai~~~ng  137 (369)
T KOG0123|consen   75 DPS-------------L-VFIKNLDESIDNKSLYDTF-SEFGNILSCKVATDENG-SKGY-FVQFESEESAKKAIEKLNG  137 (369)
T ss_pred             CCc-------------e-eeecCCCcccCcHHHHHHH-HhhcCeeEEEEEEcCCC-ceee-EEEeCCHHHHHHHHHHhcC
Confidence            211             1 9999999999999999999 99999999999999988 9999 9999999999999998775


Q ss_pred             eeeccceeeeeeeccc
Q psy3698         183 EVKSGRICKKLQIDPY  198 (534)
Q Consensus       183 eIk~~k~~KrVeIkPy  198 (534)
                      ++-.   .|+|.+.++
T Consensus       138 ~ll~---~kki~vg~~  150 (369)
T KOG0123|consen  138 MLLN---GKKIYVGLF  150 (369)
T ss_pred             cccC---CCeeEEeec
Confidence            5543   355555554

>KOG0147|consensus

Probab=99.70  E-value=1.1e-17  Score=179.48  Aligned_cols=168  Identities=22%  Similarity=0.208  Sum_probs=137.2

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ..++.+.|+||+-.|+..+++-+|.++|+.+|+|..+.++.|+.++ ++||.|||+| .+ +|-.||..++..+-+.+|.
T Consensus       173 ~~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~-rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~  251 (549)
T KOG0147|consen  173 SPEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSR-RSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVI  251 (549)
T ss_pred             CchHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccch-hhcceeEEEEecccchhhHhhhcCCcccCceeE
Confidence            4567788999999999999999999999999999999999999988 8999999999 55 9999999888888888887


Q ss_pred             ecccccCC---CCCCCC-CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCH
Q psy3698          96 VVPWAISD---SNYSPQ-GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGST  170 (534)
Q Consensus        96 VrPw~lsd---s~~~~~-~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~  170 (534)
                      +.+-....   .+.... ....-..+-..|+||||+++++|++|+.+| +.||.|..|.+..|. ||..||||||+|.+.
T Consensus       252 vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~if-epfg~Ie~v~l~~d~~tG~skgfGfi~f~~~  330 (549)
T KOG0147|consen  252 VQLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIF-EPFGKIENVQLTKDSETGRSKGFGFITFVNK  330 (549)
T ss_pred             ecccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHhhhc-cCcccceeeeeccccccccccCcceEEEecH
Confidence            76432211   111100 011112233449999999999999999999 999999999999998 999999999999999


Q ss_pred             HHHHHHHHhcC-ceeecc
Q psy3698         171 RAYSDAIRAAF-IEVKSG  187 (534)
Q Consensus       171 EsA~kAIea~~-veIk~~  187 (534)
                      ++|.+|++..+ ++|.+.
T Consensus       331 ~~ar~a~e~lngfelAGr  348 (549)
T KOG0147|consen  331 EDARKALEQLNGFELAGR  348 (549)
T ss_pred             HHHHHHHHHhccceecCc
Confidence            99999987766 455443

>KOG0123|consensus

Probab=99.66  E-value=4.8e-16  Score=163.54  Aligned_cols=148  Identities=14%  Similarity=0.102  Sum_probs=122.2

Q ss_pred             EEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccccCC
Q psy3698          27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAISD  103 (534)
Q Consensus        27 VFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~lsd  103 (534)
                      |||.||+.++|..+|.++|+.||+|++|+++.|..   -+||| ||.| +| +|++|+++ ++..+.++.+-+-+..-..
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~---g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~  154 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN---GSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKE  154 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC---Cceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchh
Confidence            99999999999999999999999999999999876   38999 9999 77 99999987 5566666666554322111


Q ss_pred             CCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         104 SNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       104 s~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      . ....... .......++|.+++.+++++.|.++| ..||.|..+.++.|..+.++|||||.|.++++|.+|++..+
T Consensus       155 e-r~~~~~~-~~~~~t~v~vk~~~~~~~~~~l~~~f-~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~  229 (369)
T KOG0123|consen  155 E-REAPLGE-YKKRFTNVYVKNLEEDSTDEELKDLF-SAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLN  229 (369)
T ss_pred             h-hcccccc-hhhhhhhhheeccccccchHHHHHhh-cccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhcc
Confidence            0 0000111 23345679999999999999999999 99999999999999988899999999999999999999876

>KOG0129|consensus

Probab=99.63  E-value=4.5e-16  Score=166.30  Aligned_cols=56  Identities=39%  Similarity=0.745  Sum_probs=53.9

Q ss_pred             eecccCCCCCcCCCccceeeeEEcCCCCCCchHHHHHhhccccceEEEecCcccccc
Q psy3698         474 TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSS  530 (534)
Q Consensus       474 ~w~g~lp~~~~~~~~~~s~kvf~gg~p~d~~e~~l~~~f~~~g~~~~~~~~~~~~~~  530 (534)
                      ||+|.||+|. +..+.||+|||||||||||||++|.++|++||+|+||||.|++.++
T Consensus       243 ~~~~~~~~~~-~~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~  298 (520)
T KOG0129|consen  243 TWSGSLPPRG-YRSPRYSRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRG  298 (520)
T ss_pred             hhccccCCCC-CCccccccceeecCCCccccHHHHHhhcccccceEeecCCCccccc
Confidence            9999999998 7899999999999999999999999999999999999999998765

>KOG0148|consensus

Probab=99.61  E-value=2.5e-15  Score=150.57  Aligned_cols=126  Identities=19%  Similarity=0.200  Sum_probs=101.5

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehHHHHHHHhhcCCCCccccceeccccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsEsAeaALq~ssr~i~~k~VQVrPw~l  101 (534)
                      ...|+||||||..++||+-|..+|.+.|.|..++++.|...               +..+..                  
T Consensus         4 ~~prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~e~~---------------v~wa~~------------------   50 (321)
T KOG0148|consen    4 DEPRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFDELK---------------VNWATA------------------   50 (321)
T ss_pred             CCCceEEeeccChhhHHHHHHHHHHhccccccceeehhhhc---------------cccccC------------------
Confidence            35688999999999999999999999999999998887431               111111                  


Q ss_pred             CCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         102 SDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       102 sds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                       ..+    ..........-||||.|...++.++|++.| .+||+|.+++|++|. |+++||||||.|-++++|+.||+.+
T Consensus        51 -p~n----Qsk~t~~~hfhvfvgdls~eI~~e~lr~aF-~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~M  124 (321)
T KOG0148|consen   51 -PGN----QSKPTSNQHFHVFVGDLSPEIDNEKLREAF-APFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQM  124 (321)
T ss_pred             -ccc----CCCCccccceeEEehhcchhcchHHHHHHh-ccccccccceEeecccCCcccceeEEeccchHHHHHHHHHh
Confidence             100    000111224679999999999999999999 999999999999998 9999999999999999999999998


Q ss_pred             Cceeec
Q psy3698         181 FIEVKS  186 (534)
Q Consensus       181 ~veIk~  186 (534)
                      +.+.-.
T Consensus       125 nGqWlG  130 (321)
T KOG0148|consen  125 NGQWLG  130 (321)
T ss_pred             CCeeec
Confidence            855443

>KOG0146|consensus

Probab=99.58  E-value=1.6e-14  Score=144.79  Aligned_cols=63  Identities=22%  Similarity=0.292  Sum_probs=60.8

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+|||..||.+..+.||.++| -.||.|+++++-.|+ |..+|.||||.|+|..+++.||.+.+
T Consensus       285 GCNlFIYHLPQEFgDaEliQmF-~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMN  348 (371)
T KOG0146|consen  285 GCNLFIYHLPQEFGDAELIQMF-LPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMN  348 (371)
T ss_pred             cceEEEEeCchhhccHHHHHHh-ccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhc
Confidence            5889999999999999999999 999999999999998 99999999999999999999999976

>KOG0144|consensus

Probab=99.52  E-value=2.9e-14  Score=149.94  Aligned_cols=63  Identities=24%  Similarity=0.334  Sum_probs=60.6

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...+||++||.+.-+.+|...| ..||.|..+++.+|+ ++.+|.||||.|++..+|..||.+.+
T Consensus       424 GanlfiyhlPqefgdq~l~~~f-~pfG~Vlsakvfidk~tnlskcfgfvSyen~~sa~~aI~amn  487 (510)
T KOG0144|consen  424 GANLFIYHLPQEFGDQDLIATF-QPFGGVLSAKVFIDKVTNLSKCFGFVSYENAQSAQNAISAMN  487 (510)
T ss_pred             ccceeeeeCchhhhhHHHHHHh-ccccceeEEEEEEecccCHhhhcCcccccchhhhHHHHHHhc
Confidence            4789999999999999999999 999999999999999 99999999999999999999999876

>KOG0149|consensus

Probab=99.50  E-value=2.1e-14  Score=141.66  Aligned_cols=73  Identities=18%  Similarity=0.199  Sum_probs=67.2

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhhcCCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~ssr~i~~k~VQVr   97 (534)
                      -.|||||||+|+++.|+|+++|++||+|+++.|+.|+.|+ ++||||||+|.|  +|.+|++.....|.+|...+.
T Consensus        12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~-rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcn   86 (247)
T KOG0149|consen   12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTG-RSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCN   86 (247)
T ss_pred             EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCc-cccceeeEEeecHHHHHHHhcCCCCcccccccccc
Confidence            4699999999999999999999999999999999999999 999999999944  999999998888888776654

>KOG0110|consensus

Probab=99.46  E-value=2.3e-13  Score=149.80  Aligned_cols=157  Identities=15%  Similarity=0.088  Sum_probs=118.2

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCC--CCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES--PTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~T--g~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...+|||.||++++|.++|...|...|.|+.+.|.+.+..  ...|.|||||+| +. +|++|++. .+..+.+..++++
T Consensus       514 ~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk  593 (725)
T KOG0110|consen  514 TETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELK  593 (725)
T ss_pred             cchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEEE
Confidence            3445999999999999999999999999998876654432  224779999999 55 88888887 4467777766665


Q ss_pred             ccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHH
Q psy3698          98 PWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus        98 Pw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kA  176 (534)
                      --. ..................+|.|.|||+..+-.+++++| ..||.|..|+|+.-. .+..+|||||+|-+.++|..|
T Consensus       594 ~S~-~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF-~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA  671 (725)
T KOG0110|consen  594 ISE-NKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLF-TAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNA  671 (725)
T ss_pred             ecc-CccccccccccccccccceeeeeccchHHHHHHHHHHH-hcccceeeeccchhhcchhhccceeeeccCcHHHHHH
Confidence            111 01000000001111224689999999999999999999 999999999998864 566799999999999999999


Q ss_pred             HHhcC
Q psy3698         177 IRAAF  181 (534)
Q Consensus       177 Iea~~  181 (534)
                      +++..
T Consensus       672 ~~al~  676 (725)
T KOG0110|consen  672 FDALG  676 (725)
T ss_pred             HHhhc
Confidence            97754

>KOG0105|consensus

Probab=99.43  E-value=1.3e-12  Score=125.56  Aligned_cols=150  Identities=21%  Similarity=0.223  Sum_probs=108.2

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccceec-
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEVV-   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQVr-   97 (534)
                      ..+|+|||||||.+|-|.+|.++|-+||.|..+.+...+    ..-.||||+|.+  +|+.||.. ......+-.+.|. 
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            357999999999999999999999999999988775543    345799999943  88888875 2222222222221 


Q ss_pred             cccc---CCC--CCCCC------CC----CCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceE
Q psy3698          98 PWAI---SDS--NYSPQ------GH----STKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGS  162 (534)
Q Consensus        98 Pw~l---sds--~~~~~------~~----s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGf  162 (534)
                      |.--   .+.  ++...      ..    ...-.....|.|.+||..-+++||++.| .+-|.|+.+.+.+|      |.
T Consensus        80 prggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHm-ReaGdvCfadv~rD------g~  152 (241)
T KOG0105|consen   80 PRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHM-REAGDVCFADVQRD------GV  152 (241)
T ss_pred             ccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHH-HhhCCeeeeeeecc------cc
Confidence            1000   000  00000      00    0011235789999999999999999999 89999999998875      58


Q ss_pred             EEEEeCCHHHHHHHHHhcCc
Q psy3698         163 GRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       163 GFVtF~d~EsA~kAIea~~v  182 (534)
                      |.|.|..+|++.-||.++.-
T Consensus       153 GvV~~~r~eDMkYAvr~ld~  172 (241)
T KOG0105|consen  153 GVVEYLRKEDMKYAVRKLDD  172 (241)
T ss_pred             eeeeeeehhhHHHHHHhhcc
Confidence            99999999999999988653

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

Probab=99.41  E-value=2.2e-12  Score=120.29  Aligned_cols=152  Identities=20%  Similarity=0.255  Sum_probs=110.5

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      .++|||||||+++|+++|+++|.+||.|..+.+..|+.++ ++||||||+| .+ ++..|++. ....+.++.+.+..-.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~-~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETG-KSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccC-ccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            6999999999999999999999999999999999998778 9999999999 66 88888876 3356666666665321


Q ss_pred             ----cCCCCC-------C---CCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEE
Q psy3698         101 ----ISDSNY-------S---PQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRI  165 (534)
Q Consensus       101 ----lsds~~-------~---~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFV  165 (534)
                          ......       .   .............+++++++..++..++...| ..+|.+..+.+.... ......+.++
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~  272 (306)
T COG0724         194 PASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLF-KSRGDIVRASLPPSKDGKIPKSRSFV  272 (306)
T ss_pred             cccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhc-cccccceeeeccCCCCCccccccccc
Confidence                100000       0   00112233456889999999999999999999 999999777776655 3334555555


Q ss_pred             EeCCHHHHHHHH
Q psy3698         166 TFGSTRAYSDAI  177 (534)
Q Consensus       166 tF~d~EsA~kAI  177 (534)
                      .+.....+..++
T Consensus       273 ~~~~~~~~~~~~  284 (306)
T COG0724         273 GNEASKDALESN  284 (306)
T ss_pred             chhHHHhhhhhh
Confidence            554444444443

>KOG4211|consensus

Probab=99.41  E-value=3.3e-12  Score=136.37  Aligned_cols=154  Identities=16%  Similarity=0.132  Sum_probs=113.8

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceeccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPW   99 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw   99 (534)
                      ...--|=+.+|||++|++||.++|+.++ |....+.+  .++ +..|=|||+| +| ++++||++....|..+-|+|-+.
T Consensus         8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r--~~G-r~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~   83 (510)
T KOG4211|consen    8 STAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR--RNG-RPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTA   83 (510)
T ss_pred             CcceEEEecCCCccccHHHHHHHHhcCc-eeEEEEec--cCC-CcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEcc
Confidence            3345577899999999999999999987 55544444  346 8889999999 77 99999999777777777777543


Q ss_pred             ccCCCCCCC-CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEE-EEEecCCCCCCceEEEEEeCCHHHHHHHH
Q psy3698         100 AISDSNYSP-QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY-AGIDTDKHKYPIGSGRITFGSTRAYSDAI  177 (534)
Q Consensus       100 ~lsds~~~~-~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~-V~I~~DkTG~pKGfGFVtF~d~EsA~kAI  177 (534)
                      ...+..... +.........-.|-+.+||+.+|++||.++| +----|.. +.++.|+.+++-|-|||.|++.+.|++||
T Consensus        84 ~~~e~d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FF-aGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al  162 (510)
T KOG4211|consen   84 GGAEADWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFF-AGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIAL  162 (510)
T ss_pred             CCccccccccCCCCCCCCCCceEEecCCCccCcHHHHHHHh-cCCcccccceeeeccCCCCcccceEEEecCHHHHHHHH
Confidence            222222221 0111111355678899999999999999999 44433433 33567778889999999999999999999


Q ss_pred             Hhc
Q psy3698         178 RAA  180 (534)
Q Consensus       178 ea~  180 (534)
                      +..
T Consensus       163 ~rh  165 (510)
T KOG4211|consen  163 GRH  165 (510)
T ss_pred             HHH
Confidence            873

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

Probab=99.41  E-value=6.2e-13  Score=123.04  Aligned_cols=76  Identities=21%  Similarity=0.262  Sum_probs=67.9

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...+++|||+|||+++||++|+++|++||+|..+.+++|..++ ++||||||+| ++ +|++||+. +...+.++.++|.
T Consensus        31 ~~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~  109 (144)
T PLN03134         31 RLMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETG-RSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVN  109 (144)
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            4567899999999999999999999999999999999999988 9999999999 55 88888874 6777888887775

>KOG0149|consensus

Probab=99.40  E-value=3.7e-13  Score=132.95  Aligned_cols=69  Identities=28%  Similarity=0.324  Sum_probs=62.9

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      .-.+||||+|++.++.++|+++| ++||+|+++.|+.|+ ++++||||||+|.+.++|.+|.+..+=.|+.
T Consensus        11 ~~TKifVggL~w~T~~~~l~~yF-eqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdG   80 (247)
T KOG0149|consen   11 TFTKIFVGGLAWETHKETLRRYF-EQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDG   80 (247)
T ss_pred             eEEEEEEcCcccccchHHHHHHH-HHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccc
Confidence            34789999999999999999999 999999999999999 9999999999999999999999876644443

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

Probab=99.36  E-value=3e-12  Score=118.47  Aligned_cols=69  Identities=26%  Similarity=0.323  Sum_probs=62.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ....+|||+|||..+|+++|+++| ++||.|..+.|+.|+ ++++||||||+|.+.++|++||+..+ .+|.
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~  102 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAF-AHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELN  102 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-hcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            345789999999999999999999 899999999999998 99999999999999999999998754 4554

>KOG4212|consensus

Probab=99.31  E-value=1.5e-09  Score=114.95  Aligned_cols=154  Identities=16%  Similarity=0.086  Sum_probs=115.6

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhh-ccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecc--
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFS-QFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVP--   98 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~Fs-qFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrP--   98 (534)
                      |.|||.|||++...++|+++|. +.|+|..|.+..|.. + ++||+|.|+| .+ .+++|++. .+..+.+|++.++.  
T Consensus        45 R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~-G-K~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~  122 (608)
T KOG4212|consen   45 RSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDES-G-KARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH  122 (608)
T ss_pred             ceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccC-C-CcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence            4599999999999999999996 689999999988875 6 8999999999 44 88888876 22223322222110  


Q ss_pred             ---------------------------cccC----------CCCCCCC--------------------------------
Q psy3698          99 ---------------------------WAIS----------DSNYSPQ--------------------------------  109 (534)
Q Consensus        99 ---------------------------w~ls----------ds~~~~~--------------------------------  109 (534)
                                                 |...          ++.+...                                
T Consensus       123 d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~  202 (608)
T KOG4212|consen  123 DEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSAS  202 (608)
T ss_pred             chhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhh
Confidence                                       0000          0000000                                


Q ss_pred             ----CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         110 ----GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       110 ----~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                          ...-...-..++||+||...+....|++.| ..-|.|..+.+-+||-|.++||+.+.|+..-.+..||.+..
T Consensus       203 Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvf-gmAGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~  277 (608)
T KOG4212|consen  203 FLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVF-GMAGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLD  277 (608)
T ss_pred             hhhhccCCCCCccceeeeeccccccchHHHHHHh-ccceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhc
Confidence                000001124789999999999999999999 99999999999999999999999999999999999998866

>PF00076 RRM_1: RNA recognition motif

Probab=99.27  E-value=1.7e-11  Score=95.95  Aligned_cols=60  Identities=18%  Similarity=0.287  Sum_probs=57.1

Q ss_pred             eEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         121 IFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       121 IFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |||+|||..+|+++|+++| +.||.|..+.+..+..+.++|+|||+|.++++|++||+...
T Consensus         1 l~v~nlp~~~t~~~l~~~f-~~~g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~   60 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFF-SQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELN   60 (70)
T ss_dssp             EEEESETTTSSHHHHHHHH-HTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             cEEcCCCCcCCHHHHHHHH-HHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcC
Confidence            7999999999999999999 88999999999998889999999999999999999999655

(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 ....

>PF00076 RRM_1: RNA recognition motif

Probab=99.24  E-value=1.1e-11  Score=97.02  Aligned_cols=63  Identities=22%  Similarity=0.154  Sum_probs=53.7

Q ss_pred             EEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc
Q psy3698          27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC   91 (534)
Q Consensus        27 VFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~   91 (534)
                      |||+|||.++|+++|+++|++||.|..+.++.+ .++ +++|||||+| ++ +|++|++. .+..+.+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~-~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~   66 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSG-KSKGYAFVEFESEEDAEKALEELNGKKING   66 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTS-SEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccc-cccceEEEEEcCHHHHHHHHHHcCCCEECc
Confidence            799999999999999999999999999999887 444 7899999999 66 88888884 4444443

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.19  E-value=5.8e-11  Score=124.35  Aligned_cols=65  Identities=25%  Similarity=0.382  Sum_probs=61.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ....+|||+|||.++|+++|+++| +.||.|+.|+|+.|+ ++++||||||+|.++++|.+||+..+
T Consensus       105 ~~~~~LfVgnLp~~~te~~L~~lF-~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~Ln  170 (346)
T TIGR01659       105 NSGTNLIVNYLPQDMTDRELYALF-RTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLN  170 (346)
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcC
Confidence            456899999999999999999999 999999999999997 99999999999999999999998754

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).

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.13  E-value=1.9e-10  Score=91.52  Aligned_cols=65  Identities=20%  Similarity=0.256  Sum_probs=58.1

Q ss_pred             eEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeec
Q psy3698         121 IFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKS  186 (534)
Q Consensus       121 IFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~  186 (534)
                      |||+|||..+++++|+++| +.||.|..+.+..++.+.++|+|||+|.+.++|.+|++... ..+.+
T Consensus         1 v~i~nlp~~~~~~~l~~~f-~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g   66 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFF-SRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDG   66 (70)
T ss_dssp             EEEESSTTT--HHHHHHHC-TTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CEEeCCCCCCCHHHHHHHH-HhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECC
Confidence            7999999999999999999 89999999999998778999999999999999999999977 55553

k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.10  E-value=2e-10  Score=115.94  Aligned_cols=72  Identities=14%  Similarity=0.032  Sum_probs=64.8

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceeccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPW   99 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw   99 (534)
                      .++|||||||+++||++|+++|+.||+|..+.+++|+.    ++|||||+| .+ +++.||.+++..+.++.+.|.+.
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~----~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a   77 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE----RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPA   77 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC----CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEec
Confidence            58999999999999999999999999999999998853    469999999 55 99999988999999999988753

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.09  E-value=1.4e-10  Score=92.31  Aligned_cols=65  Identities=20%  Similarity=0.186  Sum_probs=53.8

Q ss_pred             EEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcC-CCCcccc
Q psy3698          27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWAT-EGNLCGR   93 (534)
Q Consensus        27 VFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ss-r~i~~k~   93 (534)
                      |||+|||+++|+++|+++|+.||.|..+.+.+++. + +++|+|||+| ++ +|++|++... ..+.++.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~-~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~   68 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-G-QSRGFAFVEFSSEEDAKRALELLNGKEIDGRK   68 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-S-SEEEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-c-ccCCEEEEEeCCHHHHHHHHHHCCCcEECCEE
Confidence            79999999999999999999999999999888866 6 8899999999 66 8999998754 4444443

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 ....

>smart00362 RRM_2 RNA recognition motif

Probab=99.06  E-value=1.2e-09  Score=83.59  Aligned_cols=64  Identities=27%  Similarity=0.340  Sum_probs=58.1

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +|||+|||..+++++|+++| +.||.|..+.+..++ +.++|+|||+|.+.++|.+|++... ..+.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~-~~~g~v~~~~~~~~~-~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~   65 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELF-SKFGPIESVKIPKDT-GKSKGFAFVEFESEEDAEKAIEALNGTKLG   65 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHH-HhcCCEEEEEEecCC-CCCCceEEEEeCCHHHHHHHHHHhCCcEEC
Confidence            58999999999999999999 899999999999877 7889999999999999999998765 4443

>KOG0125|consensus

Probab=99.06  E-value=2.7e-10  Score=117.16  Aligned_cols=84  Identities=24%  Similarity=0.324  Sum_probs=70.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC--------ceeecc
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF--------IEVKSG  187 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~--------veIk~~  187 (534)
                      +..++|+|.|+|+...|.||+.+| ++||+|.+|.|+.+..| +||||||+|++.++|++|=++.+        |||...
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF-~kfG~VldVEIIfNERG-SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A  171 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMF-EKFGKVLDVEIIFNERG-SKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA  171 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHH-HhhCceeeEEEEeccCC-CCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence            455889999999999999999999 99999999999998777 89999999999999999977655        555542


Q ss_pred             --ce-eeeeeecccccc
Q psy3698         188 --RI-CKKLQIDPYLED  201 (534)
Q Consensus       188 --k~-~KrVeIkPyLeD  201 (534)
                        ++ +||+++-||..+
T Consensus       172 TarV~n~K~~v~p~~~g  188 (376)
T KOG0125|consen  172 TARVHNKKKKVLPYPNG  188 (376)
T ss_pred             chhhccCCcccCCCccc
Confidence              33 457777787433

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.02  E-value=6.9e-10  Score=110.88  Aligned_cols=74  Identities=11%  Similarity=0.027  Sum_probs=66.9

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceeccccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw~l  101 (534)
                      ..+|||+||++++||++|+++|+.||+|..+.+++|..    .+|||||+| .+ +++.||.+++..+..+.|.|.||..
T Consensus         5 g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e----t~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~   80 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE----YACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQ   80 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC----cceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCcc
Confidence            46899999999999999999999999999999999853    458999999 55 9999999999999999999998763

>KOG4206|consensus

Probab=99.01  E-value=8e-09  Score=101.90  Aligned_cols=147  Identities=18%  Similarity=0.138  Sum_probs=101.6

Q ss_pred             eEEEeCCCCCCCHHHHHH----HhhccCCeeEEeecCCCCCCCCCCcEEEEEe-h-HHHHHHHhh-cCCCCccccceecc
Q psy3698          26 KIFIGGVPWDTPEYLLLT----VFSQFGPVKVEWPQGTPESPTAPKAISLDVI-S-ELVLILGQW-ATEGNLCGRVEVVP   98 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre----~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-s-EsAeaALq~-ssr~i~~k~VQVrP   98 (534)
                      +|||.||+..+..++|+.    +|++||+|+.+...+.   . +.||=|||+| . ++|-.|+.. .+...-+|.+++..
T Consensus        11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt---~-KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqy   86 (221)
T KOG4206|consen   11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT---P-KMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQY   86 (221)
T ss_pred             eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC---C-CccCceEEEecChhHHHHHHHHhcCCcccCchhheec
Confidence            999999999999999998    9999999998877663   3 7799999999 3 344444433 11111111111100


Q ss_pred             ---------------------------ccc---CCCC---CC---CCCC----CCCCCCCceeEeccccCcCCHHHHHHH
Q psy3698          99 ---------------------------WAI---SDSN---YS---PQGH----STKLEPGKTIFVGALHGRLTAQALYNV  138 (534)
Q Consensus        99 ---------------------------w~l---sds~---~~---~~~~----s~~~d~~ktIFVGNLP~~~TeedLrei  138 (534)
                                                 ...   .+.+   +.   ...+    .....+...+|+-|||..++.+.|..+
T Consensus        87 A~s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~l  166 (221)
T KOG4206|consen   87 AKSDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDL  166 (221)
T ss_pred             ccCccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHH
Confidence                                       000   0000   00   0000    122456789999999999999999999


Q ss_pred             hhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         139 MNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       139 F~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      | ..|..-..++++..    -+|.|||+|.+...+..|.++..
T Consensus       167 f-~qf~g~keir~i~~----~~~iAfve~~~d~~a~~a~~~lq  204 (221)
T KOG4206|consen  167 F-EQFPGFKEIRLIPP----RSGIAFVEFLSDRQASAAQQALQ  204 (221)
T ss_pred             H-hhCcccceeEeccC----CCceeEEecchhhhhHHHhhhhc
Confidence            9 89999999887662    26899999999988888877754

>KOG0113|consensus

Probab=99.00  E-value=5.4e-10  Score=113.86  Aligned_cols=72  Identities=18%  Similarity=0.123  Sum_probs=63.2

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      =++|||+-|+++++|..|+..|+.||+|+.+.+++|+.|+ ++||||||+| .| ++.+|-+. ....|.++.|-|
T Consensus       101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTg-kskGYAFIeye~erdm~~AYK~adG~~Idgrri~V  175 (335)
T KOG0113|consen  101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTG-KSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILV  175 (335)
T ss_pred             cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccC-CccceEEEEeccHHHHHHHHHhccCceecCcEEEE
Confidence            3799999999999999999999999999999999999999 9999999999 77 88888886 445555555543

>KOG0113|consensus

Probab=99.00  E-value=1.2e-09  Score=111.40  Aligned_cols=73  Identities=22%  Similarity=0.274  Sum_probs=66.2

Q ss_pred             CCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         112 STKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       112 s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...-++-+||||+-|+.+++|.+|+..| +.||.|..+.|+.|+ ||+|||||||+|+++.++.+|-+.+. +.|+
T Consensus        95 ~a~gDPy~TLFv~RLnydT~EskLrreF-~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Id  169 (335)
T KOG0113|consen   95 NAIGDPYKTLFVARLNYDTSESKLRREF-EKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKID  169 (335)
T ss_pred             cccCCccceeeeeeccccccHHHHHHHH-HhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceec
Confidence            3344888999999999999999999999 999999999999998 99999999999999999999988765 5555

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

Probab=99.00  E-value=1.4e-09  Score=101.42  Aligned_cols=67  Identities=25%  Similarity=0.326  Sum_probs=62.9

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+|||||||..+|+++|+++| ..||.|..+.|..|+ ++.++|||||.|.+.+++..||+... ..+.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F-~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~  183 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELF-KKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELE  183 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHH-HhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeEC
Confidence            5899999999999999999999 999999999999997 99999999999999999999999977 4444

>KOG0110|consensus

Probab=98.98  E-value=3.6e-09  Score=117.32  Aligned_cols=154  Identities=17%  Similarity=0.132  Sum_probs=102.3

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhhcC------CC--C
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQWAT------EG--N   89 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~ss------r~--i   89 (534)
                      .....+.++|+|||..+.+++|..+|..||+|..+.+. ...+      -+.|.|.+  ++++|+....      ..  +
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 AERSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLP-PGGT------GAIVEFLNPLEARKAFRKLAYSRFKSAPLYL  453 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcccccceeecC-cccc------eeeeeecCccchHHHHHHhchhhhccCcccc
Confidence            33445789999999999999999999999999877333 2222      38999933  7777776500      00  0


Q ss_pred             ccccceecc---ccc--------------------------CCCCCCCCCC----CCCCCCCceeEeccccCcCCHHHHH
Q psy3698          90 LCGRVEVVP---WAI--------------------------SDSNYSPQGH----STKLEPGKTIFVGALHGRLTAQALY  136 (534)
Q Consensus        90 ~~k~VQVrP---w~l--------------------------sds~~~~~~~----s~~~d~~ktIFVGNLP~~~TeedLr  136 (534)
                      ..-+..+..   -..                          .+........    ........+|||.||.+++|.++|.
T Consensus       454 e~aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~  533 (725)
T KOG0110|consen  454 EWAPEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLE  533 (725)
T ss_pred             ccChhhhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHH
Confidence            000001100   000                          0000000000    0001112339999999999999999


Q ss_pred             HHhhhcCCCeEEEEEecCCCC----CCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         137 NVMNDLFGDVVYAGIDTDKHK----YPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       137 eiF~s~FG~Vv~V~I~~DkTG----~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..| .+.|.|..+.|...+..    .+.|||||.|.+.++|.+|++++.
T Consensus       534 ~~F-~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq  581 (725)
T KOG0110|consen  534 DLF-SKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ  581 (725)
T ss_pred             HHH-HhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc
Confidence            999 88999999998776533    246999999999999999999965

>KOG0121|consensus

Probab=98.97  E-value=9.3e-10  Score=100.89  Aligned_cols=76  Identities=12%  Similarity=0.053  Sum_probs=63.5

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      ....|++||||||++.+|||+|.++|+++|+|..+.+-.|+.+. .+-||+||+| +. +|+.||+- +..++..+.+.+
T Consensus        32 a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kk-tpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~  110 (153)
T KOG0121|consen   32 ALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKK-TPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRI  110 (153)
T ss_pred             HHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCc-CccceEEEEEecchhHHHHHHHhccCcccccceee
Confidence            34568999999999999999999999999999999998998876 8899999999 44 88888875 555555555444

>smart00362 RRM_2 RNA recognition motif

Probab=98.97  E-value=2.1e-09  Score=82.10  Aligned_cols=66  Identities=21%  Similarity=0.181  Sum_probs=53.7

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      +|||+|||..+++++|+++|++||+|..+.+..+.  + .++|+|||+| +. ++++|++. .+..+.++.+
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~-~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i   69 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--G-KSKGFAFVEFESEEDAEKAIEALNGTKLGGRPL   69 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--C-CCCceEEEEeCCHHHHHHHHHHhCCcEECCEEE
Confidence            59999999999999999999999999998888776  4 7899999999 54 78888875 3344444433

>KOG0106|consensus

Probab=98.97  E-value=8e-10  Score=109.05  Aligned_cols=139  Identities=14%  Similarity=0.096  Sum_probs=101.9

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~l  101 (534)
                      .+||||+||+.+.+.+|..+|..||.|.++.+..         ||+||.| .. +|+.|+.. ..+.+.+.. .+.-|..
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~---------gf~fv~fed~rda~Dav~~l~~~~l~~e~-~vve~~r   71 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN---------GFGFVEFEDPRDADDAVHDLDGKELCGER-LVVEHAR   71 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceeec---------ccceeccCchhhhhcccchhcCceeccee-eeeeccc
Confidence            5799999999999999999999999998765432         7999999 55 88887776 444444433 3333332


Q ss_pred             CC------CCCC-----CCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCH
Q psy3698         102 SD------SNYS-----PQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGST  170 (534)
Q Consensus       102 sd------s~~~-----~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~  170 (534)
                      ..      ....     ......+......++|-+++..+.+.+|.+.| ..+|.+.++.+       .+++|||.|+.+
T Consensus        72 ~~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~-~~~g~~~~~~~-------~~~~~~v~Fs~~  143 (216)
T KOG0106|consen   72 GKRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHF-RPAGEVTYVDA-------RRNFAFVEFSEQ  143 (216)
T ss_pred             ccccccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhh-cccCCCchhhh-------hccccceeehhh
Confidence            11      0000     00111122345778999999999999999999 99999966554       468999999999


Q ss_pred             HHHHHHHHhcC
Q psy3698         171 RAYSDAIRAAF  181 (534)
Q Consensus       171 EsA~kAIea~~  181 (534)
                      +++.+||....
T Consensus       144 ~da~ra~~~l~  154 (216)
T KOG0106|consen  144 EDAKRALEKLD  154 (216)
T ss_pred             hhhhhcchhcc
Confidence            99999998754

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.97  E-value=1.7e-09  Score=109.33  Aligned_cols=73  Identities=15%  Similarity=0.250  Sum_probs=61.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeecc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDP  197 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIkP  197 (534)
                      .++|||+|||+.+|+++|+++| +.||.|++|.|..|+.  ++|||||+|.+.++|..||......+.    .+.|.|.+
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefF-S~~G~I~~V~I~~d~~--~~GfAFVtF~d~eaAe~AllLnG~~l~----gr~V~Vt~   76 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFF-SFSGDIEYVEMQSENE--RSQIAYVTFKDPQGAETALLLSGATIV----DQSVTITP   76 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEeecCC--CCCEEEEEeCcHHHHHHHHHhcCCeeC----CceEEEEe
Confidence            4789999999999999999999 9999999999998863  579999999999999999975444444    34455554

>KOG0122|consensus

Probab=98.96  E-value=1.3e-09  Score=108.75  Aligned_cols=65  Identities=22%  Similarity=0.236  Sum_probs=61.6

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +...+|-|-||+.+++|++|.++| ..||.|..+.|.+|+ ||.+||||||+|.++++|.+||+.++
T Consensus       187 ~D~~tvRvtNLsed~~E~dL~eLf-~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~Ln  252 (270)
T KOG0122|consen  187 DDEATVRVTNLSEDMREDDLEELF-RPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLN  252 (270)
T ss_pred             CccceeEEecCccccChhHHHHHh-hccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHcc
Confidence            346789999999999999999999 999999999999999 99999999999999999999999865

>smart00360 RRM RNA recognition motif

Probab=98.95  E-value=3.9e-09  Score=80.21  Aligned_cols=58  Identities=24%  Similarity=0.296  Sum_probs=54.6

Q ss_pred             eccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         123 VGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       123 VGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |+|||..+++++|+++| +.||.|..+.|..++ ++.++|+|||+|.+.++|.+|++...
T Consensus         1 i~~l~~~~~~~~l~~~f-~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~   59 (71)
T smart00360        1 VGNLPPDVTEEELRELF-SKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALN   59 (71)
T ss_pred             CCCCCcccCHHHHHHHH-HhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcC
Confidence            68999999999999999 899999999999887 79999999999999999999998766

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

Probab=98.94  E-value=2.2e-09  Score=119.67  Aligned_cols=65  Identities=15%  Similarity=0.174  Sum_probs=60.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ....+|||||||..+++++|+++| +.||.|..+.|..|+ ++++||||||+|.+.++|.+||+..+
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF-~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~ln  170 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAF-DPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMN  170 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHH-HccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcC
Confidence            345789999999999999999999 899999999999998 99999999999999999999998765

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.

>smart00360 RRM RNA recognition motif

Probab=98.92  E-value=3.2e-09  Score=80.68  Aligned_cols=65  Identities=18%  Similarity=0.134  Sum_probs=53.0

Q ss_pred             EeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcC-CCCccccc
Q psy3698          29 IGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWAT-EGNLCGRV   94 (534)
Q Consensus        29 VGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ss-r~i~~k~V   94 (534)
                      |+|||+++++++|+++|++||.|..+.+..++.++ .++|||||+| +. +|++|++... ..+.++.+
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~-~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~   68 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTG-KSKGFAFVEFESEEDAEKALEALNGKELDGRPL   68 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCC-CCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEE
Confidence            68999999999999999999999999998887766 8999999999 54 8888887532 44444433

>KOG0125|consensus

Probab=98.86  E-value=4.9e-09  Score=108.09  Aligned_cols=77  Identities=13%  Similarity=0.047  Sum_probs=64.8

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-h-HHHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-S-ELVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-s-EsAeaALq~-ssr~i~~k~V   94 (534)
                      ...+...++|.|.|||+..-|.||+.+|++||+|+++.|+.+..   .|||||||+| + +++++|-++ .+-.+.+|.|
T Consensus        90 s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNER---GSKGFGFVTmen~~dadRARa~LHgt~VEGRkI  166 (376)
T KOG0125|consen   90 SSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNER---GSKGFGFVTMENPADADRARAELHGTVVEGRKI  166 (376)
T ss_pred             CCCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccC---CCCccceEEecChhhHHHHHHHhhcceeeceEE
Confidence            46666778999999999999999999999999999999887654   6899999999 3 388887776 5566777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      +|.
T Consensus       167 EVn  169 (376)
T KOG0125|consen  167 EVN  169 (376)
T ss_pred             EEe
Confidence            776

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.85  E-value=8.7e-09  Score=103.09  Aligned_cols=74  Identities=18%  Similarity=0.174  Sum_probs=62.9

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeecc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDP  197 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIkP  197 (534)
                      .++|||+||++.+|+++|+++| +.||.|.+|.|..|.  ..+|||||+|.+.+++..||.-..-.|.    ...|.|.|
T Consensus         5 g~TV~V~NLS~~tTE~dLrefF-S~~G~I~~V~I~~D~--et~gfAfVtF~d~~aaetAllLnGa~l~----d~~I~It~   77 (243)
T PLN03121          5 GYTAEVTNLSPKATEKDVYDFF-SHCGAIEHVEIIRSG--EYACTAYVTFKDAYALETAVLLSGATIV----DQRVCITR   77 (243)
T ss_pred             ceEEEEecCCCCCCHHHHHHHH-HhcCCeEEEEEecCC--CcceEEEEEECCHHHHHHHHhcCCCeeC----CceEEEEe
Confidence            4899999999999999999999 999999999999984  4568999999999999999965554443    34577776


Q ss_pred             c
Q psy3698         198 Y  198 (534)
Q Consensus       198 y  198 (534)
                      +
T Consensus        78 ~   78 (243)
T PLN03121         78 W   78 (243)
T ss_pred             C
Confidence            5

>KOG0147|consensus

Probab=98.85  E-value=1.2e-08  Score=110.76  Aligned_cols=56  Identities=16%  Similarity=0.270  Sum_probs=51.6

Q ss_pred             EEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHh
Q psy3698          27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQ   83 (534)
Q Consensus        27 VFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq   83 (534)
                      |+||||-+++||+.|+.+|+.||.|..+.+++|..|| ++||||||+|  .|.+++|+.
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG-~skgfGfi~f~~~~~ar~a~e  338 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETG-RSKGFGFITFVNKEDARKALE  338 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeeccccccc-cccCcceEEEecHHHHHHHHH
Confidence            9999999999999999999999999999999999889 9999999999  556666644

>KOG0107|consensus

Probab=98.81  E-value=6.7e-09  Score=99.43  Aligned_cols=69  Identities=16%  Similarity=0.296  Sum_probs=53.9

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCcccccee
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQV   96 (534)
                      ...+|||||||+.++++.||..+|..||+|..+||.+.      +.|||||+|.+  +|+.|+.. ..+.+-+..+.|
T Consensus         8 ~~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn------PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rV   79 (195)
T KOG0107|consen    8 NGNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN------PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRV   79 (195)
T ss_pred             CCCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec------CCCceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence            34689999999999999999999999999999999883      45899999933  66666653 444444444433

>KOG4207|consensus

Probab=98.80  E-value=8.5e-09  Score=101.01  Aligned_cols=82  Identities=22%  Similarity=0.240  Sum_probs=70.1

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCc-eeeccceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFI-EVKSGRICK  191 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~v-eIk~~k~~K  191 (534)
                      .++...+|-|-||-+.++.++|+.+| ++||.|.+|.|+.|+ |+.++|||||-|.+..+|+.|++++.. .|...  .-
T Consensus         9 dv~gm~SLkVdNLTyRTspd~LrrvF-ekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgR--el   85 (256)
T KOG4207|consen    9 DVEGMTSLKVDNLTYRTSPDDLRRVF-EKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGR--EL   85 (256)
T ss_pred             CcccceeEEecceeccCCHHHHHHHH-HHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccc--ee
Confidence            45566889999999999999999999 999999999999999 999999999999999999999998763 33332  23


Q ss_pred             eeeeccc
Q psy3698         192 KLQIDPY  198 (534)
Q Consensus       192 rVeIkPy  198 (534)
                      +||+.-|
T Consensus        86 rVq~ary   92 (256)
T KOG4207|consen   86 RVQMARY   92 (256)
T ss_pred             eehhhhc
Confidence            5777666

>PLN03213 repressor of silencing 3; Provisional

Probab=98.79  E-value=1.3e-08  Score=109.34  Aligned_cols=73  Identities=18%  Similarity=0.070  Sum_probs=57.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH---HHHHHHhh-cCCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE---LVLILGQW-ATEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE---sAeaALq~-ssr~i~~k~   93 (534)
                      ......-+||||||++++|+++|+.+|++||.|..+.|+++  +|   ||||||+| .+   ++++||.. .+....++.
T Consensus         5 es~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpRE--TG---RGFAFVEMssdddaEeeKAISaLNGAEWKGR~   79 (759)
T PLN03213          5 SSGGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVRT--KG---RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGR   79 (759)
T ss_pred             ccCCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEecc--cC---CceEEEEecCCcHHHHHHHHHHhcCCeecCce
Confidence            34455679999999999999999999999999999999854  44   89999999 33   67888875 444444444


Q ss_pred             cee
Q psy3698          94 VEV   96 (534)
Q Consensus        94 VQV   96 (534)
                      ++|
T Consensus        80 LKV   82 (759)
T PLN03213         80 LRL   82 (759)
T ss_pred             eEE
Confidence            444

>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=98.78  E-value=3e-08  Score=76.10  Aligned_cols=62  Identities=27%  Similarity=0.326  Sum_probs=57.2

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCc
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~v  182 (534)
                      +|+|+|||..+++++|+++| +.||.|..+.+..++.+.++|+|||+|.+.++|..|++...-
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~-~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~   62 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELF-SKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNG   62 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHH-HhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCC
Confidence            48999999999999999999 889999999999988668899999999999999999987653

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).

>KOG0122|consensus

Probab=98.76  E-value=1.3e-08  Score=101.57  Aligned_cols=70  Identities=16%  Similarity=0.075  Sum_probs=60.7

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNL   90 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~   90 (534)
                      +..+.++|=|.||+.+++|++|+++|.+||.|..+.+.+|+.|| .+||||||+| ++ +|.+||+. ++..+.
T Consensus       185 ~R~D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG-~~kGFAFVtF~sRddA~rAI~~LnG~gyd  257 (270)
T KOG0122|consen  185 ERDDEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETG-LSKGFAFVTFESRDDAARAIADLNGYGYD  257 (270)
T ss_pred             cCCccceeEEecCccccChhHHHHHhhccCccceeEEEEccccC-cccceEEEEEecHHHHHHHHHHccCcccc
Confidence            44578899999999999999999999999999999999999999 9999999999 55 77777765 444433

>KOG0126|consensus

Probab=98.75  E-value=1.3e-09  Score=104.90  Aligned_cols=63  Identities=21%  Similarity=0.282  Sum_probs=59.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..-|||||||+.+||.||..+| ++||+|+.|.+++|+ ||++|||||..|++..+..-||...+
T Consensus        35 sA~Iyiggl~~~LtEgDil~VF-SqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~N   98 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVF-SQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLN   98 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEe-eccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccC
Confidence            4669999999999999999999 999999999999998 99999999999999999999987755

>KOG1457|consensus

Probab=98.75  E-value=5.4e-08  Score=96.42  Aligned_cols=59  Identities=15%  Similarity=0.198  Sum_probs=47.0

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..||||.||..++||++|+.+| +.|-.....+|.. +.  ....|||+|++.+.|..|+...
T Consensus       210 cstlfianl~~~~~ed~l~~~~-~~~~gf~~l~~~~-~~--g~~vaf~~~~~~~~at~am~~l  268 (284)
T KOG1457|consen  210 CSTLFIANLGPNCTEDELKQLL-SRYPGFHILKIRA-RG--GMPVAFADFEEIEQATDAMNHL  268 (284)
T ss_pred             hhhHhhhccCCCCCHHHHHHHH-HhCCCceEEEEec-CC--CcceEeecHHHHHHHHHHHHHh
Confidence            4789999999999999999999 8998887777644 22  2346888888888887777653

>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=98.75  E-value=4.3e-08  Score=75.24  Aligned_cols=69  Identities=20%  Similarity=0.176  Sum_probs=54.9

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhc-CCCCcccccee
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWA-TEGNLCGRVEV   96 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s-sr~i~~k~VQV   96 (534)
                      +|+|+|||+++++++|+++|+.||.|..+.+..+..+  .++|+|||+| +. +++.|++.. ...+.++.+++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~--~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v   72 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT--KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRV   72 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC--CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            5899999999999999999999999999888887654  6789999999 54 888888753 22244444443

This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).

>KOG0126|consensus

Probab=98.74  E-value=1.2e-09  Score=105.23  Aligned_cols=77  Identities=21%  Similarity=0.243  Sum_probs=60.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHH-hhcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILG-QWATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaAL-q~ssr~i~~k~VQ   95 (534)
                      .+-.++.=|||||||+++||.+|.-+|++||+|+.+.+++|+.|| +++||||+.|.+  +.--|+ +.++-.|.+|.+.
T Consensus        30 ~~YkdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TG-KSKGFaFLcYEDQRSTILAVDN~NGiki~gRtir  108 (219)
T KOG0126|consen   30 QEYKDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTG-KSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIR  108 (219)
T ss_pred             hhcccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCC-cccceEEEEecCccceEEEEeccCCceecceeEE
Confidence            344566789999999999999999999999999999999999999 999999999933  432223 2244444445444


Q ss_pred             e
Q psy3698          96 V   96 (534)
Q Consensus        96 V   96 (534)
                      |
T Consensus       109 V  109 (219)
T KOG0126|consen  109 V  109 (219)
T ss_pred             e
Confidence            4

>KOG4205|consensus

Probab=98.72  E-value=1.1e-08  Score=106.08  Aligned_cols=74  Identities=28%  Similarity=0.275  Sum_probs=68.0

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVP   98 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrP   98 (534)
                      ..|||||+||.+++|++|+++|++||.|..+.+|.|..+. ++|||+||+| .| +|++++......+..+.+.|+.
T Consensus        97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~-~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkr  172 (311)
T KOG4205|consen   97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTS-RPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKR  172 (311)
T ss_pred             eeEEEecCcCCCCchHHHhhhhhccceeEeeEEeeccccc-ccccceeeEeccccccceecccceeeecCceeeEee
Confidence            5699999999999999999999999999999999999988 9999999999 77 9999999877888888888763

>KOG0107|consensus

Probab=98.72  E-value=2.9e-08  Score=95.14  Aligned_cols=59  Identities=24%  Similarity=0.350  Sum_probs=54.1

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+||||||+..+++.||..+| ..||.+-.|-|..    .|-|||||+|++..+|..|+..+.
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F-~~yG~lrsvWvAr----nPPGfAFVEFed~RDA~DAvr~LD   68 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAF-SKYGPLRSVWVAR----NPPGFAFVEFEDPRDAEDAVRYLD   68 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHH-HhcCcceeEEEee----cCCCceEEeccCcccHHHHHhhcC
Confidence            5789999999999999999999 9999999998887    478999999999999999998755

>PLN03213 repressor of silencing 3; Provisional

Probab=98.71  E-value=3e-08  Score=106.61  Aligned_cols=67  Identities=16%  Similarity=0.199  Sum_probs=57.7

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCH--HHHHHHHHhcC-ceeecc
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGST--RAYSDAIRAAF-IEVKSG  187 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~--EsA~kAIea~~-veIk~~  187 (534)
                      ...+||||||++.+|+++|+++| ..||.|..|.|++ .+|  ||||||+|.+.  +++.+||...+ .+++++
T Consensus         9 ~gMRIYVGNLSydVTEDDLravF-SeFGsVkdVEIpR-ETG--RGFAFVEMssdddaEeeKAISaLNGAEWKGR   78 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIF-SPMGTVDAVEFVR-TKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGG   78 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEec-ccC--CceEEEEecCCcHHHHHHHHHHhcCCeecCc
Confidence            35789999999999999999999 9999999999994 366  99999999987  78999999866 444443

>KOG4454|consensus

Probab=98.69  E-value=5.3e-09  Score=103.12  Aligned_cols=132  Identities=21%  Similarity=0.212  Sum_probs=107.5

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      +...++|||+|+--.++|+.|.++|-+-|+|..+.|..++..  ..| ||||.| .| +|.-|++. ++-.+..+++|+.
T Consensus         6 ae~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~--~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~   82 (267)
T KOG4454|consen    6 AEMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQ--EQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQRT   82 (267)
T ss_pred             cchhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccC--CCc-eeeeecccccchhhhhhhcccchhccchhhcc
Confidence            345599999999999999999999999999999988887663  456 999999 88 99988886 4444444555444


Q ss_pred             ccccCCCCCCCCCCCCCCCCCceeEecc----ccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHH
Q psy3698          98 PWAISDSNYSPQGHSTKLEPGKTIFVGA----LHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAY  173 (534)
Q Consensus        98 Pw~lsds~~~~~~~s~~~d~~ktIFVGN----LP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA  173 (534)
                                             ++-|+    |...++++.+...| +.-|.+..++|+++..++++-++||++--..+.
T Consensus        83 -----------------------~r~G~shapld~r~~~ei~~~v~-s~a~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~  138 (267)
T KOG4454|consen   83 -----------------------LRCGNSHAPLDERVTEEILYEVF-SQAGPIEGVRIPTDNDGRNRNFGFVTYQRLCAV  138 (267)
T ss_pred             -----------------------cccCCCcchhhhhcchhhheeee-cccCCCCCccccccccCCccCccchhhhhhhcC
Confidence                                   44455    67778999999999 999999999999999999999999998766666


Q ss_pred             HHHHHh
Q psy3698         174 SDAIRA  179 (534)
Q Consensus       174 ~kAIea  179 (534)
                      -.|+..
T Consensus       139 P~~~~~  144 (267)
T KOG4454|consen  139 PFALDL  144 (267)
T ss_pred             cHHhhh
Confidence            566543

>KOG4210|consensus

Probab=98.69  E-value=2.2e-08  Score=102.70  Aligned_cols=169  Identities=17%  Similarity=0.063  Sum_probs=121.0

Q ss_pred             ccccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-h-HHHHHHHh
Q psy3698           6 KTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-S-ELVLILGQ   83 (534)
Q Consensus         6 ~tWsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-s-EsAeaALq   83 (534)
                      .-|.+.++...  ......+++|+|++-+.+.+.++..+|.+.|.+..+......... .++||++|.| . +.+..+|+
T Consensus        72 ~~~~~~~s~~~--~~~~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~-~sk~~~s~~f~~ks~~~~~l~  148 (285)
T KOG4210|consen   72 LSEEDSLSSKE--ELRGSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSL-SSKGGLSVHFAGKSQFFAALE  148 (285)
T ss_pred             hhhcccccCCc--ccccccccccccccccchhhccccccchhhcCcccchhhhhcccc-ccccceeeccccHHHHHHHHH
Confidence            34555554443  111468899999999999999999999999998887777766666 8999999999 4 47777777


Q ss_pred             hcCCCCc-cccceecccccCCCCCCC-CCCCCCCCCCceeE-eccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCC
Q psy3698          84 WATEGNL-CGRVEVVPWAISDSNYSP-QGHSTKLEPGKTIF-VGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYP  159 (534)
Q Consensus        84 ~ssr~i~-~k~VQVrPw~lsds~~~~-~~~s~~~d~~ktIF-VGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~p  159 (534)
                      +...... ...+.. +....-..... ...........++| |++|+..+++++|+..| ..+|.|..++++.++ ++..
T Consensus       149 ~s~~~~~~~~~~~~-dl~~~~~~~~~n~~~~~~~~~s~~~~~~~~~~f~~~~d~~~~~~-~~~~~i~~~r~~~~~~s~~~  226 (285)
T KOG4210|consen  149 ESGSKVLDGNKGEK-DLNTRRGLRPKNKLSRLSSGPSDTIFFVGELDFSLTRDDLKEHF-VSSGEITSVRLPTDEESGDS  226 (285)
T ss_pred             hhhccccccccccC-cccccccccccchhcccccCccccceeecccccccchHHHhhhc-cCcCcceeeccCCCCCccch
Confidence            6443111 111110 00000000000 01112233456676 99999999999999999 899999999999998 9999


Q ss_pred             ceEEEEEeCCHHHHHHHHHh
Q psy3698         160 IGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       160 KGfGFVtF~d~EsA~kAIea  179 (534)
                      +|||+|.|.+.....+|+..
T Consensus       227 kg~a~~~~~~~~~~~~~~~~  246 (285)
T KOG4210|consen  227 KGFAYVDFSAGNSKKLALND  246 (285)
T ss_pred             hhhhhhhhhhchhHHHHhhc
Confidence            99999999999999999874

>KOG0128|consensus

Probab=98.68  E-value=1.6e-09  Score=121.80  Aligned_cols=135  Identities=13%  Similarity=0.037  Sum_probs=112.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceeccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPW   99 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw   99 (534)
                      .+.+++||.||+..+.+++|...|..+|.+.++.+..-...+ +.||+||+.| .+ .+.++|......           
T Consensus       665 R~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~-~~rG~~Y~~F~~~~~~~aaV~f~d~~-----------  732 (881)
T KOG0128|consen  665 RDLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEK-RFRGKAYVEFLKPEHAGAAVAFRDSC-----------  732 (881)
T ss_pred             HHHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhcc-ccccceeeEeecCCchhhhhhhhhhh-----------
Confidence            345789999999999999999999999999877766444445 8999999999 55 777777631111           


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                                     ...+..|||.|+|+..|.++|+.++ ..+|.+..+++++.+.|+|||-|||.|.++.++.+++.+
T Consensus       733 ---------------~~gK~~v~i~g~pf~gt~e~~k~l~-~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~~s  796 (881)
T KOG0128|consen  733 ---------------FFGKISVAISGPPFQGTKEELKSLA-SKTGNVTSLRLVTVRAGKPKGKARVDYNTEADASRKVAS  796 (881)
T ss_pred             ---------------hhhhhhhheeCCCCCCchHHHHhhc-cccCCccccchhhhhccccccceeccCCCcchhhhhccc
Confidence                           1124679999999999999999999 999999999999988999999999999999999999877


Q ss_pred             cCcee
Q psy3698         180 AFIEV  184 (534)
Q Consensus       180 ~~veI  184 (534)
                      ..+.+
T Consensus       797 ~d~~~  801 (881)
T KOG0128|consen  797 VDVAG  801 (881)
T ss_pred             chhhh
Confidence            55433

>KOG0146|consensus

Probab=98.65  E-value=2.2e-08  Score=101.14  Aligned_cols=79  Identities=18%  Similarity=0.272  Sum_probs=68.6

Q ss_pred             ccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHH
Q psy3698          92 GRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTR  171 (534)
Q Consensus        92 k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~E  171 (534)
                      |.+||+|.....          +....++||||-|.+.-.|||++.+| ..||.|.+|.+.+.+.|.+||+|||.|.++-
T Consensus         3 rpiqvkpadses----------rg~~drklfvgml~kqq~e~dvrrlf-~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~   71 (371)
T KOG0146|consen    3 RPIQVKPADSES----------RGGDDRKLFVGMLNKQQSEDDVRRLF-QPFGNIEECTVLRGPDGNSKGCAFVKFSSHA   71 (371)
T ss_pred             CCcccccccccc----------CCccchhhhhhhhcccccHHHHHHHh-cccCCcceeEEecCCCCCCCCceEEEeccch
Confidence            677887633211          12246889999999999999999999 9999999999999999999999999999999


Q ss_pred             HHHHHHHhcC
Q psy3698         172 AYSDAIRAAF  181 (534)
Q Consensus       172 sA~kAIea~~  181 (534)
                      +|..||.+.+
T Consensus        72 eAqaAI~aLH   81 (371)
T KOG0146|consen   72 EAQAAINALH   81 (371)
T ss_pred             HHHHHHHHhc
Confidence            9999999977

>KOG0108|consensus

Probab=98.62  E-value=5.8e-08  Score=104.66  Aligned_cols=72  Identities=22%  Similarity=0.265  Sum_probs=64.1

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      +.|||||||++++|++|.++|+..|.|...+++.|+.|| ++|||||++| .+ .+..|++. .+..+.++.+++.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG-~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~   93 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETG-KPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVN   93 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCC-CcCceeeEecCchhhHHHHHHhcCCcccCCceEEee
Confidence            889999999999999999999999999999999999999 9999999999 54 77777765 6677777777664

>KOG4207|consensus

Probab=98.58  E-value=1e-07  Score=93.54  Aligned_cols=72  Identities=10%  Similarity=0.006  Sum_probs=60.4

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      -..|-|-||-+-+|.++|+.+|++||.|-++.|.+|+.|+ .++|||||.| .. +|+.|++. .+..+.++++.|
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr-~sRgFaFVrf~~k~daedA~damDG~~ldgRelrV   87 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTR-QSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRV   87 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccceecccccccc-cccceeEEEeeecchHHHHHHhhcceeeccceeee
Confidence            4578999999999999999999999999999999999998 9999999999 33 77777775 444455555443

>KOG4212|consensus

Probab=98.55  E-value=1.3e-07  Score=100.57  Aligned_cols=70  Identities=17%  Similarity=0.274  Sum_probs=64.2

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeecc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKSG  187 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~~  187 (534)
                      .+.+||.|+|+++.+++|+++|.++.|+|++|.+..|..|++||+|.|+|.++|.++||++..+ .+++..
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR  114 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGR  114 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCc
Confidence            4569999999999999999999999999999999999999999999999999999999999876 444443

>KOG0121|consensus

Probab=98.54  E-value=1.1e-07  Score=87.41  Aligned_cols=63  Identities=25%  Similarity=0.348  Sum_probs=59.1

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ...|||||||++.+|||+|.++| ++.|.|..|.+-.|+ ++.|-||.||.|.+.++|..||+-.
T Consensus        35 ~S~tvyVgNlSfyttEEqiyELF-s~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryi   98 (153)
T KOG0121|consen   35 KSCTVYVGNLSFYTTEEQIYELF-SKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYI   98 (153)
T ss_pred             hcceEEEeeeeeeecHHHHHHHH-HhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHh
Confidence            46899999999999999999999 999999999999998 8889999999999999999998753

>KOG0108|consensus

Probab=98.53  E-value=1.3e-07  Score=101.94  Aligned_cols=67  Identities=22%  Similarity=0.294  Sum_probs=62.5

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceeec
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVKS  186 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk~  186 (534)
                      ..|||||+|+++++++|.++| +..|.|..++++.|+ +|++|||||++|.+.+.+.+||+..+ .++..
T Consensus        19 ~~v~vgnip~~~se~~l~~~~-~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~g   87 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIF-SGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNG   87 (435)
T ss_pred             cceEecCCCCcccHHHHHHHH-hccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCC
Confidence            789999999999999999999 999999999999998 99999999999999999999999876 44443

>KOG0131|consensus

Probab=98.53  E-value=1.2e-07  Score=91.43  Aligned_cols=65  Identities=25%  Similarity=0.354  Sum_probs=61.3

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +...|||||||+..++++.|.++| -+.|.|+.+.|+.|+ +...+|||||+|.++|+|+-||+-.+
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~-iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln   72 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELF-IQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILN   72 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHH-HhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHH
Confidence            456899999999999999999999 899999999999999 88999999999999999999998765

>KOG0111|consensus

Probab=98.47  E-value=1e-07  Score=94.28  Aligned_cols=65  Identities=25%  Similarity=0.326  Sum_probs=61.5

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+++||||+|...+||.-|...| =.||.|.++.|+.|. +++.||||||+|...|+|.+||..++
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAF-IPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMn   73 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAF-IPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMN   73 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhcc-ccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCc
Confidence            457899999999999999999999 899999999999997 99999999999999999999998866

>KOG0114|consensus

Probab=98.46  E-value=4.9e-07  Score=80.68  Aligned_cols=76  Identities=11%  Similarity=0.157  Sum_probs=60.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQV   96 (534)
                      ++...+-|||.|||++||.|++.++|.+||.|..++|..++.|    ||-|||+|.+  +|++|+.. ++..+..+-+.+
T Consensus        14 ppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~T----rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~v   89 (124)
T KOG0114|consen   14 PPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKET----RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVV   89 (124)
T ss_pred             ChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccCc----CceEEEEehHhhhHHHHHHHhcccccCCceEEE
Confidence            4455688999999999999999999999999999999887765    5999999955  88888875 444444444444


Q ss_pred             ccc
Q psy3698          97 VPW   99 (534)
Q Consensus        97 rPw   99 (534)
                      .-|
T Consensus        90 lyy   92 (124)
T KOG0114|consen   90 LYY   92 (124)
T ss_pred             Eec
Confidence            433

>KOG1365|consensus

Probab=98.46  E-value=1.1e-06  Score=92.65  Aligned_cols=152  Identities=13%  Similarity=0.144  Sum_probs=104.6

Q ss_pred             eEEEeCCCCCCCHHHHHHHhh-----ccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce---
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFS-----QFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE---   95 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~Fs-----qFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ---   95 (534)
                      -|=+.|||+++|+.++.++|.     .-|...+..+.+..  | +..|=|||.| .| .|+.||......|..|-|+   
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpd--g-rpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFR  239 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPD--G-RPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFR  239 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCC--C-CcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHH
Confidence            356689999999999999997     33455555565532  4 7889999999 77 9999998744333322221   


Q ss_pred             --------eccccc----C---CCCCCCC---CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCC-CeEE--EEEecC
Q psy3698          96 --------VVPWAI----S---DSNYSPQ---GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVY--AGIDTD  154 (534)
Q Consensus        96 --------VrPw~l----s---ds~~~~~---~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~--V~I~~D  154 (534)
                              +.....    .   .+.....   ....+...+..|-+.+||+..+-|+|.++| ..|- .|..  |.++.+
T Consensus       240 STaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~Fl-gdFa~~i~f~gVHmv~N  318 (508)
T KOG1365|consen  240 STAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFL-GDFATDIRFQGVHMVLN  318 (508)
T ss_pred             HhHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHH-HHHhhhcccceeEEEEc
Confidence                    110000    0   0000000   001122336789999999999999999999 5565 4444  678888


Q ss_pred             CCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         155 KHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       155 kTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..|+|.|-|||.|.+.|+|.+|.++.+
T Consensus       319 ~qGrPSGeAFIqm~nae~a~aaaqk~h  345 (508)
T KOG1365|consen  319 GQGRPSGEAFIQMRNAERARAAAQKCH  345 (508)
T ss_pred             CCCCcChhhhhhhhhhHHHHHHHHHHH
Confidence            899999999999999999999987755

>KOG1548|consensus

Probab=98.46  E-value=3.9e-06  Score=87.53  Aligned_cols=154  Identities=14%  Similarity=0.170  Sum_probs=100.7

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeE--------EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV--------EWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNL   90 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~--------v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~   90 (534)
                      ..-..|||.|||.++|-+++.++|+++|-|..        |++-++.. | ..||=|.+.| .+ +|+-|++. ..-.++
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 KVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-G-KLKGDALCCYIKRESVELAIKILDEDELR  209 (382)
T ss_pred             ccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-C-CccCceEEEeecccHHHHHHHHhCccccc
Confidence            33456999999999999999999999998742        34445444 5 7899999999 55 99999887 222233


Q ss_pred             cccceecccccC-CCCC--------------------------CCC-CCCCCCCCCceeEeccc----cCcCC-------
Q psy3698          91 CGRVEVVPWAIS-DSNY--------------------------SPQ-GHSTKLEPGKTIFVGAL----HGRLT-------  131 (534)
Q Consensus        91 ~k~VQVrPw~ls-ds~~--------------------------~~~-~~s~~~d~~ktIFVGNL----P~~~T-------  131 (534)
                      ++.++|...... ...+                          ... ....+....++|.+.||    -...+       
T Consensus       210 g~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~dl  289 (382)
T KOG1548|consen  210 GKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLNDL  289 (382)
T ss_pred             CcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHHH
Confidence            333333211100 0000                          000 01112233578888887    12233       


Q ss_pred             HHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         132 AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       132 eedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++|++-- ++||.|..|.|--   ..|.|.+-|.|.+.+.|+.+|+.+.
T Consensus       290 kedl~eec-~K~G~v~~vvv~d---~hPdGvvtV~f~n~eeA~~ciq~m~  335 (382)
T KOG1548|consen  290 KEDLTEEC-EKFGQVRKVVVYD---RHPDGVVTVSFRNNEEADQCIQTMD  335 (382)
T ss_pred             HHHHHHHH-HHhCCcceEEEec---cCCCceeEEEeCChHHHHHHHHHhc
Confidence            23444556 7899999987653   2378999999999999999999865

>KOG0132|consensus

Probab=98.43  E-value=3.7e-07  Score=102.47  Aligned_cols=77  Identities=17%  Similarity=0.267  Sum_probs=62.2

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ....++|++||||+|+..++|.+|+++|+.||+|..+.++       .+||+|||+. .. +|++||++ ++..+..+.|
T Consensus       415 d~isV~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li-------~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~I  487 (894)
T KOG0132|consen  415 DHISVCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILI-------PPRGCAFIKMVRRQDAEKALQKLSNVKVADKTI  487 (894)
T ss_pred             cceeEeeeeeeeccccchhhHHHHHHHHHhcccceeEeec-------cCCceeEEEEeehhHHHHHHHHHhcccccceee
Confidence            3467899999999999999999999999999999988765       3578999999 55 88888876 4455555555


Q ss_pred             eecccccC
Q psy3698          95 EVVPWAIS  102 (534)
Q Consensus        95 QVrPw~ls  102 (534)
                      .+. |.+.
T Consensus       488 ki~-Wa~g  494 (894)
T KOG0132|consen  488 KIA-WAVG  494 (894)
T ss_pred             EEe-eecc
Confidence            554 7764

>smart00361 RRM_1 RNA recognition motif

Probab=98.43  E-value=5.6e-07  Score=73.03  Aligned_cols=49  Identities=22%  Similarity=0.206  Sum_probs=43.5

Q ss_pred             HHHHHHHhhh----cCCCeEEEE-EecCC-C--CCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         132 AQALYNVMND----LFGDVVYAG-IDTDK-H--KYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       132 eedLreiF~s----~FG~Vv~V~-I~~Dk-T--G~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +++|+++| +    .||.|..+. |..|+ +  +.+||||||+|.+.++|.+||+..+
T Consensus         2 ~~~l~~~~-~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~   58 (70)
T smart00361        2 DEDFEREF-SEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLN   58 (70)
T ss_pred             chhHHHHH-HHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhC
Confidence            67899999 7    999999995 77776 5  8999999999999999999999755

>KOG0130|consensus

Probab=98.42  E-value=3.7e-07  Score=84.74  Aligned_cols=67  Identities=19%  Similarity=0.319  Sum_probs=62.4

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.....-|||.+++...|++++.+.| ..||+|..+.+..|. ||+.||||.|+|++.+.|++||.+.+
T Consensus        68 rSVEGwIi~VtgvHeEatEedi~d~F-~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~N  135 (170)
T KOG0130|consen   68 RSVEGWIIFVTGVHEEATEEDIHDKF-ADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALN  135 (170)
T ss_pred             cceeeEEEEEeccCcchhHHHHHHHH-hhcccccceeeccccccccccceeeeehHhHHHHHHHHHhcc
Confidence            33456789999999999999999999 999999999999998 99999999999999999999999877

>KOG0120|consensus

Probab=98.40  E-value=2e-06  Score=93.95  Aligned_cols=171  Identities=16%  Similarity=0.138  Sum_probs=107.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ..+...+|+|||+||..+++.+++++.+.||.+....+.+|..++ .+|||||-+|.+  -.+.|+.. ++..+..+.+.
T Consensus       284 ~~~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g-~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lv  362 (500)
T KOG0120|consen  284 DVPDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATG-NSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLV  362 (500)
T ss_pred             CcccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccc-cccceeeeeeeCCcchhhhhcccchhhhcCceeE
Confidence            556667899999999999999999999999999999999999887 899999999933  22233322 22222222211


Q ss_pred             e----------cccccCCCCCCCCCC----CCCCCCCceeEeccccCcCCHHHHH------HH-------hhhcCCCeEE
Q psy3698          96 V----------VPWAISDSNYSPQGH----STKLEPGKTIFVGALHGRLTAQALY------NV-------MNDLFGDVVY  148 (534)
Q Consensus        96 V----------rPw~lsds~~~~~~~----s~~~d~~ktIFVGNLP~~~TeedLr------ei-------F~s~FG~Vv~  148 (534)
                      +          .+|............    .....++..|-   |-..+|.++|+      ++       + ..||.|..
T Consensus       363 vq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~---L~n~Vt~deLkdd~EyeeIlEdvr~ec-~k~g~v~~  438 (500)
T KOG0120|consen  363 VQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLC---LTNVVTPDELKDDEEYEEILEDVRTEC-AKFGAVRS  438 (500)
T ss_pred             eehhhccchhccccCCccccccccchhhhcccCCCcchhhh---hhhcCCHHHhcchHHHHHHHHHHHHHh-cccCceeE
Confidence            1          111110000000000    00111222222   33344554443      33       4 56999999


Q ss_pred             EEEecC-CC---CCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeeccc
Q psy3698         149 AGIDTD-KH---KYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQIDPY  198 (534)
Q Consensus       149 V~I~~D-kT---G~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIkPy  198 (534)
                      |.|.++ ..   .-.-|--||+|.+.+++++|.++    +.+.+|..++-+--|
T Consensus       439 v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~----L~GrKF~nRtVvtsY  488 (500)
T KOG0120|consen  439 VEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEE----LTGRKFANRTVVASY  488 (500)
T ss_pred             EecCCCCCCCCcCCCcccEEEEecChHHHHHHHHH----ccCceeCCcEEEEEe
Confidence            999988 42   33357779999999999999987    456666665555444

>KOG0111|consensus

Probab=98.39  E-value=1.9e-07  Score=92.43  Aligned_cols=77  Identities=16%  Similarity=0.124  Sum_probs=63.0

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq-~ssr~i~~k~VQV   96 (534)
                      .....|+||||||..++||.-|...|-.||.|.++.+..|..+. ++||||||+|  .|+|.+|+. ++...+-+|.+.|
T Consensus         6 ~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesq-kHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirV   84 (298)
T KOG0111|consen    6 MANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQ-KHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRV   84 (298)
T ss_pred             ccccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcc-cccceeEEEeeccchhHHHhhcCchhhhcceeEEE
Confidence            34567999999999999999999999999999999999999888 9999999999  555555554 4555555565555


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        85 N   85 (298)
T KOG0111|consen   85 N   85 (298)
T ss_pred             e
Confidence            3

>KOG0109|consensus

Probab=98.37  E-value=3.4e-07  Score=93.56  Aligned_cols=83  Identities=24%  Similarity=0.376  Sum_probs=63.4

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC--------ceeecccee
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF--------IEVKSGRIC  190 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~--------veIk~~k~~  190 (534)
                      .+|||||||..+++.+|+.+| ++||+|++|.|+.       .||||..+++..+..||...+        |.|+-.+..
T Consensus         3 ~KLFIGNLp~~~~~~elr~lF-e~ygkVlECDIvK-------NYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK   74 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLF-EQYGKVLECDIVK-------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK   74 (346)
T ss_pred             cchhccCCCcccchHHHHHHH-HhhCceEeeeeec-------ccceEEeecccccHHHHhhcccceecceEEEEEecccc
Confidence            469999999999999999999 9999999999876       699999999999999999754        333333322


Q ss_pred             eeeeeccccccccccccCCC
Q psy3698         191 KKLQIDPYLEDNVCSECQTH  210 (534)
Q Consensus       191 KrVeIkPyLeDq~CdeC~~~  210 (534)
                      .+...|++ .-.+|..|..+
T Consensus        75 sk~stkl~-vgNis~tctn~   93 (346)
T KOG0109|consen   75 SKASTKLH-VGNISPTCTNQ   93 (346)
T ss_pred             CCCccccc-cCCCCccccCH
Confidence            23333443 33567777653

>KOG0114|consensus

Probab=98.36  E-value=1.2e-06  Score=78.23  Aligned_cols=63  Identities=14%  Similarity=0.280  Sum_probs=56.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +-.+-|||.|||+.+|.|+..++| .+||.|..++|-.++  .-||.|||.|++..+|.+|++...
T Consensus        16 evnriLyirNLp~~ITseemydlF-Gkyg~IrQIRiG~~k--~TrGTAFVVYedi~dAk~A~dhls   78 (124)
T KOG0114|consen   16 EVNRILYIRNLPFKITSEEMYDLF-GKYGTIRQIRIGNTK--ETRGTAFVVYEDIFDAKKACDHLS   78 (124)
T ss_pred             hhheeEEEecCCccccHHHHHHHh-hcccceEEEEecCcc--CcCceEEEEehHhhhHHHHHHHhc
Confidence            446789999999999999999999 999999999987754  458999999999999999998754

>KOG0226|consensus

Probab=98.30  E-value=9.8e-07  Score=88.89  Aligned_cols=147  Identities=17%  Similarity=0.154  Sum_probs=106.0

Q ss_pred             CeEEEeCCCCCCCHHH-H--HHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccceec-
Q psy3698          25 NKIFIGGVPWDTPEYL-L--LTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEVV-   97 (534)
Q Consensus        25 rKVFVGNLP~diTEee-L--re~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQVr-   97 (534)
                      -..|++++-.++..+- |  ...|+.+-.+..-.+.+++-.  .-++++|+.|..  +..++-.+ .++.+...+|... 
T Consensus        97 f~p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~p~--~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~  174 (290)
T KOG0226|consen   97 FRPFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDRPQ--PIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAA  174 (290)
T ss_pred             ccccccccccccCCCCCCcchhhhccchhhhhhhhhhcCCC--ccCcccccCcchhhhhhhhccccccccccCcceeecc
Confidence            3577888877777766 4  778888888877777776542  557899999933  33333222 3333332222221 


Q ss_pred             --ccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHH
Q psy3698          98 --PWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        98 --Pw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~  174 (534)
                        .|.  |.     ......+...+||.|.|..+++++-|...| .+|-.-..+++.+|+ ||++||||||.|.+..++.
T Consensus       175 gtswe--dP-----sl~ew~~~DfRIfcgdlgNevnd~vl~raf-~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~  246 (290)
T KOG0226|consen  175 GTSWE--DP-----SLAEWDEDDFRIFCGDLGNEVNDDVLARAF-KKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYV  246 (290)
T ss_pred             ccccC--Cc-----ccccCccccceeecccccccccHHHHHHHH-HhccchhhccccccccccccccceeeeecCHHHHH
Confidence              111  11     111223456889999999999999999999 999999999999998 9999999999999999999


Q ss_pred             HHHHhcC
Q psy3698         175 DAIRAAF  181 (534)
Q Consensus       175 kAIea~~  181 (534)
                      +|+....
T Consensus       247 rAmrem~  253 (290)
T KOG0226|consen  247 RAMREMN  253 (290)
T ss_pred             HHHHhhc
Confidence            9998865

>smart00361 RRM_1 RNA recognition motif

Probab=98.29  E-value=1.4e-06  Score=70.74  Aligned_cols=58  Identities=10%  Similarity=-0.227  Sum_probs=43.5

Q ss_pred             CHHHHHHHhh----ccCCeeEEe-ecCCCCC--CCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          37 PEYLLLTVFS----QFGPVKVEW-PQGTPES--PTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        37 TEeeLre~Fs----qFG~V~~v~-~~rD~~T--g~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .+++|+++|+    +||.|..+. +..++.+  + .+||||||+| ++ +|.+|++. .++.+.++.+.
T Consensus         1 ~~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~-~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~   68 (70)
T smart00361        1 KDEDFEREFSEEEEYFGEVGKINKIYIDNVGYEN-HKRGNVYITFERSEDAARAIVDLNGRYFDGRTVK   68 (70)
T ss_pred             CchhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCC-CCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            3688999999    999999885 5565544  6 8999999999 55 88888875 55555555443

>KOG0105|consensus

Probab=98.25  E-value=1.1e-06  Score=85.26  Aligned_cols=61  Identities=20%  Similarity=0.322  Sum_probs=53.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+|||||||.++.+.+|.++| -+||.|..+.+..  .-.+-.||||+|++..+|+.||..+.
T Consensus         6 ~~~iyvGNLP~diRekeieDlF-yKyg~i~~ieLK~--r~g~ppfafVeFEd~RDAeDAiygRd   66 (241)
T KOG0105|consen    6 SRRIYVGNLPGDIREKEIEDLF-YKYGRIREIELKN--RPGPPPFAFVEFEDPRDAEDAIYGRD   66 (241)
T ss_pred             cceEEecCCCcchhhccHHHHH-hhhcceEEEEecc--CCCCCCeeEEEecCccchhhhhhccc
Confidence            5789999999999999999999 9999999887644  22356899999999999999998876

>KOG0120|consensus

Probab=98.22  E-value=3.2e-06  Score=92.45  Aligned_cols=155  Identities=15%  Similarity=0.147  Sum_probs=108.5

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhcc-----------CC-eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQF-----------GP-VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqF-----------G~-V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      ......++++|+++|..++|+++-.+|..-           |+ |..+.+-       ..+.||||+| +. .+..++..
T Consensus       170 ~~t~q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n-------~~~nfa~ie~~s~~~at~~~~~  242 (500)
T KOG0120|consen  170 QATRQARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLN-------LEKNFAFIEFRSISEATEAMAL  242 (500)
T ss_pred             chhhhhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeec-------ccccceeEEecCCCchhhhhcc
Confidence            444456899999999999999999999764           33 3333332       3457999999 44 56555555


Q ss_pred             cCCCCccccceec--------ccccCCC----CCCC-CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEE
Q psy3698          85 ATEGNLCGRVEVV--------PWAISDS----NYSP-QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI  151 (534)
Q Consensus        85 ssr~i~~k~VQVr--------Pw~lsds----~~~~-~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I  151 (534)
                      ......+.++.++        |-.....    .+.. .......+...+||||+||..+++.++++++ +.||.+....+
T Consensus       243 ~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell-~~fg~lk~f~l  321 (500)
T KOG0120|consen  243 DGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELL-DSFGPLKAFRL  321 (500)
T ss_pred             cchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHH-Hhcccchhhee
Confidence            3322233222221        0000000    0000 0112223456889999999999999999999 99999999999


Q ss_pred             ecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         152 DTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       152 ~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..|. +|.+|||||.+|-+......||+..+
T Consensus       322 v~d~~~g~skg~af~ey~dpsvtd~A~agLn  352 (500)
T KOG0120|consen  322 VKDSATGNSKGFAFCEYCDPSVTDQAIAGLN  352 (500)
T ss_pred             ecccccccccceeeeeeeCCcchhhhhcccc
Confidence            9998 89999999999999999999998876

>KOG0112|consensus

Probab=98.20  E-value=1.1e-06  Score=99.85  Aligned_cols=143  Identities=15%  Similarity=0.065  Sum_probs=108.8

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hH-HHHHHHhhcCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sE-sAeaALq~ssr~i~~k~V   94 (534)
                      .+.....++||+|||+.++++.+|+..|..+|.|..+.+..... + +---||||.|  .+ +-.+.+++..+.|..-..
T Consensus       366 ~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~-~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~  443 (975)
T KOG0112|consen  366 LDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-K-TESAYAFVSLLNTDMTPSAKFEESGPLIGNGTH  443 (975)
T ss_pred             ccchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-C-cccchhhhhhhccccCcccchhhcCCccccCcc
Confidence            35667789999999999999999999999999998887766532 1 2235999999  44 555556656665553332


Q ss_pred             eecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHH
Q psy3698          95 EVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYS  174 (534)
Q Consensus        95 QVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~  174 (534)
                      ++.            .......+...++||+|+.++.-..|...| +.||.|..+.+..     .--||+|.|.+...++
T Consensus       444 r~g------------lG~~kst~ttr~~sgglg~w~p~~~l~r~f-d~fGpir~Idy~h-----gq~yayi~yes~~~aq  505 (975)
T KOG0112|consen  444 RIG------------LGQPKSTPTTRLQSGGLGPWSPVSRLNREF-DRFGPIRIIDYRH-----GQPYAYIQYESPPAAQ  505 (975)
T ss_pred             ccc------------ccccccccceeeccCCCCCCChHHHHHHHh-hccCcceeeeccc-----CCcceeeecccCccch
Confidence            222            111244567889999999999999999999 9999999865544     3358999999999999


Q ss_pred             HHHHhc
Q psy3698         175 DAIRAA  180 (534)
Q Consensus       175 kAIea~  180 (534)
                      .|+..+
T Consensus       506 ~a~~~~  511 (975)
T KOG0112|consen  506 AATHDM  511 (975)
T ss_pred             hhHHHH
Confidence            998763

>KOG4211|consensus

Probab=98.16  E-value=1.1e-05  Score=87.33  Aligned_cols=154  Identities=16%  Similarity=0.142  Sum_probs=105.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeE-EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec--
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV-EWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV--   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~-v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr--   97 (534)
                      ..--|=+.+|||.+||+||.++|+-.-.|.. +.+..+.. + ++.|=|||.| +. +|+.||+.....|..+-|+|-  
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~r-g-R~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~S  179 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQR-G-RPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRS  179 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCC-C-CcccceEEEecCHHHHHHHHHHHHHhhccceEEeehh
Confidence            3456888999999999999999998766654 33444444 4 6889999999 55 999999873322222211110  


Q ss_pred             --------------------cccc---------------------------------------CC------------CCC
Q psy3698          98 --------------------PWAI---------------------------------------SD------------SNY  106 (534)
Q Consensus        98 --------------------Pw~l---------------------------------------sd------------s~~  106 (534)
                                          |+..                                       .+            .++
T Consensus       180 s~~e~~~~~~~~~~~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~  259 (510)
T KOG4211|consen  180 SRAEVKRAAGPGDGRVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNY  259 (510)
T ss_pred             HHHHHHhhccccccccCCCCccccccCCccccccccccCCCccccccccccCCccccccCcccccccccccccccccccc
Confidence                                0000                                       00            000


Q ss_pred             CCCCCCC---------CCCC-CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHH
Q psy3698         107 SPQGHST---------KLEP-GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus       107 ~~~~~s~---------~~d~-~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kA  176 (534)
                      .......         .... ...+...+||+..++.++.++|  ...+...|.|.+.++|+..|=|.|.|.++++|..|
T Consensus       260 ~~~~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfF--spl~p~~v~i~ig~dGr~TGEAdveF~t~edav~A  337 (510)
T KOG4211|consen  260 PVSSGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFF--SPLNPYRVHIEIGPDGRATGEADVEFATGEDAVGA  337 (510)
T ss_pred             CCCCCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhc--CCCCceeEEEEeCCCCccCCcceeecccchhhHhh
Confidence            0000000         0011 1556779999999999999999  46667799999999999999999999999999999


Q ss_pred             HHhc
Q psy3698         177 IRAA  180 (534)
Q Consensus       177 Iea~  180 (534)
                      +.+-
T Consensus       338 mskd  341 (510)
T KOG4211|consen  338 MGKD  341 (510)
T ss_pred             hccC
Confidence            8663

>KOG0132|consensus

Probab=98.11  E-value=4.2e-06  Score=94.22  Aligned_cols=58  Identities=22%  Similarity=0.358  Sum_probs=55.0

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+|||||+|+..+++.||+++| +.||.|.+|.+..     +||+|||+....++|.+|+++..
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~f-eefGeiqSi~li~-----~R~cAfI~M~~RqdA~kalqkl~  478 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLF-EEFGEIQSIILIP-----PRGCAFIKMVRRQDAEKALQKLS  478 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHH-HhcccceeEeecc-----CCceeEEEEeehhHHHHHHHHHh
Confidence            4899999999999999999999 9999999998877     89999999999999999999865

>KOG0130|consensus

Probab=98.11  E-value=4.7e-06  Score=77.55  Aligned_cols=75  Identities=19%  Similarity=0.112  Sum_probs=63.5

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      .=-|||.++-..+||++|.+.|..||+|+.+.+-.|+.|| ..||||.|+| +- .|++|+.. ++..+-+..++|- |.
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtG-y~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD-w~  149 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTG-YVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD-WC  149 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccc-cccceeeeehHhHHHHHHHHHhccchhhhCCceeEE-EE
Confidence            3469999999999999999999999999999999999999 9999999999 44 78888876 4456666666665 44

>KOG0124|consensus

Probab=98.03  E-value=5.1e-06  Score=87.26  Aligned_cols=70  Identities=17%  Similarity=0.214  Sum_probs=63.6

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGR  188 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k  188 (534)
                      -.+||||.+.+.+.|+.|+..| ..||.|.++.+.-|+ |++.||||||+|+-.|.|+-|++..+..+-.++
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF-~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGR  183 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAF-DPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGR  183 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhc-cCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCc
Confidence            3679999999999999999999 999999999999998 999999999999999999999999875544443

>KOG0415|consensus

Probab=97.95  E-value=7.2e-06  Score=85.90  Aligned_cols=87  Identities=15%  Similarity=0.007  Sum_probs=67.9

Q ss_pred             ccccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHH-H
Q psy3698           6 KTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLIL-G   82 (534)
Q Consensus         6 ~tWsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaA-L   82 (534)
                      .-.-|.||-.+ .  ..-.+-|||-.|.+-+|.++|.-+|+.||+|..|.|++|..|| -+.-||||+| .. +.++| .
T Consensus       224 LEmvGDlpdAd-~--~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktg-dsLqyaFiEFen~escE~AyF  299 (479)
T KOG0415|consen  224 LEMVGDLPDAD-V--KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTG-DSLQYAFIEFENKESCEQAYF  299 (479)
T ss_pred             HHHhcCCcccc-c--CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEeccccc-chhheeeeeecchhhHHHHHh
Confidence            44568888766 2  2224679999999999999999999999999999999999999 9999999999 44 55555 4


Q ss_pred             hhcCCCCcccccee
Q psy3698          83 QWATEGNLCGRVEV   96 (534)
Q Consensus        83 q~ssr~i~~k~VQV   96 (534)
                      ++.+--|..+.|.|
T Consensus       300 KMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  300 KMDNVLIDDRRIHV  313 (479)
T ss_pred             hhcceeeccceEEe
Confidence            55544455555544

>KOG0116|consensus

Probab=97.93  E-value=1.2e-05  Score=86.80  Aligned_cols=72  Identities=21%  Similarity=0.130  Sum_probs=56.0

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ..|||+|||.++++++|+++|.+||+|+...|......+ +...||||+| .. +++.+|+.+...+.++.+.|.
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~-~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Ve  362 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGG-KNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVE  362 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCC-CcCceEEEEEeecchhhhhhhcCccccCCeeEEEE
Confidence            459999999999999999999999999877665533212 3338999999 55 999999987656666555554

>KOG1190|consensus

Probab=97.92  E-value=3.3e-05  Score=82.28  Aligned_cols=145  Identities=17%  Similarity=0.144  Sum_probs=93.0

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh---cCCCCcccccee
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW---ATEGNLCGRVEV   96 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~---ssr~i~~k~VQV   96 (534)
                      ..++-|-+++|||+++|+||.+++.+||+|..+...+-+.       -|||+| .+ +|-.++.-   ..+.++++++-+
T Consensus        26 ~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGkn-------QAflem~d~~sAvtmv~~y~~~~p~lr~~~~yi   98 (492)
T KOG1190|consen   26 EPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKN-------QAFLEMADEESAVTMVNYYTSVTPVLRGQPIYI   98 (492)
T ss_pred             CCcceeEeccCCccccHHHHHHhcccccceeeeeeeccch-------hhhhhhcchhhhhheeecccccCccccCcceee
Confidence            3677899999999999999999999999998877666432       589999 55 44432221   111111111110


Q ss_pred             -----------------c--------------ccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCC
Q psy3698          97 -----------------V--------------PWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGD  145 (534)
Q Consensus        97 -----------------r--------------Pw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~  145 (534)
                                       +              .-.+....... .......+--.++|+++-+.++-+-|..+| ++||.
T Consensus        99 q~sn~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~-G~~~~~n~vLr~iie~m~ypVslDVLHqvF-S~fG~  176 (492)
T KOG1190|consen   99 QYSNHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVV-GNEDGPNPVLRTIIENMFYPVSLDVLHQVF-SKFGF  176 (492)
T ss_pred             hhhhHHHHhccCchhhhhhhhHHhhhhcccccccccccccccc-cccCCCceeEEEEeccceeeeEHHHHHHHH-hhcce
Confidence                             0              00000000110 111111234568999999999999999999 99999


Q ss_pred             eEEEEEecCCCCCCce-EEEEEeCCHHHHHHHHHh
Q psy3698         146 VVYAGIDTDKHKYPIG-SGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       146 Vv~V~I~~DkTG~pKG-fGFVtF~d~EsA~kAIea  179 (534)
                      |..+.--. |   .-| -|.|.|.+.+.|..|-.+
T Consensus       177 VlKIiTF~-K---nn~FQALvQy~d~~sAq~AK~a  207 (492)
T KOG1190|consen  177 VLKIITFT-K---NNGFQALVQYTDAVSAQAAKLA  207 (492)
T ss_pred             eEEEEEEe-c---ccchhhhhhccchhhHHHHHHh
Confidence            98764333 2   223 378999999998887544

>KOG4208|consensus

Probab=97.92  E-value=1.7e-05  Score=78.00  Aligned_cols=72  Identities=18%  Similarity=0.158  Sum_probs=55.8

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhcc-CCeeEEeecCCCCCCCCCCcEEEEEe-hHHHHHHHh--hcCCCCcccccee
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQF-GPVKVEWPQGTPESPTAPKAISLDVI-SELVLILGQ--WATEGNLCGRVEV   96 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqF-G~V~~v~~~rD~~Tg~rsRGYAFVtF-sEsAeaALq--~ssr~i~~k~VQV   96 (534)
                      ..=++|+.||.-+.|.+|..+|.+| |.|...++.|++.|| .|||||||+| +++|.++.+  |++.-+-.+.+++
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTG-NSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c  124 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTG-NSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLEC  124 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccC-CcCceEEEEeccHHHHHHHHHHhhhhhhhhheeee
Confidence            3458999999999999999999999 788888888999999 9999999999 664444443  3444444444443

>KOG0153|consensus

Probab=97.87  E-value=2.8e-05  Score=81.29  Aligned_cols=59  Identities=22%  Similarity=0.359  Sum_probs=54.9

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .-++||||+|-..++|.+|++.| .+||+|..+.|..     .+|+|||+|.++++|.+|.++.+
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhF-yqyGeirsi~~~~-----~~~CAFv~ftTR~aAE~Aae~~~  285 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHF-YQYGEIRSIRILP-----RKGCAFVTFTTREAAEKAAEKSF  285 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHH-hhcCCeeeEEeec-----ccccceeeehhhHHHHHHHHhhc
Confidence            34899999999999999999999 9999999999988     67899999999999999998876

>PF13893 RRM_5: RNA recognition motif

Probab=97.86  E-value=4e-05  Score=59.07  Aligned_cols=42  Identities=29%  Similarity=0.351  Sum_probs=36.7

Q ss_pred             HHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         135 LYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       135 LreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |+++| ++||+|..+.+..++    +|+|||+|.+.++|.+|++..+
T Consensus         1 L~~~f-~~fG~V~~i~~~~~~----~~~a~V~f~~~~~A~~a~~~l~   42 (56)
T PF13893_consen    1 LYKLF-SKFGEVKKIKIFKKK----RGFAFVEFASVEDAQKAIEQLN   42 (56)
T ss_dssp             HHHHH-TTTS-EEEEEEETTS----TTEEEEEESSHHHHHHHHHHHT
T ss_pred             ChHHh-CCcccEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhC
Confidence            68899 999999999987744    6999999999999999999765

(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 ....

>KOG0116|consensus

Probab=97.84  E-value=1.9e-05  Score=85.19  Aligned_cols=70  Identities=27%  Similarity=0.333  Sum_probs=59.6

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGR  188 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k  188 (534)
                      ..+|||+|||.+++.++|++.| ..||.|...+|..-. .++...||||+|.+.+++..||++.-+.+...+
T Consensus       288 ~~~i~V~nlP~da~~~~l~~~F-k~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~k  358 (419)
T KOG0116|consen  288 GLGIFVKNLPPDATPAELEEVF-KQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRK  358 (419)
T ss_pred             ccceEeecCCCCCCHHHHHHHH-hhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCee
Confidence            4569999999999999999999 999999999998854 333349999999999999999999866665433

>KOG4209|consensus

Probab=97.81  E-value=2.1e-05  Score=78.85  Aligned_cols=84  Identities=14%  Similarity=0.041  Sum_probs=73.4

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhhcCCCCccccce
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~ssr~i~~k~VQ   95 (534)
                      ....++.+.|||||+.+.+|-+++...|+.||.|..+.+..|+.++ .+|||+||+|.+  .++.++++....+.++.+.
T Consensus        95 ~~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~-~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~  173 (231)
T KOG4209|consen   95 RQKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRG-HPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIE  173 (231)
T ss_pred             hhhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCC-CcceeEEEecccHhhhHHHhhcCCcccccccce
Confidence            4678889999999999999999999999999999988999998888 799999999933  8999999888888888887


Q ss_pred             ecccccC
Q psy3698          96 VVPWAIS  102 (534)
Q Consensus        96 VrPw~ls  102 (534)
                      +..+...
T Consensus       174 vt~~r~~  180 (231)
T KOG4209|consen  174 VTLKRTN  180 (231)
T ss_pred             eeeeeee
Confidence            7765544

>KOG4208|consensus

Probab=97.74  E-value=7e-05  Score=73.72  Aligned_cols=64  Identities=16%  Similarity=0.175  Sum_probs=56.5

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcC-CCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLF-GDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~F-G~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...-++|+.+|.-+.+.+|..+| .+| |.|..+++.+.+ ||.+||||||.|++.+.|.-|-+.++
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~-~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMN  113 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYF-RQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMN  113 (214)
T ss_pred             CccceeecccccchhHHHHhhhh-hhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhh
Confidence            34568999999999999999999 666 777788887887 99999999999999999999988876

>KOG4206|consensus

Probab=97.73  E-value=7.8e-05  Score=74.08  Aligned_cols=64  Identities=23%  Similarity=0.371  Sum_probs=55.5

Q ss_pred             CCCCceeEeccccCcCCHHHHHH----HhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYN----VMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLre----iF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+..||||.||...+..++|+.    +| ++||.|++|...  ++.+.||.|||.|.+.++|-.|+.+..
T Consensus         6 ~~pn~TlYInnLnekI~~~elkrsL~~LF-sqfG~ildI~a~--kt~KmRGQA~VvFk~~~~As~A~r~l~   73 (221)
T KOG4206|consen    6 VNPNGTLYINNLNEKIKKDELKRSLYLLF-SQFGKILDISAF--KTPKMRGQAFVVFKETEAASAALRALQ   73 (221)
T ss_pred             cCCCceEeehhccccccHHHHHHHHHHHH-HhhCCeEEEEec--CCCCccCceEEEecChhHHHHHHHHhc
Confidence            34556999999999999999998    99 999999987654  477789999999999999999998754

>KOG0415|consensus

Probab=97.70  E-value=3.6e-05  Score=80.82  Aligned_cols=69  Identities=19%  Similarity=0.258  Sum_probs=61.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhc-Cceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAA-FIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~-~veIk  185 (534)
                      .|...|||.-|-+-+|+++|.-+| +.||.|+.|.|++|. ||.+--||||+|++.+++.+|--++ +|-|.
T Consensus       237 PPeNVLFVCKLNPVTtDeDLeiIF-SrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLID  307 (479)
T KOG0415|consen  237 PPENVLFVCKLNPVTTDEDLEIIF-SRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLID  307 (479)
T ss_pred             CCcceEEEEecCCcccccchhhHH-hhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeec
Confidence            456889999999999999999999 999999999999997 9999999999999999999986443 34443

>KOG0153|consensus

Probab=97.70  E-value=6.8e-05  Score=78.50  Aligned_cols=73  Identities=14%  Similarity=0.127  Sum_probs=57.6

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh--cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW--ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~--ssr~i~~k~VQVr   97 (534)
                      ....+||||||-..++|.+|++.|.+||+|..+.+...       +|+|||+| +. +|+.|.++  +.-.|.+..+.++
T Consensus       226 ~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~-------~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~  298 (377)
T KOG0153|consen  226 TSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPR-------KGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIK  298 (377)
T ss_pred             cceeEEEecccccchhHHHHHHHHhhcCCeeeEEeecc-------cccceeeehhhHHHHHHHHhhcceeeecceEEEEE
Confidence            45678999999989999999999999999998877653       46999999 55 77777665  3345566677776


Q ss_pred             ccccC
Q psy3698          98 PWAIS  102 (534)
Q Consensus        98 Pw~ls  102 (534)
                       |...
T Consensus       299 -Wg~~  302 (377)
T KOG0153|consen  299 -WGRP  302 (377)
T ss_pred             -eCCC
Confidence             6654

>PF13893 RRM_5: RNA recognition motif

Probab=97.65  E-value=9.5e-05  Score=56.97  Aligned_cols=50  Identities=18%  Similarity=0.039  Sum_probs=37.7

Q ss_pred             HHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          41 LLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        41 Lre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      |+++|++||+|..+.+.++.      +|+|||+| +. +|++|++. ++..+.++.+.+
T Consensus         1 L~~~f~~fG~V~~i~~~~~~------~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V   53 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK------RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKV   53 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS------TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            78999999999998887753      48999999 55 88888874 555566665554

(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 ....

>KOG0533|consensus

Probab=97.61  E-value=0.00014  Score=73.47  Aligned_cols=67  Identities=13%  Similarity=0.271  Sum_probs=61.8

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeec
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKS  186 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~  186 (534)
                      .+|.|.|||..++++||+++| +.||.+..+.|..|+.|.+.|.|-|+|...++|.+||+..+ |.+..
T Consensus        84 ~~v~v~NL~~~V~~~Dl~eLF-~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG  151 (243)
T KOG0533|consen   84 TKVNVSNLPYGVIDADLKELF-AEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDG  151 (243)
T ss_pred             ceeeeecCCcCcchHHHHHHH-HHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCC
Confidence            779999999999999999999 99999999999999999999999999999999999999866 44443

>KOG1365|consensus

Probab=97.54  E-value=0.00055  Score=72.77  Aligned_cols=147  Identities=13%  Similarity=0.029  Sum_probs=98.9

Q ss_pred             EEEeCCCCCCCHHHHHHHhhccC----CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecccc
Q psy3698          27 IFIGGVPWDTPEYLLLTVFSQFG----PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPWA  100 (534)
Q Consensus        27 VFVGNLP~diTEeeLre~FsqFG----~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw~  100 (534)
                      |=..+|||...+.+|..+|.---    -+..|....    + +-.|.|.|.| ++ .-+-+++.....|..+.+.+-...
T Consensus        63 vRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~q----g-rRnge~lvrf~d~e~RdlalkRhkhh~g~ryievYka~  137 (508)
T KOG1365|consen   63 VRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQ----G-RRNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYKAT  137 (508)
T ss_pred             EEecCCCCCcccCCHHHHHhhhhccccceeeeehhh----h-ccccceEEEecCchhhhhhhHhhhhhccCCceeeeccC
Confidence            34589999999999999997532    222332222    2 3348999999 44 777788876666666666654221


Q ss_pred             cCCCCCCCC----CCCCCC--CCCceeEeccccCcCCHHHHHHHhhhc----CCCeEEEEEecCCCCCCceEEEEEeCCH
Q psy3698         101 ISDSNYSPQ----GHSTKL--EPGKTIFVGALHGRLTAQALYNVMNDL----FGDVVYAGIDTDKHKYPIGSGRITFGST  170 (534)
Q Consensus       101 lsds~~~~~----~~s~~~--d~~ktIFVGNLP~~~TeedLreiF~s~----FG~Vv~V~I~~DkTG~pKGfGFVtF~d~  170 (534)
                      ..+-.....    ......  ...--|-+.+||+++|+.|+.++| ..    -|.++.|-+++.+.|++.|-|||.|..+
T Consensus       138 ge~f~~iagg~s~e~~~flsk~~qvivRmRGLPfdat~~dVv~FF-~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~e  216 (508)
T KOG1365|consen  138 GEEFLKIAGGTSNEAAPFLSKENQVIVRMRGLPFDATALDVVEFF-GPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACE  216 (508)
T ss_pred             chhheEecCCccccCCCCCCcccceEEEecCCCCCcchHHHHHhc-CCCCcccCCccceEEEECCCCCcccceEEEecCH
Confidence            111100000    001111  112345679999999999999999 31    3567777778877999999999999999


Q ss_pred             HHHHHHHHh
Q psy3698         171 RAYSDAIRA  179 (534)
Q Consensus       171 EsA~kAIea  179 (534)
                      +.|+.||.+
T Consensus       217 e~aq~aL~k  225 (508)
T KOG1365|consen  217 EDAQFALRK  225 (508)
T ss_pred             HHHHHHHHH
Confidence            999999876

>KOG4661|consensus

Probab=97.54  E-value=0.00011  Score=80.76  Aligned_cols=63  Identities=22%  Similarity=0.312  Sum_probs=58.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++|||.+|...+.+.+|+.+| ++||+|+-++|+++. +--.+.||||++.+.++|.++|+.++
T Consensus       405 gRNlWVSGLSstTRAtDLKnlF-SKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLH  468 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLF-SKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLH  468 (940)
T ss_pred             ccceeeeccccchhhhHHHHHH-HHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhh
Confidence            4889999999999999999999 999999999999986 55569999999999999999999876

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

Probab=97.51  E-value=0.00052  Score=60.51  Aligned_cols=63  Identities=19%  Similarity=0.307  Sum_probs=53.6

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcC-CCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLF-GDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~F-G~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .||-|.|+|...|.++|.+++++.+ |....+-+++|- ++-..|||||.|.+++.+.+-.+..+
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            5899999999999999999996664 556666788886 88899999999999999988776643

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

>KOG1190|consensus

Probab=97.51  E-value=0.001  Score=71.21  Aligned_cols=148  Identities=12%  Similarity=0.057  Sum_probs=101.4

Q ss_pred             cCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccceeccc
Q psy3698          24 SNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVEVVPW   99 (534)
Q Consensus        24 SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQVrPw   99 (534)
                      .+-|-|.||-. .+|++.|..+|.-||.|..++|..++..      -|.|.+.|  .|+-|++. .+..+-++.+.+..-
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkkd------~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~S  370 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKKD------NALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLS  370 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCCc------ceeeeecchhHHHHHHHHhhcceecCceEEEeec
Confidence            36788888854 5799999999999999999999887654      49999966  55555543 444444455444321


Q ss_pred             cc----------CCCCCCCCCC---------------CCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecC
Q psy3698         100 AI----------SDSNYSPQGH---------------STKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTD  154 (534)
Q Consensus       100 ~l----------sds~~~~~~~---------------s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~D  154 (534)
                      +.          .|..+.....               ..-..+..++...|+|.+++||+|++.| ..-|.++.+..-  
T Consensus       371 KH~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f-~~~g~~vkafkf--  447 (492)
T KOG1190|consen  371 KHTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLF-QEPGGQVKAFKF--  447 (492)
T ss_pred             cCccccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhh-hcCCceEEeeee--
Confidence            11          1222221100               0012456889999999999999999999 666766555432  


Q ss_pred             CCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         155 KHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       155 kTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                       .++.+-+|.+.+++.|.|..|+-..+
T Consensus       448 -f~kd~kmal~q~~sveeA~~ali~~h  473 (492)
T KOG1190|consen  448 -FQKDRKMALPQLESVEEAIQALIDLH  473 (492)
T ss_pred             -cCCCcceeecccCChhHhhhhccccc
Confidence             23345689999999999999986653

>KOG4660|consensus

Probab=97.49  E-value=0.0001  Score=80.93  Aligned_cols=69  Identities=12%  Similarity=0.174  Sum_probs=53.5

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh-cCCCCccccce
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ....+.|+|-|||.++++++|+.+|+.||+|+.+..     +. ..+|..||+|-|  .|++||++ +.+.|.++.++
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~-----t~-~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRE-----TP-NKRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhc-----cc-ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            345689999999999999999999999999987322     22 457999999933  78888876 55566655554

>KOG0226|consensus

Probab=97.48  E-value=9e-05  Score=75.04  Aligned_cols=78  Identities=9%  Similarity=0.015  Sum_probs=64.8

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq-~ssr~i~~k~VQ   95 (534)
                      +.+.+.-+||.|.|--+++.+-|-..|.+|-.-....+++|+.|+ +++||+||.|.+  +..+|+. +..+.+..+.+.
T Consensus       185 ew~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTg-KSkgygfVSf~~pad~~rAmrem~gkyVgsrpik  263 (290)
T KOG0226|consen  185 EWDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTG-KSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK  263 (290)
T ss_pred             cCccccceeecccccccccHHHHHHHHHhccchhhcccccccccc-ccccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence            445556789999999999999999999999999999999999999 999999999943  5555555 466777776666


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      .+
T Consensus       264 lR  265 (290)
T KOG0226|consen  264 LR  265 (290)
T ss_pred             hh
Confidence            55

>KOG4209|consensus

Probab=97.44  E-value=0.00015  Score=72.79  Aligned_cols=73  Identities=18%  Similarity=0.210  Sum_probs=64.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccce
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRI  189 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~  189 (534)
                      .....+||||+.+.+|.+++...| +-+|.|..+.|..|+ ++.+||||||.|.+.+.++.|++....++....+
T Consensus        99 ~d~~sv~v~nvd~~~t~~~~e~hf-~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i  172 (231)
T KOG4209|consen   99 VDAPSVWVGNVDFLVTLTKIELHF-ESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAI  172 (231)
T ss_pred             cCCceEEEeccccccccchhhhee-eccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccc
Confidence            345789999999999999999999 999999999999999 7789999999999999999999966656655444

>KOG4454|consensus

Probab=97.43  E-value=0.0001  Score=73.44  Aligned_cols=64  Identities=16%  Similarity=0.141  Sum_probs=59.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +..+||||+||-..++|+-|.++| -.-|.|..|.|..++.+.+| ||||.|.++-++.-|++-.+
T Consensus         7 e~drtl~v~n~~~~v~eelL~Elf-iqaGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~n   70 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELF-IQAGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLEN   70 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHh-hccCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcc
Confidence            346899999999999999999999 89999999999999988889 99999999999999987644

>KOG4307|consensus

Probab=97.25  E-value=0.00062  Score=76.57  Aligned_cols=156  Identities=8%  Similarity=-0.100  Sum_probs=105.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecc--
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVP--   98 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrP--   98 (534)
                      +.+.+=+.+.+++..+.+++++|---- |....+.++...+ .-.|-++|.| .- ++++|++.....+..|.+|+.|  
T Consensus       310 d~~y~~~~gm~fn~~~nd~rkfF~g~~-~~~~~l~~~~v~~-~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g  387 (944)
T KOG4307|consen  310 DKYYNNYKGMEFNNDFNDGRKFFPGRN-AQSTDLSENRVAP-PQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPG  387 (944)
T ss_pred             hhheeeecccccccccchhhhhcCccc-ccccchhhhhcCC-CcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCC
Confidence            345666789999999999999986422 3333444444422 2368999999 55 8888888755555566676654  


Q ss_pred             ---cccCCCCC--CC-------C-----------CCCC----CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEE-EE
Q psy3698          99 ---WAISDSNY--SP-------Q-----------GHST----KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY-AG  150 (534)
Q Consensus        99 ---w~lsds~~--~~-------~-----------~~s~----~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~-V~  150 (534)
                         |.......  ..       +           ...+    .-.....|||..||.++++.++-++| ..--.|++ +.
T Consensus       388 ~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f-~~~~~Ved~I~  466 (944)
T KOG4307|consen  388 NLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKF-MGAAAVEDFIE  466 (944)
T ss_pred             ccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhh-hhhhhhhheeE
Confidence               22111000  00       0           0000    11235789999999999999999999 44445555 66


Q ss_pred             EecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       151 I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |..-++++-++.|||.|..++++.+|+.-+.
T Consensus       467 lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~  497 (944)
T KOG4307|consen  467 LTRLPTDLLRPAAFVAFIHPTAPLTASSVKT  497 (944)
T ss_pred             eccCCcccccchhhheeccccccchhhhccc
Confidence            6666789999999999999999888887654

>KOG4661|consensus

Probab=97.24  E-value=0.00049  Score=75.93  Aligned_cols=75  Identities=15%  Similarity=0.142  Sum_probs=58.1

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHhh-cCCCCccccce
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq~-ssr~i~~k~VQ   95 (534)
                      .....|.|||.+|.-.+-..+|+.+|++||+|+-++|+.+..+. --|.|+||++  +++|-++|+. ....+.++.|.
T Consensus       401 rs~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsP-GaRCYGfVTMSts~eAtkCI~hLHrTELHGrmIS  478 (940)
T KOG4661|consen  401 RSTLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSP-GARCYGFVTMSTSAEATKCIEHLHRTELHGRMIS  478 (940)
T ss_pred             ccccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCC-CcceeEEEEecchHHHHHHHHHhhhhhhcceeee
Confidence            34567899999999999999999999999999999988877665 6789999999  3366666664 33334444433

>KOG1457|consensus

Probab=97.12  E-value=0.0019  Score=64.77  Aligned_cols=65  Identities=22%  Similarity=0.191  Sum_probs=52.5

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEE-ecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI-DTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I-~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +..+||||.+||.++...+|..+| ..|-.-+.+.| .+++ .+--+-+|||+|.++++|++|+.+.+
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLF-R~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLN   98 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLF-RRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALN   98 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHh-ccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhc
Confidence            446999999999999999999999 77766666554 3333 23346799999999999999998866

>KOG0533|consensus

Probab=97.10  E-value=0.0014  Score=66.41  Aligned_cols=63  Identities=14%  Similarity=0.074  Sum_probs=54.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      .+.-+.+|.|.|||+.+++++|+++|++||++..+-+..++. | ++.|.|=|+| .. +|.+|++.
T Consensus        79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~-G-~s~Gta~v~~~r~~DA~~avk~  143 (243)
T KOG0533|consen   79 NETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRA-G-RSLGTADVSFNRRDDAERAVKK  143 (243)
T ss_pred             cCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCC-C-CCCccceeeecchHhHHHHHHH
Confidence            444557899999999999999999999999988888888765 6 8899999999 44 88888876

>KOG1456|consensus

Probab=97.09  E-value=0.035  Score=59.31  Aligned_cols=147  Identities=16%  Similarity=0.085  Sum_probs=97.4

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhh---cCCCCccccc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQW---ATEGNLCGRV   94 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~---ssr~i~~k~V   94 (534)
                      .+..+--|-|.+|-..++|.+|.+..+.||+|..+..|-.+.       -|.|+|.+  .++++++.   +...+.+...
T Consensus        27 k~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~r-------~alvefedi~~akn~Vnfaa~n~i~i~gq~A   99 (494)
T KOG1456|consen   27 KPNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHKR-------QALVEFEDIEGAKNCVNFAADNQIYIAGQQA   99 (494)
T ss_pred             CCCCCceEEEeccccccchhHHHHHHhcCCceEEEEeccccc-------eeeeeeccccchhhheehhccCcccccCchh
Confidence            345566799999999999999999999999998877665332       58999954  77777765   1111221111


Q ss_pred             eecccccCCCCCCCCCCCCCCCCCceeE--eccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHH
Q psy3698          95 EVVPWAISDSNYSPQGHSTKLEPGKTIF--VGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRA  172 (534)
Q Consensus        95 QVrPw~lsds~~~~~~~s~~~d~~ktIF--VGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~Es  172 (534)
                      -+.   .+.+............+.+.|.  |=|--+.+|.+-|..+- ...|.|.++.|.. ++|   =.|.|+|++.+.
T Consensus       100 l~N---yStsq~i~R~g~es~~pN~VLl~TIlNp~YpItvDVly~Ic-np~GkVlRIvIfk-kng---VQAmVEFdsv~~  171 (494)
T KOG1456|consen  100 LFN---YSTSQCIERPGDESATPNKVLLFTILNPQYPITVDVLYTIC-NPQGKVLRIVIFK-KNG---VQAMVEFDSVEV  171 (494)
T ss_pred             hcc---cchhhhhccCCCCCCCCCeEEEEEeecCccccchhhhhhhc-CCCCceEEEEEEe-ccc---eeeEEeechhHH
Confidence            000   0100000000111112333333  44556789999999999 8999999998877 233   369999999999


Q ss_pred             HHHHHHhcC
Q psy3698         173 YSDAIRAAF  181 (534)
Q Consensus       173 A~kAIea~~  181 (534)
                      |++|-++.+
T Consensus       172 AqrAk~alN  180 (494)
T KOG1456|consen  172 AQRAKAALN  180 (494)
T ss_pred             HHHHHhhcc
Confidence            999988766

>KOG0128|consensus

Probab=97.04  E-value=7e-05  Score=85.39  Aligned_cols=158  Identities=14%  Similarity=-0.013  Sum_probs=113.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHH-HHHHHhhccCCeeEEeecCCCCCCCCCCc-EEEEEe-hH-HHHHHHhhcCCCCccccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEY-LLLTVFSQFGPVKVEWPQGTPESPTAPKA-ISLDVI-SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEe-eLre~FsqFG~V~~v~~~rD~~Tg~rsRG-YAFVtF-sE-sAeaALq~ssr~i~~k~V   94 (534)
                      ..+...++..+-++.+...+. ..+..|..+|.|..+.+.+... . .+.+ ++++++ .. +++.++......+..+..
T Consensus       566 ~~~~~~~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~-k-~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~  643 (881)
T KOG0128|consen  566 EAPLERREKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGF-K-AHEQPQQQKVQSKHGSAESATVPAGGALANRSA  643 (881)
T ss_pred             hhhhhhhhhcccCCCcchhhHHhhHHHhhcccccccccCccccc-c-ccccchhhhhhccccchhhcccccccccCCccc
Confidence            445556788888888887776 5788899999998877665222 1 2333 889999 55 888888775555554443


Q ss_pred             eecccccCCCCCCCCCCCCCC-----CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeC
Q psy3698          95 EVVPWAISDSNYSPQGHSTKL-----EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFG  168 (534)
Q Consensus        95 QVrPw~lsds~~~~~~~s~~~-----d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~  168 (534)
                      .+.+   .+..-..  ...+.     ..-.++||.||+..+.+++|...| ..+|.+..++|.+.. .++.||.|+|.|.
T Consensus       644 av~~---ad~~~~~--~~~kvs~n~~R~~~~~fvsnl~~~~~~~dl~~~~-~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~  717 (881)
T KOG0128|consen  644 AVGL---ADAEEKE--ENFKVSPNEIRDLIKIFVSNLSPKMSEEDLSERF-SPSGTIEVVQIVIHKNEKRFRGKAYVEFL  717 (881)
T ss_pred             cCCC---CCchhhh--hccCcCchHHHHHHHHHHhhcchhhcCchhhhhc-CccchhhhHHHHHHhhccccccceeeEee
Confidence            3321   1111110  11111     123679999999999999999999 999999999988666 8999999999999


Q ss_pred             CHHHHHHHHHhcCcee
Q psy3698         169 STRAYSDAIRAAFIEV  184 (534)
Q Consensus       169 d~EsA~kAIea~~veI  184 (534)
                      ..+.+.+||..+...+
T Consensus       718 ~~~~~~aaV~f~d~~~  733 (881)
T KOG0128|consen  718 KPEHAGAAVAFRDSCF  733 (881)
T ss_pred             cCCchhhhhhhhhhhh
Confidence            9999999998876333

>KOG1456|consensus

Probab=96.80  E-value=0.017  Score=61.57  Aligned_cols=152  Identities=14%  Similarity=0.116  Sum_probs=104.3

Q ss_pred             ccCeEEEeCCCCC-CCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee--
Q psy3698          23 LSNKIFIGGVPWD-TPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV--   96 (534)
Q Consensus        23 ~SrKVFVGNLP~d-iTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV--   96 (534)
                      ..+-+-|-||... +.-+.|-.+|-.||.|..++.|+.+.      |-|.|+. .+ ++++++.. +.-.+-+..+++  
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~------gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~  359 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP------GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCV  359 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc------ceeEEEcCcHHHHHHHHHHhccCccccceEEEee
Confidence            3467888899875 46678999999999999999998643      6899999 66 99999986 333333333333  


Q ss_pred             ---------cccccCCCC-----CCCC-----------CCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEE
Q psy3698          97 ---------VPWAISDSN-----YSPQ-----------GHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI  151 (534)
Q Consensus        97 ---------rPw~lsds~-----~~~~-----------~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I  151 (534)
                               .|+.+.|..     |...           ..+.-..+.+.|..-|.|..+||+.|.++|+++=-.-+.++|
T Consensus       360 SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkv  439 (494)
T KOG1456|consen  360 SKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKV  439 (494)
T ss_pred             ccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhcCCCcceEEe
Confidence                     222222211     1110           011112456888889999999999999999655444455555


Q ss_pred             ecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         152 DTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       152 ~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      -.-++.++ -.|.++|++.++|..||...+
T Consensus       440 Fp~kserS-ssGllEfe~~s~Aveal~~~N  468 (494)
T KOG1456|consen  440 FPLKSERS-SSGLLEFENKSDAVEALMKLN  468 (494)
T ss_pred             eccccccc-ccceeeeehHHHHHHHHHHhc
Confidence            44444332 468999999999999998865

>KOG4660|consensus

Probab=96.75  E-value=0.0017  Score=71.62  Aligned_cols=66  Identities=18%  Similarity=0.151  Sum_probs=55.7

Q ss_pred             CCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         111 HSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       111 ~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.....+..+|+|-|||..+++++|+.+| +.||+|..|+...    ..+|.-||+|-|..+|++|+++..
T Consensus        68 p~~~~~~~~~L~v~nl~~~Vsn~~L~~~f-~~yGeir~ir~t~----~~~~~~~v~FyDvR~A~~Alk~l~  133 (549)
T KOG4660|consen   68 PSEKDMNQGTLVVFNLPRSVSNDTLLRIF-GAYGEIREIRETP----NKRGIVFVEFYDVRDAERALKALN  133 (549)
T ss_pred             CCcccCccceEEEEecCCcCCHHHHHHHH-Hhhcchhhhhccc----ccCceEEEEEeehHhHHHHHHHHH
Confidence            44445567899999999999999999999 9999999865433    357899999999999999998854

>KOG0151|consensus

Probab=96.53  E-value=0.0033  Score=71.14  Aligned_cols=63  Identities=16%  Similarity=0.251  Sum_probs=56.7

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC----CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK----HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk----TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.+||||||+..++++.|-..| ..||.|..++|+--.    ..+.+-+|||.|.+..++++|++...
T Consensus       174 TTNlyv~Nlnpsv~E~~ll~tf-GrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lq  240 (877)
T KOG0151|consen  174 TTNLYVGNLNPSVDENFLLRTF-GRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQ  240 (877)
T ss_pred             ccceeeecCCccccHHHHHHHh-cccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhc
Confidence            5789999999999999999999 999999999986543    56678999999999999999998876

>KOG0151|consensus

Probab=96.50  E-value=0.0077  Score=68.30  Aligned_cols=64  Identities=13%  Similarity=0.146  Sum_probs=52.8

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCC--CCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES--PTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~T--g~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      ..+...||||||++.++|+.|-..|..||+|..++||..+.-  .++.+-+|||.| +. ++++|++.
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~  238 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKE  238 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHH
Confidence            345578999999999999999999999999988887764421  235678999999 66 88888886

>KOG0106|consensus

Probab=96.45  E-value=0.0017  Score=64.73  Aligned_cols=54  Identities=20%  Similarity=0.365  Sum_probs=49.1

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .||||+||..+.+.+|..+| ..||.|..|.+..       |||||.|.+..+|.-||-..+
T Consensus         3 rv~vg~~~~~~~~~d~E~~f-~~yg~~~d~~mk~-------gf~fv~fed~rda~Dav~~l~   56 (216)
T KOG0106|consen    3 RVYIGRLPYRARERDVERFF-KGYGKIPDADMKN-------GFGFVEFEDPRDADDAVHDLD   56 (216)
T ss_pred             ceeecccCCccchhHHHHHH-hhccccccceeec-------ccceeccCchhhhhcccchhc
Confidence            59999999999999999999 9999999987755       899999999999999987655

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

Probab=96.43  E-value=0.007  Score=53.82  Aligned_cols=56  Identities=16%  Similarity=0.274  Sum_probs=37.0

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .|+|.+++..++.++|++.| +.||.|.+|.+...     ---|+|-|.+.++|.+|+++..
T Consensus         3 il~~~g~~~~~~re~iK~~f-~~~g~V~yVD~~~G-----~~~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    3 ILKFSGLGEPTSREDIKEAF-SQFGEVAYVDFSRG-----DTEGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             EEEEEE--SS--HHHHHHHT--SS--EEEEE--TT------SEEEEEESS---HHHHHHHHH
T ss_pred             EEEEecCCCCcCHHHHHHHH-HhcCCcceEEecCC-----CCEEEEEECCcchHHHHHHHHH
Confidence            47788899999999999999 88999999887663     3378999999999999998754

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

>KOG1548|consensus

Probab=96.18  E-value=0.011  Score=62.51  Aligned_cols=63  Identities=16%  Similarity=0.170  Sum_probs=56.2

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeE--------EEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVV--------YAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv--------~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...|||.|||.++|-+++.++| +++|-|.        .|++-+|..|..||=|.++|...+++.-||+-..
T Consensus       134 Nt~VYVsgLP~DiT~dE~~~~~-sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilD  204 (382)
T KOG1548|consen  134 NTSVYVSGLPLDITVDEFAEVM-SKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILD  204 (382)
T ss_pred             CceEEecCCCCcccHHHHHHHH-HhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhC
Confidence            4669999999999999999999 9999775        3567778789999999999999999999998765

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

Probab=95.77  E-value=0.033  Score=49.24  Aligned_cols=59  Identities=8%  Similarity=0.115  Sum_probs=45.8

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhcc--CCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQF--GPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqF--G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      .+|-|.|||...|.++|.+++...  |..--.-+..|..++ .+.|||||-| +. ++.+..+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~-~N~GYAFVNf~~~~~~~~F~~~   64 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNK-CNLGYAFVNFTSPQAAIRFYKA   64 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCC-CceEEEEEEcCCHHHHHHHHHH
Confidence            479999999999999999998763  444445566777776 8999999999 44 66665553

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

>KOG4210|consensus

Probab=95.76  E-value=0.011  Score=61.30  Aligned_cols=66  Identities=17%  Similarity=0.063  Sum_probs=52.8

Q ss_pred             CeEE-EeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhhcCCCCcc
Q psy3698          25 NKIF-IGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQWATEGNLC   91 (534)
Q Consensus        25 rKVF-VGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~ssr~i~~   91 (534)
                      .++| |++|++++|+++|+..|..+|.|..+.+..+..++ .++|||||.|..  ....++....+.+.+
T Consensus       185 ~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~-~~kg~a~~~~~~~~~~~~~~~~~~~~~~~  253 (285)
T KOG4210|consen  185 DTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESG-DSKGFAYVDFSAGNSKKLALNDQTRSIGG  253 (285)
T ss_pred             ccceeecccccccchHHHhhhccCcCcceeeccCCCCCcc-chhhhhhhhhhhchhHHHHhhcccCcccC
Confidence            4566 99999999999999999999999999999999988 999999999933  444444423344433

>KOG4849|consensus

Probab=95.66  E-value=0.0095  Score=63.03  Aligned_cols=65  Identities=18%  Similarity=0.114  Sum_probs=51.5

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCC--eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGP--VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC   91 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~--V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~   91 (534)
                      -+|||||-|.+|+++|.+.....|-  +.+++...++.+| ++||||.|.. +| ++++.++. -.+++.+
T Consensus        82 ~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NG-QSKG~AL~~~~SdAa~Kq~MeiLP~k~iHG  151 (498)
T KOG4849|consen   82 CCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNG-QSKGYALLVLNSDAAVKQTMEILPTKTIHG  151 (498)
T ss_pred             EEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCC-cccceEEEEecchHHHHHHHHhcccceecC
Confidence            4899999999999999999988874  3455555677777 9999999999 88 88888875 3344443

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=95.18  E-value=0.047  Score=42.88  Aligned_cols=52  Identities=15%  Similarity=0.203  Sum_probs=41.3

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHH
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAI  177 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAI  177 (534)
                      +.|-|.+.+....+. +...| ..||+|+...+..     .+-+.+|.|.++.+|++||
T Consensus         2 ~wI~V~Gf~~~~~~~-vl~~F-~~fGeI~~~~~~~-----~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEE-VLEHF-ASFGEIVDIYVPE-----STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHH-HHHHH-HhcCCEEEEEcCC-----CCcEEEEEECCHHHHHhhC
Confidence            457788888776655 44588 6899999988873     3568999999999999996

>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=95.13  E-value=0.045  Score=48.68  Aligned_cols=53  Identities=15%  Similarity=-0.047  Sum_probs=33.3

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      +-|.|.|++..++-++|+++|++||.|.-+...+...       -|||.| .+ +|++|++.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~-------~g~VRf~~~~~A~~a~~~   56 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT-------EGYVRFKTPEAAQKALEK   56 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S-------EEEEEESS---HHHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC-------EEEEEECCcchHHHHHHH
Confidence            3478888999999999999999999998777666433       589999 55 78888875

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

>PF14605 Nup35_RRM_2: Nup53/35/40-type RNA recognition motif

Probab=95.10  E-value=0.049  Score=42.75  Aligned_cols=50  Identities=20%  Similarity=0.120  Sum_probs=37.8

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHH
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILG   82 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaAL   82 (534)
                      +.|-|.|.+.+..+. +...|.+||+|....+...       .-+.||.| ++ ++++||
T Consensus         2 ~wI~V~Gf~~~~~~~-vl~~F~~fGeI~~~~~~~~-------~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEE-VLEHFASFGEIVDIYVPES-------TNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHH-HHHHHHhcCCEEEEEcCCC-------CcEEEEEECCHHHHHhhC
Confidence            567888999887765 5558999999988665522       23899999 77 888875

>KOG4676|consensus

Probab=94.87  E-value=0.023  Score=60.87  Aligned_cols=155  Identities=15%  Similarity=0.110  Sum_probs=95.2

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCC--CCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecccc-
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP--ESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPWA-  100 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~--~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw~-  100 (534)
                      -|=|.||.+.+|.++++.+|.-.|+|..+.++-..  .+-....-.|||.| .. +|..|-.+....+-.+.+.|+|+. 
T Consensus         9 vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~~   88 (479)
T KOG4676|consen    9 VIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYGD   88 (479)
T ss_pred             eeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecCC
Confidence            57899999999999999999999999887766422  21113446899999 33 333332221110111111111110 


Q ss_pred             -----------cCCCCCCC-------------------C-------CCCCC-------C-CCCceeEeccccCcCCHHHH
Q psy3698         101 -----------ISDSNYSP-------------------Q-------GHSTK-------L-EPGKTIFVGALHGRLTAQAL  135 (534)
Q Consensus       101 -----------lsds~~~~-------------------~-------~~s~~-------~-d~~ktIFVGNLP~~~TeedL  135 (534)
                                 +.+.+.+.                   +       .+...       + +..++|+|++|+..+-..++
T Consensus        89 ~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e~  168 (479)
T KOG4676|consen   89 EVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPES  168 (479)
T ss_pred             CCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchhh
Confidence                       00100000                   0       00000       0 12378999999999999999


Q ss_pred             HHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCcee
Q psy3698         136 YNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEV  184 (534)
Q Consensus       136 reiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veI  184 (534)
                      -+.| +.+|+|.++.+.-...   .-+.-|.|....+...|+++...+.
T Consensus       169 ~e~f-~r~Gev~ya~~ask~~---s~~c~~sf~~qts~~halr~~gre~  213 (479)
T KOG4676|consen  169 GESF-ERKGEVSYAHTASKSR---SSSCSHSFRKQTSSKHALRSHGRER  213 (479)
T ss_pred             hhhh-hhcchhhhhhhhccCC---CcchhhhHhhhhhHHHHHHhcchhh
Confidence            9999 8899999988755332   2234488988888888888765333

>KOG1855|consensus

Probab=94.66  E-value=0.042  Score=59.53  Aligned_cols=64  Identities=16%  Similarity=0.180  Sum_probs=54.5

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecC------CCCCC--------ceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTD------KHKYP--------IGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~D------kTG~p--------KGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.++|.+-|||.+-.-+.|.++| ..+|.|..|+|..-      -.+.+        +-+|+|+|+..+.|.||.+-.+
T Consensus       230 ~srtivaenLP~Dh~~enl~kiF-g~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~~  307 (484)
T KOG1855|consen  230 PSRTIVAENLPLDHSYENLSKIF-GTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELLN  307 (484)
T ss_pred             ccceEEEecCCcchHHHHHHHHh-hcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhhc
Confidence            67999999999999999999999 99999999998553      23333        5679999999999999987764

>KOG1995|consensus

Probab=94.63  E-value=0.032  Score=59.09  Aligned_cols=63  Identities=22%  Similarity=0.211  Sum_probs=54.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEE--------EEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY--------AGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~--------V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      ....+|||=+||..+++++|.++| .+.|.|..        +.|.+|+ |+.+||-|-|+|++...|++||.-
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f-~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFF-LQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             cccccceeeccCccchHHHHHHHH-hhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhh
Confidence            345789999999999999999999 88887753        3366676 999999999999999999999865

>KOG1995|consensus

Probab=92.98  E-value=0.12  Score=54.99  Aligned_cols=63  Identities=22%  Similarity=0.163  Sum_probs=54.1

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeE--------EeecCCCCCCCCCCcEEEEEehH--HHHHHHhh
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV--------EWPQGTPESPTAPKAISLDVISE--LVLILGQW   84 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~--------v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~   84 (534)
                      ....-+|||-+||..+++++|.++|.++|.|..        +++-+|+.|+ ++||=|.|+|.+  +|++|+..
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~-~~KGeatvS~~D~~~akaai~~  135 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETG-APKGEATVSYEDPPAAKAAIEW  135 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhcccccccc-CcCCceeeeecChhhhhhhhhh
Confidence            556678999999999999999999999999943        5666788888 999999999944  88888875

>KOG1855|consensus

Probab=92.79  E-value=0.15  Score=55.38  Aligned_cols=66  Identities=21%  Similarity=0.201  Sum_probs=52.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCC---CCC--CCC-------CCcEEEEEeh--HHHHHHHhh
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGT---PES--PTA-------PKAISLDVIS--ELVLILGQW   84 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD---~~T--g~r-------sRGYAFVtFs--EsAeaALq~   84 (534)
                      .++..+|+|.+-|||.|-.-+-|.++|+.+|.|..+.|.+.   ...  ++.       .+-+|+|+|.  ++|++|.+.
T Consensus       226 ~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~  305 (484)
T KOG1855|consen  226 EEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAREL  305 (484)
T ss_pred             ccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHh
Confidence            56688999999999999999999999999999998888776   221  111       2457999993  377777765

>KOG4849|consensus

Probab=92.49  E-value=0.092  Score=55.84  Aligned_cols=62  Identities=15%  Similarity=0.116  Sum_probs=48.4

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCC--eEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGD--VVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~--Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      .+..+|||||-+.+|++||.+.+ ..-|-  +.++++.-+. +|.+||||.|...+..+..+-++-
T Consensus        79 rk~~~YvGNL~W~TTD~DL~~A~-~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~Mei  143 (498)
T KOG4849|consen   79 RKYCCYVGNLLWYTTDADLLKAL-QSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEI  143 (498)
T ss_pred             ceEEEEecceeEEeccHHHHHHH-HhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHh
Confidence            45789999999999999999988 55553  3344444444 899999999999998887776654

>KOG0115|consensus

Probab=92.49  E-value=0.11  Score=53.26  Aligned_cols=62  Identities=19%  Similarity=0.245  Sum_probs=57.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      .+.|+|-||..-+..+.|.+.| +.||.|..+.+..|..+++-|-++|.|...-.+.+|+..-
T Consensus        31 ~a~l~V~nl~~~~sndll~~~f-~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~   92 (275)
T KOG0115|consen   31 HAELYVVNLMQGASNDLLEQAF-RRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRC   92 (275)
T ss_pred             cceEEEEecchhhhhHHHHHhh-hhcCccchheeeecccccccccchhhhhcchhHHHHHHHh
Confidence            3679999999999999999999 9999999999999999999999999999999999998763

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.91  E-value=0.22  Score=52.84  Aligned_cols=74  Identities=7%  Similarity=0.147  Sum_probs=53.2

Q ss_pred             CCCCCCCCceeEeccccCcCCHHHH------HHHhhhcCCCeEEEEEecCC-C-CCCceEE--EEEeCCHHHHHHHHHhc
Q psy3698         111 HSTKLEPGKTIFVGALHGRLTAQAL------YNVMNDLFGDVVYAGIDTDK-H-KYPIGSG--RITFGSTRAYSDAIRAA  180 (534)
Q Consensus       111 ~s~~~d~~ktIFVGNLP~~~TeedL------reiF~s~FG~Vv~V~I~~Dk-T-G~pKGfG--FVtF~d~EsA~kAIea~  180 (534)
                      ...++..+.-+||-+||..+-.|+.      .++| .+||+|..+.|.... . .---+.+  +|+|.+.|+|.+||++.
T Consensus       107 sniRVvQKNLvYVigi~pkva~Ee~~~vLk~~eyF-GQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~v  185 (480)
T COG5175         107 SNIRVVQKNLVYVIGIPPKVADEEVAPVLKRHEYF-GQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEV  185 (480)
T ss_pred             ccceeeecceeEEecCCCCCCcccccccccchhhh-hhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHh
Confidence            3444555677899999999988773      3789 999999988776533 1 1112323  99999999999999986


Q ss_pred             Cceee
Q psy3698         181 FIEVK  185 (534)
Q Consensus       181 ~veIk  185 (534)
                      ...+-
T Consensus       186 Dgs~~  190 (480)
T COG5175         186 DGSLL  190 (480)
T ss_pred             ccccc
Confidence            54443

>KOG2193|consensus

Probab=91.36  E-value=0.11  Score=56.52  Aligned_cols=132  Identities=16%  Similarity=0.125  Sum_probs=87.6

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCC-eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCC--CCccccceeccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGP-VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATE--GNLCGRVEVVPW   99 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~-V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr--~i~~k~VQVrPw   99 (534)
                      .|+|+|||...++..+|+.+|..--. ..-.++++        -||+||.. .+ -+.++++..+.  .+.++..++.- 
T Consensus         2 nklyignL~p~~~psdl~svfg~ak~~~~g~fl~k--------~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~-   72 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLVK--------SGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEH-   72 (584)
T ss_pred             CcccccccCCCCChHHHHHHhccccCCCCcceeee--------cceeeccCCchhhhhhhHHhhchhhhhcCceeeccc-
Confidence            58999999999999999999976411 11112222        38999999 55 66677765332  23334333320 


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEE-ecCC-CCCCceEEEEEeCCHHHHHHHH
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI-DTDK-HKYPIGSGRITFGSTRAYSDAI  177 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I-~~Dk-TG~pKGfGFVtF~d~EsA~kAI  177 (534)
                                 .-.+....+++=|.|+|.-..++-|..++ ..||.|..+.. .+|. +    -.--|+|...+.+..||
T Consensus        73 -----------sv~kkqrsrk~Qirnippql~wevld~Ll-~qyg~ve~~eqvnt~~et----avvnvty~~~~~~~~ai  136 (584)
T KOG2193|consen   73 -----------SVPKKQRSRKIQIRNIPPQLQWEVLDSLL-AQYGTVENCEQVNTDSET----AVVNVTYSAQQQHRQAI  136 (584)
T ss_pred             -----------hhhHHHHhhhhhHhcCCHHHHHHHHHHHH-hccCCHhHhhhhccchHH----HHHHHHHHHHHHHHHHH
Confidence                       00011224568899999999999999999 99999998864 3433 2    11236777888888888


Q ss_pred             HhcC
Q psy3698         178 RAAF  181 (534)
Q Consensus       178 ea~~  181 (534)
                      ....
T Consensus       137 ~kl~  140 (584)
T KOG2193|consen  137 HKLN  140 (584)
T ss_pred             Hhhc
Confidence            7644

>KOG2314|consensus

Probab=91.26  E-value=0.27  Score=55.12  Aligned_cols=63  Identities=17%  Similarity=0.124  Sum_probs=51.7

Q ss_pred             CceeEeccccCcCCH--HH----HHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTA--QA----LYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~Te--ed----LreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...|+|.|+|---.+  +.    |.++| +++|+|+...++.|+.|..+|+.|++|.+..+|+.||+..+
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvf-sk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~  126 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVF-SKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLN  126 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHH-HhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcc
Confidence            356888888753322  22    34678 89999999999999966699999999999999999999865

>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=91.23  E-value=0.69  Score=40.51  Aligned_cols=55  Identities=13%  Similarity=0.136  Sum_probs=36.7

Q ss_pred             ceeEeccccCcCCHHHHH----HHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCc
Q psy3698         119 KTIFVGALHGRLTAQALY----NVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLr----eiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~v  182 (534)
                      ..|+|.|||.+.+...++    ++++-.=|+|..|         ..|.|.|.|.+++.|.+|.+.+.-
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v---------~~~tAilrF~~~~~A~RA~KRmeg   61 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV---------SGGTAILRFPNQEFAERAQKRMEG   61 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE-----------TT-EEEEESSHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE---------eCCEEEEEeCCHHHHHHHHHhhcc
Confidence            358999999999887655    5553334567665         358999999999999999988763

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

>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=89.13  E-value=0.88  Score=40.51  Aligned_cols=68  Identities=12%  Similarity=-0.049  Sum_probs=43.0

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEe-ecCCCC-----CCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEW-PQGTPE-----SPTAPKAISLDVI-SE-LVLILGQWATEGNLC   91 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~-~~rD~~-----Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~   91 (534)
                      ..+-|-|=|-|.. ....+.+.|++||+|++.. +.++..     ..........|+| +. +|++||+.++..+.+
T Consensus         5 ~~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g   80 (100)
T PF05172_consen    5 SETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSG   80 (100)
T ss_dssp             GCCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETT
T ss_pred             CCeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcC
Confidence            3456888899988 5667889999999998764 222110     0002246999999 77 999999987666554

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.

>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=89.09  E-value=1.2  Score=39.76  Aligned_cols=66  Identities=9%  Similarity=-0.033  Sum_probs=43.5

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEE-EecC-------CCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAG-IDTD-------KHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~-I~~D-------kTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ..-|.|-+.|... ...+.+.| ++||.|++.. +..+       +......+-.|+|+++.+|.+||+.....+.
T Consensus         6 ~~wVtVFGfp~~~-~~~Vl~~F-~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~   79 (100)
T PF05172_consen    6 ETWVTVFGFPPSA-SNQVLRHF-SSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFS   79 (100)
T ss_dssp             CCEEEEE---GGG-HHHHHHHH-HCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEET
T ss_pred             CeEEEEEccCHHH-HHHHHHHH-HhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEc
Confidence            3457788999884 45577789 8999998875 1111       1112456889999999999999998775554

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=87.83  E-value=0.99  Score=48.17  Aligned_cols=71  Identities=13%  Similarity=-0.004  Sum_probs=46.3

Q ss_pred             cCeEEEeCCCCCCCHHHH------HHHhhccCCeeEEeecCCCCCCCCCCc--EEEEEe--hHHHHHHHhh-cCCCCccc
Q psy3698          24 SNKIFIGGVPWDTPEYLL------LTVFSQFGPVKVEWPQGTPESPTAPKA--ISLDVI--SELVLILGQW-ATEGNLCG   92 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeL------re~FsqFG~V~~v~~~rD~~Tg~rsRG--YAFVtF--sEsAeaALq~-ssr~i~~k   92 (534)
                      .+=|||-+||+.+-.|+.      .++|.+||.|..+.|-+.......--+  -.||+|  .|+|.++|++ .+--+.+|
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr  193 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGR  193 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCc
Confidence            345899999999987773      379999999988777664321101112  259999  4477777776 33344444


Q ss_pred             cc
Q psy3698          93 RV   94 (534)
Q Consensus        93 ~V   94 (534)
                      .+
T Consensus       194 ~l  195 (480)
T COG5175         194 VL  195 (480)
T ss_pred             eE
Confidence            43

>KOG3152|consensus

Probab=87.71  E-value=0.53  Score=48.41  Aligned_cols=38  Identities=21%  Similarity=0.322  Sum_probs=33.5

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCC
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES   62 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~T   62 (534)
                      .-||+++||+.++..-||++|++||+|-.+.+..+..+
T Consensus        75 GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s  112 (278)
T KOG3152|consen   75 GVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDS  112 (278)
T ss_pred             eEEEeccCCCccCHHHHHHHHHhccccceEEecchhhH
Confidence            45999999999999999999999999988887766544

>KOG0115|consensus

Probab=85.31  E-value=0.69  Score=47.62  Aligned_cols=58  Identities=12%  Similarity=0.190  Sum_probs=47.9

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      .-|+|-||..-+..+.|.+.|+.||+|...++..|.. + ++.|=++|.| .+ .+.+|+..
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r-~-k~t~eg~v~~~~k~~a~~a~rr   91 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDR-G-KPTREGIVEFAKKPNARKAARR   91 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeeccc-c-cccccchhhhhcchhHHHHHHH
Confidence            3599999999999999999999999998777666654 3 6778899999 66 66666665

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=85.10  E-value=3.6  Score=35.99  Aligned_cols=50  Identities=16%  Similarity=0.296  Sum_probs=36.2

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe--hHHHHHHHhh
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI--SELVLILGQW   84 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF--sEsAeaALq~   84 (534)
                      .||-=..|..+...+|.++|+.||.|.+.||--   |      =|||..  .|.|..+++.
T Consensus        10 HVFhltFPkeWK~~DI~qlFspfG~I~VsWi~d---T------SAfV~l~~r~~~~~v~~~   61 (87)
T PF08675_consen   10 HVFHLTFPKEWKTSDIYQLFSPFGQIYVSWIND---T------SAFVALHNRDQAKVVMNT   61 (87)
T ss_dssp             CEEEEE--TT--HHHHHHHCCCCCCEEEEEECT---T------EEEEEECCCHHHHHHHHH
T ss_pred             eEEEEeCchHhhhhhHHHHhccCCcEEEEEEcC---C------cEEEEeecHHHHHHHHHH
Confidence            577666999999999999999999999999843   2      489999  4455555554

; 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.

>KOG0112|consensus

Probab=84.27  E-value=0.23  Score=58.01  Aligned_cols=62  Identities=23%  Similarity=0.237  Sum_probs=52.6

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      .++|||+|||+..+++.+|+..| +.+|.|..|.|.+-+.+.---+|||.|.+-..+-+|...
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af-~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e  432 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAF-DESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFE  432 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhh-hhhccccccccccCCCCcccchhhhhhhccccCcccchh
Confidence            35899999999999999999999 999999999988855555566889999998877766544

>KOG2314|consensus

Probab=83.44  E-value=2.1  Score=48.32  Aligned_cols=65  Identities=18%  Similarity=0.130  Sum_probs=49.0

Q ss_pred             CCCCCccCeEEEeCCCCCCCH------HHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          18 FSDEILSNKIFIGGVPWDTPE------YLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTE------eeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      ...+.+..-|+|-|+|---..      .-|.++|+++|+|....+.-+..+  ..+||.|++| +- +|+.|++.
T Consensus        52 ~~~eg~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~g--gtkG~lf~E~~~~~~A~~aVK~  124 (698)
T KOG2314|consen   52 VTAEGFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEG--GTKGYLFVEYASMRDAKKAVKS  124 (698)
T ss_pred             CccCCcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccC--CeeeEEEEEecChhhHHHHHHh
Confidence            344466677999999954322      346688999999988777766664  4899999999 55 88888886

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=82.39  E-value=1.6  Score=41.43  Aligned_cols=50  Identities=16%  Similarity=0.056  Sum_probs=40.5

Q ss_pred             HHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEehH--HHHHHHhhcCCCCccccceecc
Q psy3698          40 LLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISE--LVLILGQWATEGNLCGRVEVVP   98 (534)
Q Consensus        40 eLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtFsE--sAeaALq~ssr~i~~k~VQVrP   98 (534)
                      +|.+.|++||+|.-++...+         --.|+|.|  +|-+||++.+..+.++.++++.
T Consensus        52 ~ll~~~~~~GevvLvRfv~~---------~mwVTF~dg~sALaals~dg~~v~g~~l~i~L  103 (146)
T PF08952_consen   52 ELLQKFAQYGEVVLVRFVGD---------TMWVTFRDGQSALAALSLDGIQVNGRTLKIRL  103 (146)
T ss_dssp             HHHHHHHCCS-ECEEEEETT---------CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE
T ss_pred             HHHHHHHhCCceEEEEEeCC---------eEEEEECccHHHHHHHccCCcEECCEEEEEEe
Confidence            78889999999987776664         35999944  9999999999888888888874

; PDB: 1UFW_A 2DNR_A.

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=82.34  E-value=5.8  Score=32.63  Aligned_cols=52  Identities=25%  Similarity=0.366  Sum_probs=40.9

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhcc----CCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQF----GPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ   83 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqF----G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq   83 (534)
                      +...+|.|.||. +++.++|+.+|..|    ++..+.||--.         =|=|.| ++ .|.+||.
T Consensus         3 ~rpeavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt---------ScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    3 IRPEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT---------SCNVVFKDEETAARALV   60 (62)
T ss_pred             ceeceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC---------cEEEEECCHHHHHHHHH
Confidence            345789999996 68899999999999    88899998442         267889 66 6666664

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=81.74  E-value=3.1  Score=39.66  Aligned_cols=69  Identities=20%  Similarity=0.248  Sum_probs=47.1

Q ss_pred             CCceeEecccc-----CcCCHH----HHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeecc
Q psy3698         117 PGKTIFVGALH-----GRLTAQ----ALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSG  187 (534)
Q Consensus       117 ~~ktIFVGNLP-----~~~Tee----dLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~  187 (534)
                      +..||.|.-+.     ...-.+    +|.+.| ..||+|+-+++.-+       -=.|+|.+-++|.+|++...++|.+.
T Consensus        26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~-~~~GevvLvRfv~~-------~mwVTF~dg~sALaals~dg~~v~g~   97 (146)
T PF08952_consen   26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKF-AQYGEVVLVRFVGD-------TMWVTFRDGQSALAALSLDGIQVNGR   97 (146)
T ss_dssp             TT-EEEEEECS-SCCCCHS--HHHHHHHHHHH-HCCS-ECEEEEETT-------CEEEEESSCHHHHHHHHGCCSEETTE
T ss_pred             CCceEEEEecCCCccccCcCCHHHHHHHHHHH-HhCCceEEEEEeCC-------eEEEEECccHHHHHHHccCCcEECCE
Confidence            34566665554     122233    567788 78999999998773       46899999999999999999888654


Q ss_pred             ceeeee
Q psy3698         188 RICKKL  193 (534)
Q Consensus       188 k~~KrV  193 (534)
                      .+..+.
T Consensus        98 ~l~i~L  103 (146)
T PF08952_consen   98 TLKIRL  103 (146)
T ss_dssp             EEEEEE
T ss_pred             EEEEEe
Confidence            433333

; PDB: 1UFW_A 2DNR_A.

>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=81.30  E-value=3.4  Score=40.01  Aligned_cols=80  Identities=16%  Similarity=0.262  Sum_probs=47.9

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhc-CCCe---EEEE--EecCCCCCC-ceEEEEEeCCHHHHHHHHHhcC----ceeec
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDL-FGDV---VYAG--IDTDKHKYP-IGSGRITFGSTRAYSDAIRAAF----IEVKS  186 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~-FG~V---v~V~--I~~DkTG~p-KGfGFVtF~d~EsA~kAIea~~----veIk~  186 (534)
                      ..+|-|.+||+.+|++++.+.+ +. ++..   .++.  +.....+.+ -.-|+|.|.+.+++..-++...    +.-+.
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i-~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg   85 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQI-SPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKG   85 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCC-SS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS
T ss_pred             CceEEEeCCCCCCCHHHHHHHh-hhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCC
Confidence            4589999999999999999988 44 7766   4544  222223322 2458999999999777766642    22222


Q ss_pred             cceeeeeeeccc
Q psy3698         187 GRICKKLQIDPY  198 (534)
Q Consensus       187 ~k~~KrVeIkPy  198 (534)
                      ....-.|+..||
T Consensus        86 ~~~~~~VE~Apy   97 (176)
T PF03467_consen   86 NEYPAVVEFAPY   97 (176)
T ss_dssp             -EEEEEEEE-SS
T ss_pred             CCcceeEEEcch
Confidence            233347888888

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.

>KOG4307|consensus

Probab=81.12  E-value=2.7  Score=48.57  Aligned_cols=71  Identities=10%  Similarity=0.053  Sum_probs=53.6

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      +-|-+.|+|++++-+||.++|..|-.+-...+++-...| .+.|=+.|-| +. +|.+|... .++.|..+.|.+
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G-~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l  941 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDG-VPTGECMVAFESQEEARRASMDLDGQKIRNRVVSL  941 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCC-CcccceeEeecCHHHHHhhhhccccCcccceeEEE
Confidence            467899999999999999999999888665555544546 8899999999 44 66666654 556666555443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	534
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	9e-14
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	4e-08
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	5e-09
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-04
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-09
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-04
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	4e-08
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-06
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	4e-08
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-06
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	1e-05
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-05
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	5e-08
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	2e-06
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	6e-08
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	1e-06
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	1e-07
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	3e-06
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-07
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	2e-07
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	5e-05
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	4e-07
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	1e-05
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	5e-07
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	4e-06
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	7e-07
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	3e-04
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	7e-07
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	1e-04
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	8e-07
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	1e-06
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	6e-06
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	1e-06
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	2e-05
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	1e-06
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	2e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-06
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	5e-04
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	2e-06
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	5e-05
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-06
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	6e-05
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	3e-06
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	8e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-06
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	6e-04
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	3e-06
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	1e-04
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	4e-06
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	1e-04
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	8e-06
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	4e-05
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	9e-06
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	2e-05
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	1e-05
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	6e-05
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-05
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	4e-05
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	4e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	1e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	2e-04
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	2e-05
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	4e-04
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	2e-05
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	7e-05
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-05
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	2e-05
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	2e-04
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	2e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	6e-04
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	3e-05
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	2e-04
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	3e-05
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	3e-04
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-05
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	1e-04
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	4e-05
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-04
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	4e-05
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	9e-04
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	5e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	8e-05
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-05
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	5e-05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	5e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	1e-04
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	6e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	6e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	7e-04
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	6e-05
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	3e-04
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	7e-05
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	7e-05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	7e-05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	6e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	7e-05
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	8e-05
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	1e-04
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	9e-05
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	1e-04
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	5e-04
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	1e-04
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	3e-04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	1e-04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	6e-04
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	1e-04
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	6e-04
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	1e-04
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	1e-04
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	5e-04
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	1e-04
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-04
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	6e-04
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	2e-04
2dis_A	109	Unnamed protein product; structural genomics, RRM	2e-04
2dis_A	109	Unnamed protein product; structural genomics, RRM	2e-04
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	2e-04
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	3e-04
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	3e-04
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	3e-04
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	3e-04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	3e-04
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	3e-04
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	4e-04
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	4e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	4e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	5e-04
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	5e-04
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	5e-04
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	5e-04
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	6e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	6e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	7e-04
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	6e-04
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	7e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	8e-04
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	8e-04
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	8e-04
1twf_A	1733	B220, DNA-directed RNA polymerase II largest subun	9e-04
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	9e-04
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	9e-04

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 66.9 bits (163), Expect = 9e-14
 Identities = 26/103 (25%), Positives = 43/103 (41%), Gaps = 15/103 (14%)

Query: 19  SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTA-PKAISL------ 71
           S    S K+F+GG+P D  E  +   F +FGP+ V+WP          PK  +       
Sbjct: 3   SGSSGSRKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKSYFPPKGYAFLLFQEE 62

Query: 72  ----DVISELVLILGQWATEGNL----CGRVEVVPWAISDSNY 106
                +I   +   G+     +        V++ PW +SDS++
Sbjct: 63  SSVQALIDACLEEDGKLYLCVSSPTIKDKPVQIRPWNLSDSDF 105

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 50.7 bits (121), Expect = 4e-08
 Identities = 16/45 (35%), Positives = 24/45 (53%)

Query: 486 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSS 530
           S    S K+F+GG+P D  E  +   F +FGP+     ++AE  S
Sbjct: 3   SGSSGSRKVFVGGLPPDIDEDEITASFRRFGPLVVDWPHKAESKS 47

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 55.8 bits (135), Expect = 5e-09
 Identities = 34/183 (18%), Positives = 66/183 (36%), Gaps = 43/183 (23%)

Query: 20  DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV---KVEW------PQG-------TPESP 63
              + +++++G + ++  E  +   F+ FGP+    + W       +G        PE+ 
Sbjct: 24  ALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEA- 82

Query: 64  TAPKAI-SLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTK--LEPGKT 120
            A  A+  ++                 L GR   V    +     P              
Sbjct: 83  -AQLALEQMN---------SVM-----LGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNR 127

Query: 121 IFVGALHGRLTAQALYNVMNDLFGDVVYAGI----DTDKHKYPIGSGRITFGSTRAYSDA 176
           I+V ++H  L+   + +V    FG +  A +     T KHK   G G I +   ++  DA
Sbjct: 128 IYVASVHQDLSDDDIKSVFEA-FGKIKSATLARDPTTGKHK---GYGFIEYEKAQSSQDA 183

Query: 177 IRA 179
           + +
Sbjct: 184 VSS 186

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 41.9 bits (99), Expect = 2e-04
 Identities = 8/37 (21%), Positives = 22/37 (59%)

Query: 487 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              + +++++G + ++  E  +   F+ FGP+K++ M
Sbjct: 24  ALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDM 60

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 54.5 bits (132), Expect = 6e-09
 Identities = 26/182 (14%), Positives = 46/182 (25%), Gaps = 47/182 (25%)

Query: 15  RTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK-----------------VEWPQ 57
             + S+      +FIG +  +     L    S+                      V++  
Sbjct: 4   MVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFE- 62

Query: 58  GTPESPTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEP 117
            + E     KA+ L          G       + G    +       +        K+  
Sbjct: 63  -SAED--LEKALELT---------GLK-----VFGNEIKLEKPKGRDS-------KKVRA 98

Query: 118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAI 177
            +T+    L   +T   L  V  D   ++        K K   G   I F S       +
Sbjct: 99  ARTLLAKNLSFNITEDELKEVFED-ALEIRLVS-QDGKSK---GIAYIEFKSEADAEKNL 153

Query: 178 RA 179
             
Sbjct: 154 EE 155

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 39.9 bits (94), Expect = 6e-04
 Identities = 7/45 (15%), Positives = 16/45 (35%), Gaps = 1/45 (2%)

Query: 482 RTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV-VMNR 525
             + S+      +FIG +  +     L    S+      + V++ 
Sbjct: 4   MVEGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDV 48

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 50.0 bits (120), Expect = 4e-08
 Identities = 12/33 (36%), Positives = 17/33 (51%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            +F+ G P       L   F  FGPV +VVM++
Sbjct: 10  SVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDK 42

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 44.2 bits (105), Expect = 5e-06
 Identities = 9/27 (33%), Positives = 11/27 (40%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVK 52
           +F+ G P       L   F  FGPV 
Sbjct: 10 SVFVSGFPRGVDSAQLSEYFLAFGPVA 36

>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 = 52.7 bits (127), Expect = 4e-08
 Identities = 35/186 (18%), Positives = 58/186 (31%), Gaps = 40/186 (21%)

Query: 26  KIFIGGVPWDTPEYLLLTVFSQFGP-----VKVEWPQG-----------TPESPTAPKAI 69
           K+FIGG+ ++T +  L + F Q+G      V  +               T E      A+
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE--VDAAM 72

Query: 70  SLDVISELVLILGQWATEGNLCGR-VEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHG 128
           +                   + GR VE       + +  P  H       K IFVG +  
Sbjct: 73  NAR--------------PHKVDGRVVEPKRAVSREDSQRPGAH----LTVKKIFVGGIKE 114

Query: 129 RLTAQALYNVMNDLFGDVVYAGIDTDKH-KYPIGSGRITFGSTRAYSDAIRAAFIEVKSG 187
                 L +     +G +    I TD+      G   +TF    +    +   +  V   
Sbjct: 115 DTEEHHLRDYFEQ-YGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGH 173

Query: 188 RI-CKK 192
               +K
Sbjct: 174 NCEVRK 179

>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 = 47.3 bits (113), Expect = 3e-06
 Identities = 12/33 (36%), Positives = 20/33 (60%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
             KIF+GG+  DT E+ L   F Q+G ++ + +
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEI 136

>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 = 45.0 bits (107), Expect = 1e-05
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
             KIF+GG+  DT E+ L   F Q+G +
Sbjct: 104 VKKIFVGGIKEDTEEHHLRDYFEQYGKI 131

>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 = 44.6 bits (106), Expect = 2e-05
 Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           K+FIGG+ ++T +  L + F Q+G +   VVM
Sbjct: 15  KLFIGGLSFETTDESLRSHFEQWGTLTDCVVM 46

>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 Length = 88

 Score = 49.5 bits (119), Expect = 5e-08
 Identities = 11/36 (30%), Positives = 16/36 (44%), Gaps = 1/36 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVMNR 525
           S+ +F+G    D  E  L   FSQ+G V    +   
Sbjct: 5   SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP 40

>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 Length = 88

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 11/28 (39%), Positives = 15/28 (53%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          S+ +F+G    D  E  L   FSQ+G V
Sbjct: 5  SSGVFVGRCTGDMTEDELREFFSQYGDV 32

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 49.0 bits (118), Expect = 6e-08
 Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           KIF+GG+  +T    +   F QFG V  A++M
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLM 32

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 45.2 bits (108), Expect = 1e-06
 Identities = 11/26 (42%), Positives = 15/26 (57%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          KIF+GG+  +T    +   F QFG V
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKV 26

>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} Length = 89

 Score = 48.4 bits (116), Expect = 1e-07
 Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 1/46 (2%)

Query: 481 LRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVMNR 525
           +R         +K+F+G    D     L   F Q+G V    +   
Sbjct: 1   MRGSHHHHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP 46

>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} Length = 89

 Score = 44.5 bits (106), Expect = 3e-06
 Identities = 10/38 (26%), Positives = 15/38 (39%)

Query: 14 LRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          +R         +K+F+G    D     L   F Q+G V
Sbjct: 1  MRGSHHHHHHGSKVFVGRCTEDMTAEELQQFFCQYGEV 38

>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 Length = 75

 Score = 47.9 bits (115), Expect = 1e-07
 Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPV-KAVVM 523
           KIF+GG+  DTPE  +   F  FG V    + 
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGFGEVESIELP 32

>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 Length = 75

 Score = 44.8 bits (107), Expect = 1e-06
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          KIF+GG+  DTPE  +   F  FG V
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEV 26

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 48.2 bits (115), Expect = 2e-07
 Identities = 9/44 (20%), Positives = 17/44 (38%)

Query: 482 RTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           R    +++ +  ++I G P D     +       G V  + M R
Sbjct: 2   RWILKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRR 45

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 41.6 bits (98), Expect = 5e-05
 Identities = 7/38 (18%), Positives = 14/38 (36%)

Query: 15 RTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          R    +++ +  ++I G P D     +       G V 
Sbjct: 2  RWILKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVL 39

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 46.7 bits (112), Expect = 4e-07
 Identities = 16/32 (50%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           K+FIGG+ W T +  L   F QFG VK  +VM
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQFGEVKECLVM 33

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 42.5 bits (101), Expect = 1e-05
 Identities = 13/26 (50%), Positives = 16/26 (61%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          K+FIGG+ W T +  L   F QFG V
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEV 27

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 46.8 bits (112), Expect = 5e-07
 Identities = 9/34 (26%), Positives = 19/34 (55%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
            N +F+GG+     E  + + F+++G VK   ++
Sbjct: 9   PNTVFVGGIDVRMDETEIRSFFARYGSVKEVKII 42

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 44.5 bits (106), Expect = 4e-06
 Identities = 9/29 (31%), Positives = 17/29 (58%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
           N +F+GG+     E  + + F+++G VK
Sbjct: 9  PNTVFVGGIDVRMDETEIRSFFARYGSVK 37

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 48.9 bits (117), Expect = 7e-07
 Identities = 28/185 (15%), Positives = 57/185 (30%), Gaps = 42/185 (22%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-VEWPQGTP-----------------ESP-T 64
           + ++++G +P+   E  ++  F+    +  +    G P                  S   
Sbjct: 4   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63

Query: 65  APKAISLDVISELVLILGQ-----WATEGNLCGRVEVVPWAISDSNYSPQGHSTKL-EPG 118
             +A++ D I       GQ        +        +   + + S Y P   ST + +  
Sbjct: 64  TTQAMAFDGII----FQGQSLKIRRPHD-----YQPLPGMSENPSVYVPGVVSTVVPDSA 114

Query: 119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI----DTDKHKYPIGSGRITFGSTRAYS 174
             +F+G L   L    +  ++   FG +    +     T   K   G     +       
Sbjct: 115 HKLFIGGLPNYLNDDQVKELLTS-FGPLKAFNLVKDSATGLSK---GYAFCEYVDINVTD 170

Query: 175 DAIRA 179
            AI  
Sbjct: 171 QAIAG 175

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 14/63 (22%), Positives = 26/63 (41%), Gaps = 2/63 (3%)

Query: 461 HHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKA 520
           H            +      + T   D   ++K+FIGG+P    +  +  + + FGP+KA
Sbjct: 86  HDYQPLPGMSENPSVYVPGVVSTVVPDS--AHKLFIGGLPNYLNDDQVKELLTSFGPLKA 143

Query: 521 VVM 523
             +
Sbjct: 144 FNL 146

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 46.9 bits (112), Expect = 7e-07
 Identities = 19/67 (28%), Positives = 32/67 (47%), Gaps = 12/67 (17%)

Query: 458 AARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP 517
           ++ HH   ++  +P+ +      + +         K+FIGG+ W T +  L   F QFG 
Sbjct: 3   SSHHHHHHSSGLVPRGS-----HMGSSGC------KMFIGGLSWQTTQEGLREYFGQFGE 51

Query: 518 VK-AVVM 523
           VK  +VM
Sbjct: 52  VKECLVM 58

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 13/28 (46%), Positives = 16/28 (57%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
            K+FIGG+ W T +  L   F QFG V
Sbjct: 25 GCKMFIGGLSWQTTQEGLREYFGQFGEV 52

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 48.3 bits (116), Expect = 8e-07
 Identities = 10/33 (30%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           + KIF+GG+  D         FSQ+G +    +
Sbjct: 87  TGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQL 119

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 47.5 bits (114), Expect = 1e-06
 Identities = 40/190 (21%), Positives = 68/190 (35%), Gaps = 51/190 (26%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGP-----VKVEWPQG-----------TPESPTAPK 67
           S K+FIGG+ WDT E  L   F ++G      +  +   G            P S    +
Sbjct: 3   SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSS--VDE 60

Query: 68  AISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALH 127
            +                T+  L G+V     AI            + +    IFVG + 
Sbjct: 61  VV---------------KTQHILDGKVIDPKRAIPRD---------EQDKTGKIFVGGIG 96

Query: 128 GRLTAQALYNVMNDLFGDVVYAGI----DTDKHKYPIGSGRITFGSTRAYSDAIRAAFIE 183
             +  +      +  +G ++ A +    DT + +   G G +T+ S  A     +  FI+
Sbjct: 97  PDVRPKEFEEFFSQ-WGTIIDAQLMLDKDTGQSR---GFGFVTYDSADAVDRVCQNKFID 152

Query: 184 VKSGRI-CKK 192
            K  +I  K+
Sbjct: 153 FKDRKIEIKR 162

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 45.6 bits (109), Expect = 6e-06
 Identities = 15/34 (44%), Positives = 20/34 (58%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           S K+FIGG+ WDT E  L   F ++G V    +M
Sbjct: 3   SCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIM 36

>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 Length = 103

 Score = 46.1 bits (110), Expect = 1e-06
 Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           ++ + + G+PW T E  L   FS FG V    V 
Sbjct: 15  TSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVK 48

>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 Length = 103

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          ++ + + G+PW T E  L   FS FG V
Sbjct: 15 TSDLIVLGLPWKTTEQDLKEYFSTFGEV 42

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 45.6 bits (109), Expect = 1e-06
 Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           SNKIF+GG+P +  E  L   F +FG V   V++
Sbjct: 10  SNKIFVGGIPHNCGETELREYFKKFGVVTEVVMI 43

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 42.6 bits (101), Expect = 2e-05
 Identities = 14/28 (50%), Positives = 18/28 (64%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          SNKIF+GG+P +  E  L   F +FG V
Sbjct: 10 SNKIFVGGIPHNCGETELREYFKKFGVV 37

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 48.5 bits (116), Expect = 2e-06
 Identities = 27/168 (16%), Positives = 47/168 (27%), Gaps = 47/168 (27%)

Query: 25  NKIFIGGVPWDTPEYLLLTVFSQFGPVK------------VEWPQGTPESPTAPKAI-SL 71
            ++F+G +P D  E     +F ++G               +     +     A  A   L
Sbjct: 23  CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRGFGFIRL--ESRTL--AEIAKAEL 78

Query: 72  DVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLT 131
           D                 L  R   + +A                 G  + V  L   ++
Sbjct: 79  DGTI--------------LKSRPLRIRFA---------------THGAALTVKNLSPVVS 109

Query: 132 AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA 179
            + L    +  FG V  A +  D      G G + F +      A+  
Sbjct: 110 NELLEQAFSQ-FGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALER 156

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 45.8 bits (109), Expect = 1e-05
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 492 NKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            ++F+G +P D  E     +F ++G    V +NR
Sbjct: 23  CRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR 56

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 41.2 bits (97), Expect = 5e-04
 Identities = 17/45 (37%), Positives = 23/45 (51%), Gaps = 3/45 (6%)

Query: 480 PLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV-KAVVM 523
           PLR +F+       + +  +       LL   FSQFGPV KAVV+
Sbjct: 87  PLRIRFATH--GAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVV 129

>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 Length = 87

 Score = 44.9 bits (107), Expect = 2e-06
 Identities = 12/32 (37%), Positives = 19/32 (59%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           K+F+GG+ WDT +  L   F++FG V    + 
Sbjct: 13  KMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIK 44

>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 Length = 87

 Score = 41.0 bits (97), Expect = 5e-05
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          K+F+GG+ WDT +  L   F++FG V
Sbjct: 13 KMFVGGLSWDTSKKDLKDYFTKFGEV 38

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 15/60 (25%), Positives = 27/60 (45%), Gaps = 11/60 (18%)

Query: 484 QFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRA---------EMSSDD 532
           ++S  +  +K+FI G+P+   +  L  +    G VK +  V NRA         E  ++ 
Sbjct: 10  RYSTSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENES 69

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 41.1 bits (97), Expect = 6e-05
 Identities = 10/36 (27%), Positives = 19/36 (52%)

Query: 17 QFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          ++S  +  +K+FI G+P+   +  L  +    G VK
Sbjct: 10 RYSTSLEKHKLFISGLPFSCTKEELEEICKAHGTVK 45

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 45.4 bits (108), Expect = 3e-06
 Identities = 14/34 (41%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
             KIF+GG+P+ T +  L   F  FG ++ AVV+
Sbjct: 17  FTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVI 50

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 41.1 bits (97), Expect = 8e-05
 Identities = 11/28 (39%), Positives = 16/28 (57%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
            KIF+GG+P+ T +  L   F  FG +
Sbjct: 17 FTKIFVGGLPYHTTDASLRKYFEGFGDI 44

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 46.5 bits (111), Expect = 3e-06
 Identities = 20/179 (11%), Positives = 49/179 (27%), Gaps = 54/179 (30%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGPV--------------KVEWPQG-------TPES 62
           + ++++G +P+   E  ++  F+    +              ++   +        + + 
Sbjct: 4   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDE 63

Query: 63  PTAPKAISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIF 122
               +A++ D I                 G+   +                 L     +F
Sbjct: 64  --TTQAMAFDGII--------------FQGQSLKIRRPHDYQP---------LPGAHKLF 98

Query: 123 VGALHGRLTAQALYNVMNDLFGDVVYAGI----DTDKHKYPIGSGRITFGSTRAYSDAI 177
           +G L   L    +  ++   FG +    +     T   K   G     +        AI
Sbjct: 99  IGGLPNYLNDDQVKELLTS-FGPLKAFNLVKDSATGLSK---GYAFCEYVDINVTDQAI 153

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 43.4 bits (103), Expect = 4e-05
 Identities = 10/34 (29%), Positives = 21/34 (61%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           ++K+FIGG+P    +  +  + + FGP+K   ++
Sbjct: 94  AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLV 127

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 39.9 bits (94), Expect = 6e-04
 Identities = 4/37 (10%), Positives = 16/37 (43%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAE 527
           + ++++G +P+   E  ++  F+    +  +      
Sbjct: 4   ARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGN 40

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 45.3 bits (108), Expect = 3e-06
 Identities = 13/32 (40%), Positives = 20/32 (62%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           K+FIGG+ ++T E  L   + Q+G +   VVM
Sbjct: 29  KLFIGGLSFETTEESLRNYYEQWGKLTDCVVM 60

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 41.1 bits (97), Expect = 1e-04
 Identities = 10/26 (38%), Positives = 17/26 (65%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          K+FIGG+ ++T E  L   + Q+G +
Sbjct: 29 KLFIGGLSFETTEESLRNYYEQWGKL 54

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 44.9 bits (107), Expect = 4e-06
 Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 1/32 (3%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           K+F+GG+ W T +  L + FSQ+G V   V+M
Sbjct: 18  KLFVGGLDWSTTQETLRSYFSQYGEVVDCVIM 49

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
          K+F+GG+ W T +  L + FSQ+G V
Sbjct: 18 KLFVGGLDWSTTQETLRSYFSQYGEV 43

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 43.8 bits (104), Expect = 8e-06
 Identities = 16/54 (29%), Positives = 25/54 (46%), Gaps = 12/54 (22%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK--AVVMNRA----------EMSSDD 532
             K+F+GG+ +DT E  L  VFS++G +    VV +R              + D
Sbjct: 12  EGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENID 65

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 41.8 bits (99), Expect = 4e-05
 Identities = 12/29 (41%), Positives = 19/29 (65%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
            K+F+GG+ +DT E  L  VFS++G + 
Sbjct: 12 EGKLFVGGLSFDTNEQSLEQVFSKYGQIS 40

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 43.4 bits (103), Expect = 9e-06
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           S  +++G +P+D  E  +L + S  GPV  + M
Sbjct: 2   SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKM 34

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 42.2 bits (100), Expect = 2e-05
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          S  +++G +P+D  E  +L + S  GPV 
Sbjct: 2  SRVVYLGSIPYDQTEEQILDLCSNVGPVI 30

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 12/54 (22%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNR----------AEMSSDD 532
              +F+G +P++  E  L  +FS+ GPV +   V +R           E    +
Sbjct: 8   LRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 41.1 bits (97), Expect = 6e-05
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +F+G +P++  E  L  +FS+ GPV 
Sbjct: 8  LRSVFVGNIPYEATEEQLKDIFSEVGPVV 36

>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 = 43.5 bits (103), Expect = 1e-05
 Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 2/42 (4%)

Query: 486 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNR 525
           SD      +FI  + +D+ E  L  V  QFG +K   VV++ 
Sbjct: 10  SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHP 51

>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 = 41.9 bits (99), Expect = 4e-05
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          SD      +FI  + +D+ E  L  V  QFG +K
Sbjct: 10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLK 43

>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 = 41.9 bits (99), Expect = 4e-05
 Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 2/75 (2%)

Query: 107 SPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKH-KYPIGSGRI 165
              G  + +  GKT+F+  L      +AL  V+   FGD+ Y  +      ++  G    
Sbjct: 4   GSSGLPSDVTEGKTVFIRNLSFDSEEEALGEVLQQ-FGDLKYVRVVLHPDTEHSKGCAFA 62

Query: 166 TFGSTRAYSDAIRAA 180
            F +  A    + AA
Sbjct: 63  QFMTQEAAQKCLAAA 77

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 43.4 bits (103), Expect = 1e-05
 Identities = 11/68 (16%), Positives = 23/68 (33%), Gaps = 14/68 (20%)

Query: 458 AARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP 517
             R+         PQ++ EG                +F+  +  +  E  +   F  +G 
Sbjct: 7   RVRNEDDDELEPGPQRSVEG--------------WILFVTSIHEEAQEDEIQEKFCDYGE 52

Query: 518 VKAVVMNR 525
           +K + +N 
Sbjct: 53  IKNIHLNL 60

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 5/29 (17%), Positives = 12/29 (41%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +F+  +  +  E  +   F  +G +K
Sbjct: 26 GWILFVTSIHEEAQEDEIQEKFCDYGEIK 54

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 43.1 bits (102), Expect = 2e-05
 Identities = 10/84 (11%), Positives = 29/84 (34%), Gaps = 17/84 (20%)

Query: 459 ARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV 518
           + HH   ++  +P+ +            ++    ++ +  +P+   +  L  +F QFG +
Sbjct: 4   SHHHHHHSSGLVPRGS-------HMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKI 56

Query: 519 KA--VVMNRA--------EMSSDD 532
               ++ N             +  
Sbjct: 57  LDVEIIFNERGSKGFGFVTFENSA 80

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 38.8 bits (91), Expect = 4e-04
 Identities = 6/28 (21%), Positives = 14/28 (50%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
            ++ +  +P+   +  L  +F QFG +
Sbjct: 29 PKRLHVSNIPFRFRDPDLRQMFGQFGKI 56

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 42.1 bits (100), Expect = 2e-05
 Identities = 6/33 (18%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              +++GG+  +  + +L   F  FG +  + +
Sbjct: 7   KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 39

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 40.6 bits (96), Expect = 7e-05
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +++GG+  +  + +L   F  FG + 
Sbjct: 7  KRVLYVGGLAEEVDDKVLHAAFIPFGDIT 35

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 45.7 bits (109), Expect = 2e-05
 Identities = 22/183 (12%), Positives = 48/183 (26%), Gaps = 39/183 (21%)

Query: 13  PLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV---KVEWPQGTPES------- 62
            L  Q         + +  +P    +     +   FG +    + + + T +S       
Sbjct: 86  ELSVQLQPT--DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAE 143

Query: 63  ----PTAPKAI-SLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEP 117
                +A +A   L          G+      L  R   V W            +  L  
Sbjct: 144 YMKKDSAARAKSDLL---------GKP-----LGPRTLYVHWT------DAGQLTPALLH 183

Query: 118 GKTIFVGALHGRLT-AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDA 176
            + + V  L        AL   ++       +  +   +     G   + + +     +A
Sbjct: 184 SRCLCVDRLPPGFNDVDALCRALSA-VHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEA 242

Query: 177 IRA 179
            + 
Sbjct: 243 QQQ 245

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 43.1 bits (102), Expect = 2e-05
 Identities = 12/35 (34%), Positives = 21/35 (60%), Gaps = 1/35 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVMN 524
             K+FIGG+  +T E +L  VF + GP+   +++ 
Sbjct: 7   PGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIK 41

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 40.4 bits (95), Expect = 2e-04
 Identities = 12/28 (42%), Positives = 18/28 (64%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
            K+FIGG+  +T E +L  VF + GP+
Sbjct: 7  PGKLFIGGLNRETNEKMLKAVFGKHGPI 34

>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 = 42.1 bits (100), Expect = 2e-05
 Identities = 8/39 (20%), Positives = 19/39 (48%), Gaps = 2/39 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRAE 527
             K+ IG +  +  +  ++ +FS +G +K +   + R  
Sbjct: 4   PTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMH 42

>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 = 37.9 bits (89), Expect = 6e-04
 Identities = 7/29 (24%), Positives = 16/29 (55%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
            K+ IG +  +  +  ++ +FS +G +K
Sbjct: 4  PTKVHIGRLTRNVTKDHIMEIFSTYGKIK 32

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 42.2 bits (100), Expect = 3e-05
 Identities = 8/35 (22%), Positives = 18/35 (51%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
              +F+ GV  +  E  +   F+++G +K + +N 
Sbjct: 23  GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNL 57

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 7/29 (24%), Positives = 15/29 (51%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +F+ GV  +  E  +   F+++G +K
Sbjct: 23 GWILFVTGVHEEATEEDIHDKFAEYGEIK 51

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 41.9 bits (99), Expect = 3e-05
 Identities = 10/37 (27%), Positives = 16/37 (43%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP 60
          +N IF+ G+  +     +   F Q G +K     G P
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQP 49

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 39.2 bits (92), Expect = 3e-04
 Identities = 8/29 (27%), Positives = 14/29 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           +N IF+ G+  +     +   F Q G +K
Sbjct: 13  NNTIFVQGLGENVTIESVADYFKQIGIIK 41

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 41.8 bits (99), Expect = 3e-05
 Identities = 7/37 (18%), Positives = 19/37 (51%), Gaps = 2/37 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNR 525
            + +++  +P+      L  +FS++G V  V  + ++
Sbjct: 16  KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDK 52

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 6/29 (20%), Positives = 15/29 (51%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
           + +++  +P+      L  +FS++G V 
Sbjct: 16 KSTVYVSNLPFSLTNNDLYRIFSKYGKVV 44

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 6/33 (18%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              +++GG+  +  + +L   F  FG +  + +
Sbjct: 12  KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 44

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 39.9 bits (94), Expect = 2e-04
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +++GG+  +  + +L   F  FG + 
Sbjct: 12 KRVLYVGGLAEEVDDKVLHAAFIPFGDIT 40

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 11/52 (21%), Positives = 21/52 (40%), Gaps = 12/52 (23%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNR----------AEMSSDD 532
            I++G + +      +  +FSQFG V    ++ +R           EM  + 
Sbjct: 3   NIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES 54

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 37.5 bits (88), Expect = 9e-04
 Identities = 8/27 (29%), Positives = 14/27 (51%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVK 52
           I++G + +      +  +FSQFG V 
Sbjct: 3  NIYVGNLVYSATSEQVKELFSQFGKVF 29

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 43.0 bits (102), Expect = 5e-05
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           K+F+G VP    E  L  +F Q+G V  + + R
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLR 37

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 42.6 bits (101), Expect = 8e-05
 Identities = 33/172 (19%), Positives = 58/172 (33%), Gaps = 39/172 (22%)

Query: 26  KIFIGGVPWDTPEYLLLTVFSQFGPVK-----------VEWPQG-------TPESPTAPK 67
           K+F+G VP    E  L  +F Q+G V                +G       T ++  A +
Sbjct: 5   KMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKA--ALE 62

Query: 68  AISLDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALH 127
           A   + +  + +          L G    +    +DS  +      KL      F+G + 
Sbjct: 63  AQ--NALHNMKV----------LPGMHHPIQMKPADSEKNNAVEDRKL------FIGMIS 104

Query: 128 GRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA 179
            + T   +  + +  FG +    I         G   +TF +      AI+A
Sbjct: 105 KKCTENDIRVMFSS-FGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKA 155

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 40.9 bits (97), Expect = 5e-05
 Identities = 7/34 (20%), Positives = 13/34 (38%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK-AVVM 523
           +  +F+G +  +  +  L   F  F       VM
Sbjct: 1   TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVM 34

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 39.0 bits (92), Expect = 2e-04
 Identities = 5/29 (17%), Positives = 11/29 (37%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          +  +F+G +  +  +  L   F  F    
Sbjct: 1  TFNLFVGDLNVNVDDETLRNAFKDFPSYL 29

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 42.5 bits (100), Expect = 5e-05
 Identities = 6/33 (18%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              +++GG+  +  + +L   F  FG +  + +
Sbjct: 63  KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQI 95

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 40.5 bits (95), Expect = 2e-04
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +++GG+  +  + +L   F  FG + 
Sbjct: 63 KRVLYVGGLAEEVDDKVLHAAFIPFGDIT 91

>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 = 41.1 bits (97), Expect = 5e-05
 Identities = 7/35 (20%), Positives = 19/35 (54%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           + ++++GG+  +T    L   F +FG ++ +   +
Sbjct: 17  TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK 51

>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 = 40.3 bits (95), Expect = 1e-04
 Identities = 8/36 (22%), Positives = 20/36 (55%), Gaps = 1/36 (2%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV-KVEWPQG 58
          + ++++GG+  +T    L   F +FG +  ++  +G
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG 52

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 41.3 bits (97), Expect = 6e-05
 Identities = 10/35 (28%), Positives = 16/35 (45%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           S  + I G+     E  L+    +FGP+  VV+  
Sbjct: 21  SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP 55

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 42.5 bits (100), Expect = 6e-05
 Identities = 6/35 (17%), Positives = 15/35 (42%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
              +F+  +  +  E  +   F  +G +K + +N 
Sbjct: 72  GWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNL 106

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 39.8 bits (93), Expect = 7e-04
 Identities = 5/29 (17%), Positives = 12/29 (41%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
              +F+  +  +  E  +   F  +G +K
Sbjct: 72  GWILFVTSIHEEAQEDEIQEKFCDYGEIK 100

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 41.0 bits (97), Expect = 6e-05
 Identities = 8/54 (14%), Positives = 22/54 (40%), Gaps = 12/54 (22%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNRA----------EMSSDD 532
           S+ +++G + ++  E +L  +F  FG +    ++ +              S  +
Sbjct: 5   SSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSE 58

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 7/29 (24%), Positives = 17/29 (58%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          S+ +++G + ++  E +L  +F  FG + 
Sbjct: 5  SSGLYVGSLHFNITEDMLRGIFEPFGKID 33

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 41.4 bits (97), Expect = 7e-05
 Identities = 14/68 (20%), Positives = 31/68 (45%), Gaps = 5/68 (7%)

Query: 458 AARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP 517
           ++ HH   ++  +P+ +      +    S  + S  I I  +P D  E  ++++   FG 
Sbjct: 3   SSHHHHHHSSGLVPRGS-----HMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGK 57

Query: 518 VKAVVMNR 525
           V  ++M +
Sbjct: 58  VTNLLMLK 65

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens} Length = 105

 Score = 41.3 bits (97), Expect = 7e-05
 Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 6/47 (12%)

Query: 487 DEILSNKIFIGGVPWDTPEYL------LLTVFSQFGPVKAVVMNRAE 527
            + + + I +  VP   P+ L      +  +FS+FG +        +
Sbjct: 11  ADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEED 57

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 41.6 bits (98), Expect = 7e-05
 Identities = 8/35 (22%), Positives = 18/35 (51%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
              +F+ GV  +  E  +   F+++G +K + +N 
Sbjct: 22  GWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNL 56

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 38.9 bits (91), Expect = 6e-04
 Identities = 7/29 (24%), Positives = 15/29 (51%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +F+ GV  +  E  +   F+++G +K
Sbjct: 22 GWILFVTGVHEEATEEDIHDKFAEYGEIK 50

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 41.1 bits (97), Expect = 7e-05
 Identities = 16/67 (23%), Positives = 33/67 (49%), Gaps = 6/67 (8%)

Query: 459 ARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV 518
           + HH   ++  +P+ +      +  +   E+ + ++F+   P D  E  L  +F  FGP+
Sbjct: 4   SHHHHHHSSGLVPRGS-----HMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPM 58

Query: 519 KAV-VMN 524
           K V ++N
Sbjct: 59  KEVKILN 65

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 40.8 bits (96), Expect = 8e-05
 Identities = 12/38 (31%), Positives = 21/38 (55%), Gaps = 2/38 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK--AVVMNRA 526
           + K+FIG +P +  E  L  +F +FG +    V+ +R 
Sbjct: 13  AIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRF 50

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 40.8 bits (96), Expect = 1e-04
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          + K+FIG +P +  E  L  +F +FG +
Sbjct: 13 AIKLFIGQIPRNLDEKDLKPLFEEFGKI 40

>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 = 42.1 bits (99), Expect = 9e-05
 Identities = 9/33 (27%), Positives = 20/33 (60%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           S  +++G + + T E  +  +FS+ G +K ++M
Sbjct: 39  SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIM 71

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              +++GG+     E LL  +F Q GPV    M
Sbjct: 15  DATVYVGGLDEKVSEPLLWELFLQAGPVVNTHM 47

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 38.8 bits (91), Expect = 5e-04
 Identities = 10/29 (34%), Positives = 15/29 (51%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
             +++GG+     E LL  +F Q GPV 
Sbjct: 15 DATVYVGGLDEKVSEPLLWELFLQAGPVV 43

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 40.3 bits (95), Expect = 1e-04
 Identities = 10/37 (27%), Positives = 21/37 (56%), Gaps = 2/37 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK--AVVMNR 525
           +  + + G+   T E  L  VFS++GP+   ++V ++
Sbjct: 15  NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQ 51

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 9/29 (31%), Positives = 16/29 (55%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          +  + + G+   T E  L  VFS++GP+ 
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPIA 43

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 40.7 bits (96), Expect = 1e-04
 Identities = 7/52 (13%), Positives = 18/52 (34%), Gaps = 10/52 (19%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNRA--------EMSSDD 532
             ++ +  +P+   +  L  +F QFG +    ++ N             +  
Sbjct: 15  PKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSA 66

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 38.4 bits (90), Expect = 6e-04
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
            ++ +  +P+   +  L  +F QFG + 
Sbjct: 15 PKRLHVSNIPFRFRDPDLRQMFGQFGKIL 43

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 40.4 bits (95), Expect = 1e-04
 Identities = 9/31 (29%), Positives = 18/31 (58%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV 521
           ++KI +  +P+   +  +  +FS FG +K V
Sbjct: 15  TSKILVRNIPFQANQREIRELFSTFGELKTV 45

>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 = 38.4 bits (90), Expect = 6e-04
 Identities = 8/29 (27%), Positives = 17/29 (58%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          ++KI +  +P+   +  +  +FS FG +K
Sbjct: 15 TSKILVRNIPFQANQREIRELFSTFGELK 43

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 40.5 bits (95), Expect = 1e-04
 Identities = 11/41 (26%), Positives = 17/41 (41%)

Query: 20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP 60
          D   +N IF+ G+  +     +   F Q G +K     G P
Sbjct: 3  DNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQP 43

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 7/30 (23%), Positives = 13/30 (43%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKV 53
          S  + +  + +   E  L  VF +   +KV
Sbjct: 15 SKTLVLSNLSYSATEETLQEVFEKATFIKV 44

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 6/29 (20%), Positives = 12/29 (41%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           S  + +  + +   E  L  VF +   +K
Sbjct: 15  SKTLVLSNLSYSATEETLQEVFEKATFIK 43

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 10/35 (28%), Positives = 18/35 (51%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           S  I I  +P D  E  ++++   FG V  ++M +
Sbjct: 16  SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 50

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 39.6 bits (93), Expect = 2e-04
 Identities = 5/31 (16%), Positives = 12/31 (38%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVE 54
           + I +  +   T    ++T  S +  + V 
Sbjct: 9  MDTIILRNIAPHTVVDSIMTALSPYASLAVN 39

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 38.1 bits (89), Expect = 6e-04
 Identities = 5/35 (14%), Positives = 13/35 (37%), Gaps = 2/35 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFG--PVKAVVM 523
            + I +  +   T    ++T  S +    V  + +
Sbjct: 9   MDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRL 43

>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 = 9/46 (19%), Positives = 17/46 (36%), Gaps = 4/46 (8%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRA----EMSSDD 532
           S K+ +G +        L   F ++GPV    + +      M   +
Sbjct: 10  STKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKDYAFVHMERAE 55

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 39.8 bits (93), Expect = 2e-04
 Identities = 8/35 (22%), Positives = 15/35 (42%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           S  + + G+     E  L+    +FG +  V+M  
Sbjct: 15  SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP 49

>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 = 39.8 bits (93), Expect = 2e-04
 Identities = 6/31 (19%), Positives = 15/31 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVE 54
          + ++FIGG+P       +L   ++     ++
Sbjct: 8  NCRLFIGGIPKMKKREEILEEIAKVTEGVLD 38

>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 = 39.8 bits (93), Expect = 2e-04
 Identities = 8/36 (22%), Positives = 17/36 (47%), Gaps = 1/36 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGP-VKAVVMNR 525
           + ++FIGG+P       +L   ++    V  V++  
Sbjct: 8   NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYA 43

>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 = 39.1 bits (92), Expect = 2e-04
 Identities = 10/46 (21%), Positives = 18/46 (39%), Gaps = 4/46 (8%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRA----EMSSDD 532
           + KIF+G V        L ++F + G V    + +      M  + 
Sbjct: 9   TWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKDYAFVHMEKEA 54

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 40.5 bits (95), Expect = 3e-04
 Identities = 14/87 (16%), Positives = 37/87 (42%), Gaps = 13/87 (14%)

Query: 458 AARHHRSSANSQIPQKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP 517
              + +++   Q+ Q+  + + P +     ++L N + +  +P    E  L  +F ++GP
Sbjct: 10  YDPYGQTAQLQQLQQQQQQHIPPTQMNPEPDVLRN-LMVNYIPTTVDEVQLRQLFERYGP 68

Query: 518 VKA--VVMNRA----------EMSSDD 532
           +++  +V +R           +  S  
Sbjct: 69  IESVKIVCDRETRQSRGYGFVKFQSGS 95

>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 = 39.0 bits (92), Expect = 3e-04
 Identities = 11/57 (19%), Positives = 19/57 (33%), Gaps = 12/57 (21%)

Query: 488 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRA----------EMSSDD 532
           E  +  I++G V +      L   F   G V  V  + ++           E S  +
Sbjct: 3   EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKE 59

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 39.2 bits (92), Expect = 3e-04
 Identities = 8/35 (22%), Positives = 20/35 (57%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            +++F+G +P D  E  +  +F ++G    V +++
Sbjct: 15  RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK 49

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 39.6 bits (93), Expect = 3e-04
 Identities = 8/54 (14%), Positives = 24/54 (44%), Gaps = 12/54 (22%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNRA----------EMSSDD 532
             ++++G + ++  E +L  +F  FG +++  ++M+              S  +
Sbjct: 26  PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSE 79

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 39.1 bits (92), Expect = 3e-04
 Identities = 20/68 (29%), Positives = 27/68 (39%), Gaps = 2/68 (2%)

Query: 112 STKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTR 171
           S+       IFV  L    T + L +  N+  G V+YA I  +  K   G G + F S  
Sbjct: 2   SSGSSGACQIFVRNLPFDFTWKMLKDKFNE-CGHVLYADIKMENGK-SKGCGVVKFESPE 59

Query: 172 AYSDAIRA 179
               A R 
Sbjct: 60  VAERACRM 67

>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 = 39.1 bits (92), Expect = 3e-04
 Identities = 8/33 (24%), Positives = 18/33 (54%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           S ++F+  + + + E  L  +FS +GP+  +  
Sbjct: 8   SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHY 40

>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 = 39.3 bits (92), Expect = 4e-04
 Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 12/65 (18%)

Query: 480 PLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNRA----------E 527
           PL  +   EI    +++G V + +    L   FS  G +  +  + ++           E
Sbjct: 25  PLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIE 84

Query: 528 MSSDD 532
            +  +
Sbjct: 85  FAERN 89

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 38.9 bits (91), Expect = 4e-04
 Identities = 20/88 (22%), Positives = 34/88 (38%), Gaps = 9/88 (10%)

Query: 117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGI----DTDKHKYPIGSGRITFGSTRA 172
           P K +    L+  +    L ++    +G+V    I     T KH    G  R+ F STR 
Sbjct: 5   PLKEVTFARLNDNVRETFLKDMCRK-YGEVEEVEILLHPRTRKHL---GLARVLFTSTRG 60

Query: 173 YSDAIRAAFIEVKSGRICKKLQIDPYLE 200
             + ++   +    G I    Q+D   +
Sbjct: 61  AKETVKNLHLTSVMGNII-HAQLDIKGQ 87

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 40.2 bits (95), Expect = 4e-04
 Identities = 4/35 (11%), Positives = 15/35 (42%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
              + +  +P +  +    ++F   G +++  + R
Sbjct: 2   KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVR 36

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 9/33 (27%), Positives = 16/33 (48%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              +F+G +     E +L  +F Q GP+  V +
Sbjct: 16  DRTVFVGNLEARVREEILYELFLQAGPLTKVTI 48

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 40.2 bits (94), Expect = 5e-04
 Identities = 14/114 (12%), Positives = 30/114 (26%), Gaps = 23/114 (20%)

Query: 414 SPRSSGARHSPPSNGGYYGGGGGGQYLHNGDGGGQGGLQSTLDIAARHHRSSANSQIPQK 473
           + R       P  N      GG  +                   A          +    
Sbjct: 32  NQRRVNRGGGPRRNRPAIARGGRNRP------------------APYSRPKPLPDKWQHD 73

Query: 474 TWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK--AVVMNR 525
            ++                K+ +  + +   +  +  +F++FG +K  AV  +R
Sbjct: 74  LFDSGCGGGEGVET---GAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR 124

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 38.4 bits (90), Expect = 5e-04
 Identities = 7/33 (21%), Positives = 14/33 (42%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
              + +  + + T    L  VF ++G V  V +
Sbjct: 13  MITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYI 45

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 38.8 bits (91), Expect = 5e-04
 Identities = 24/126 (19%), Positives = 36/126 (28%), Gaps = 32/126 (25%)

Query: 24  SNKIFIGGVPWDTPEYLLLTVFSQFGPV---KVEWPQG-----------TPESPTAPKAI 69
           S  IFI  +        L   FS FG +   KV   +            T E+  A +AI
Sbjct: 5   SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEA--AERAI 62

Query: 70  S-LDVISELVLILGQWATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHG 128
             ++         G       L  R   V    S      +  +   E    +++     
Sbjct: 63  EKMN---------GML-----LNDRKVFVGRFKSRKEREAELGARAKE-FTNVYIKNFGP 107

Query: 129 RLTAQA 134
             T  A
Sbjct: 108 GSTRAA 113

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 38.9 bits (91), Expect = 6e-04
 Identities = 10/37 (27%), Positives = 20/37 (54%), Gaps = 2/37 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKA--VVMNR 525
           +  + + G+   T E  L  VFS++GP+    +V ++
Sbjct: 46  NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQ 82

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 37.9 bits (89), Expect = 6e-04
 Identities = 6/34 (17%), Positives = 16/34 (47%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPV-KAVVM 523
           S+ ++I G+   T +  L+ +   +G +     +
Sbjct: 5   SSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAI 38

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 37.5 bits (88), Expect = 7e-04
 Identities = 6/28 (21%), Positives = 15/28 (53%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          S+ ++I G+   T +  L+ +   +G +
Sbjct: 5  SSGLYIRGLQPGTTDQDLVKLCQPYGKI 32

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 37.9 bits (89), Expect = 6e-04
 Identities = 7/34 (20%), Positives = 15/34 (44%), Gaps = 1/34 (2%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPV-KAVVM 523
              +F+G +  +     +   F+ FG +  A V+
Sbjct: 6   HFHVFVGDLSPEITTAAIAAAFAPFGRISDARVV 39

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 39.5 bits (92), Expect = 7e-04
 Identities = 15/107 (14%), Positives = 29/107 (27%), Gaps = 15/107 (14%)

Query: 441 HNGDGGGQGGLQSTLDIAARHHRSSANSQIPQKTWEGVLPLRTQFSDEI-LSNKIFIGGV 499
           H+    G       L   +         +   K       +   +S        +++G  
Sbjct: 4   HHHHSSGVDLGTENLYFQSMEPPPPVRQEPSPKPNNKTPAILYTYSGLRNRRAAVYVGSF 63

Query: 500 PWDTPEYLLLTVFSQFGPVK----AVVMNRA----------EMSSDD 532
            W T +  L+ V    G           NRA           ++S++
Sbjct: 64  SWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASEN 110

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 5/31 (16%), Positives = 12/31 (38%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV 521
           +  +    + ++  E  L  VF     ++ V
Sbjct: 16  ARTLLAKNLSFNITEDELKEVFEDALEIRLV 46

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 38.2 bits (89), Expect = 8e-04
 Identities = 10/41 (24%), Positives = 18/41 (43%)

Query: 20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP 60
          ++  ++ I++ G+        L   F Q G VK+    G P
Sbjct: 11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQP 51

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 8/37 (21%), Positives = 16/37 (43%), Gaps = 2/37 (5%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAV--VMNR 525
           +  I +  +  DT E  L  +F  FG +  +    ++
Sbjct: 15  NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDK 51

>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A 1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A* 1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A* 1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ... Length = 1733

 Score = 41.2 bits (96), Expect = 9e-04
 Identities = 36/196 (18%), Positives = 66/196 (33%), Gaps = 14/196 (7%)

Query: 241  HDPIVRNVRKSPPSSPSGPHSGGLT-LNTLNGFSSREDITTSSATSSPWFDSPLLTPMTP 299
             + +V+ + +   +       GG+T  +  +G  + +         SP  DS     M  
Sbjct: 1447 EESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGSNDAM-- 1504

Query: 300  QIVRSPFESNSYAIHGSSHSPPFGSHSMESCSPPYLTDEGDYSPY--YQTGGSTDY--FS 355
                +   +          + PFG++     SP +      +SP     +  S  Y   S
Sbjct: 1505 ----AGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTS 1560

Query: 356  YNNAPSHLNLN-GSMTDSSNLDNIEDLLASLSLNNTGQSNVRANGTAGSVPSPHTSPLNS 414
             + +P+  + +  S + S    +      S S  +   S    + +  S     TSP  S
Sbjct: 1561 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1620

Query: 415  PRSSGARHSPPSNGGY 430
            P S    +SP S    
Sbjct: 1621 PTSP--SYSPTSPSYS 1634

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 37.3 bits (87), Expect = 9e-04
 Identities = 8/33 (24%), Positives = 17/33 (51%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            +++GG+     E  L   F QFG ++ + + +
Sbjct: 14  TLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ 46

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 37.6 bits (88), Expect = 9e-04
 Identities = 10/54 (18%), Positives = 16/54 (29%), Gaps = 14/54 (25%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVK----AVVMNRA----------EMSSDD 532
            ++IG + W T +  L       G           NRA           + S+ 
Sbjct: 3   ALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEA 56

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	534
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.96
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.96
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.96
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.95
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.95
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.95
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.95
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.95
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.95
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.94
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.93
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.93
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.93
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.93
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.92
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.92
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.91
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.9
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.9
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.9
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.74
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.7
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.65
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.65
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.64
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.6
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.6
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.58
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.57
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.57
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.57
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.57
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.57
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.56
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.56
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.55
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.54
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.54
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.53
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.53
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.53
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.53
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.52
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.52
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.52
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.52
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.52
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.52
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.52
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.52
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.51
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.51
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.51
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.51
2div_A	99	TRNA selenocysteine associated protein; structural	99.51
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.5
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.5
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.5
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.5
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.5
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.5
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.5
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.5
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.5
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.5
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.5
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.5
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.49
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.49
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.49
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.49
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.49
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.49
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.49
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.49
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.49
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.49
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.49
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.49
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.48
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.48
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.48
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.48
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.48
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.48
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.48
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.48
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.48
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.48
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.48
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.48
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.48
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.47
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.47
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.47
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.47
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.47
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.47
2div_A	99	TRNA selenocysteine associated protein; structural	99.47
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.47
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.47
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.46
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.46
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.46
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.46
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.46
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.46
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.45
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.45
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.45
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.45
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.45
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.45
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.45
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.45
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.45
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.45
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.45
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.45
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.45
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.45
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.45
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.44
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.44
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.44
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.44
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.44
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.44
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.44
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.44
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.44
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.44
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.44
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.44
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.44
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.44
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.44
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.44
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.43
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.43
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.43
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.43
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.43
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.43
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.43
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.43
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.43
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.43
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.43
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.43
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.43
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.43
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.43
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.42
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.42
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.42
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.42
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.42
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.42
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.42
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.42
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.42
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.42
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.42
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.42
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.42
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.41
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.41
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.41
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.41
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.41
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.41
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.41
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.41
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.41
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.41
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.41
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.41
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.4
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.4
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.4
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.4
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.4
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.4
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.4
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.4
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.4
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.4
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.4
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.4
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.4
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.39
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.39
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.39
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.39
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.39
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.39
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.39
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.39
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.39
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.39
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.39
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.38
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.38
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.38
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.38
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.37
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.37
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.37
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.37
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.37
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.37
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.37
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.37
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.37
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.37
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.37
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.36
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.36
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.36
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.36
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.36
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.36
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.36
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.35
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.35
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.35
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.35
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.35
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.35
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.35
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.35
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.35
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.35
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.35
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.34
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.33
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.33
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.33
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.33
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.33
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.33
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.32
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.32
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.32
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.32
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.0
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.32
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.31
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.31
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.31
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.31
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.31
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.31
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.3
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.3
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.3
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.3
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.3
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.29
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.29
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.29
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.29
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.29
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.29
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.29
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.29
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.29
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.29
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.29
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.28
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.28
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.28
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.28
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.28
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.28
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.28
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.27
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.27
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.27
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.27
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.27
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.26
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.26
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.25
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.25
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.25
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.25
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.24
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.24
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.24
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.24
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.24
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.24
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.23
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.23
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.23
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.23
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.23
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.22
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.22
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.22
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.21
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.21
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.85
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.21
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.21
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.21
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.21
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.21
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.2
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.2
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.2
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.2
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.2
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.2
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.2
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.2
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.19
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.19
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.19
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.19
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.18
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.18
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.18
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.17
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.17
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.17
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.16
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.16
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.16
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.15
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.15
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.14
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.14
1x5p_A	97	Negative elongation factor E; structure genomics,	99.14
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.13
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.13
1x5p_A	97	Negative elongation factor E; structure genomics,	99.12
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.09
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.08
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.06
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.03
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.03
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.03
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.02
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.99
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.98
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.97
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.97
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.96
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.96
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.95
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.95
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.94
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.91
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.9
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.9
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.89
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.79
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.75
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.72
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.72
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.7
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.67
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.66
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.64
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.62
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.61
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.53
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.46
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.33
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.14
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.12
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.83
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	97.67
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	97.66
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.57
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.5
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.14
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.75
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.24
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	94.96
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	94.81
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	94.74
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	93.4
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	92.64
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	92.37
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	92.16
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	91.44
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	89.81
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	89.75
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	89.64
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	89.26
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	87.56
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	82.31

>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=99.96  E-value=1.8e-29  Score=231.47  Aligned_cols=170  Identities=16%  Similarity=0.191  Sum_probs=138.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      .++...++|||||||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++||+.....+.++.+.+
T Consensus         8 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v   86 (196)
T 1l3k_A            8 KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTK-RSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEP   86 (196)
T ss_dssp             CCCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHTCSCEETTEECEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCC-CccceEEEEeCCHHHHHHHHhcCCCEECCEEeee
Confidence            456678999999999999999999999999999999999998888 8999999999 65 99999988777777777777


Q ss_pred             cccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHH
Q psy3698          97 VPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSD  175 (534)
Q Consensus        97 rPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~k  175 (534)
                      .........    .......+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+
T Consensus        87 ~~~~~~~~~----~~~~~~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~  161 (196)
T 1l3k_A           87 KRAVSREDS----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYF-EQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDK  161 (196)
T ss_dssp             EECCC---------------CCSEEEEECCTTTCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHH
T ss_pred             ecccCcccc----cccccCCCcceEEEeCCCCCCCHHHHHHHH-hcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHH
Confidence            632211110    111122345899999999999999999999 999999999999997 89999999999999999999


Q ss_pred             HHHhcCceeeccceeeeeeeccc
Q psy3698         176 AIRAAFIEVKSGRICKKLQIDPY  198 (534)
Q Consensus       176 AIea~~veIk~~k~~KrVeIkPy  198 (534)
                      ||+.....+..    ++|+|+..
T Consensus       162 A~~~~~~~~~G----~~i~v~~a  180 (196)
T 1l3k_A          162 IVIQKYHTVNG----HNCEVRKA  180 (196)
T ss_dssp             HHHCSCCEETT----EECEEEEC
T ss_pred             HHHhCCcEECC----EEEEEEec
Confidence            99875555543    34555543

>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=99.96  E-value=6.2e-29  Score=222.36  Aligned_cols=150  Identities=21%  Similarity=0.265  Sum_probs=125.9

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVPWA  100 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrPw~  100 (534)
                      .+++|||||||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++|++. ...+.++.+.+....
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~-~~~~~g~~i~v~~~~   79 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATG-RSRGFGFLSFEKPSSVDEVVKT-QHILDGKVIDPKRAI   79 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTS-SCCSCEEEEESSTHHHHHHHHS-CCEETTEECCCEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCC-CccceEEEEEccHHHHHHHHhc-ccccCCeEccccccc
Confidence            46899999999999999999999999999999999998888 9999999999 55 89999984 344555555544211


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                                ......+..+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+.
T Consensus        80 ----------~~~~~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~  148 (167)
T 2cjk_A           80 ----------PRDEQDKTGKIFVGGIGPDVRPKEFEEFF-SQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQN  148 (167)
T ss_dssp             ----------CHHHHHHCEEEEEEEECTTCCHHHHHHHH-HTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHHC
T ss_pred             ----------chhhccCCCeEEECCCCCCCCHHHHHHHH-HhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHhC
Confidence                      11122346799999999999999999999 999999999999997 899999999999999999999984


Q ss_pred             cCceee
Q psy3698         180 AFIEVK  185 (534)
Q Consensus       180 ~~veIk  185 (534)
                      ....+.
T Consensus       149 ~~~~~~  154 (167)
T 2cjk_A          149 KFIDFK  154 (167)
T ss_dssp             SEECSS
T ss_pred             CCEEeC
Confidence            334443

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

Probab=99.96  E-value=1.3e-28  Score=233.28  Aligned_cols=160  Identities=16%  Similarity=0.179  Sum_probs=128.6

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      .++|||||||+++||++|+++|++||+|..+.+++|+.++ +++|||||+| ++ +|++||+. ....+.++.+.+.. .
T Consensus        15 ~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~-~   92 (213)
T 4f02_A           15 MASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITR-RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMW-S   92 (213)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE-C
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCC-CccccccceeCCHHHHHHHHHHhhhhhcCCccccccc-c
Confidence            4789999999999999999999999999999999999988 9999999999 55 88888875 44455555555431 1


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..       ..........+|||+|||..+|+++|+++| +.||.|+.|.|+.|+.+ +||||||+|.+.++|.+||+..
T Consensus        93 ~~-------~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F-~~~G~i~~~~i~~d~~~-~~g~~fV~f~~~~~a~~Ai~~l  163 (213)
T 4f02_A           93 QR-------DPSLRKSGVGNIFIKNLDKSIDNKALYDTF-SAFGNILSCKVVCDENG-SKGYGFVHFETQEAAERAIEKM  163 (213)
T ss_dssp             CC-------CTHHHHHCTTEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEEETTE-EEEEEEEEESSHHHHHHHHHHH
T ss_pred             cc-------cccccccccccceECCcccccHHHHHHHHH-hhcCCeEEEEeeccCCC-CceEEEEEeCCHHHHHHHHHHh
Confidence            00       111112345789999999999999999999 99999999999998643 7999999999999999999986


Q ss_pred             C-ceeeccceeeeeeeccc
Q psy3698         181 F-IEVKSGRICKKLQIDPY  198 (534)
Q Consensus       181 ~-veIk~~k~~KrVeIkPy  198 (534)
                      + .+|.    .++|.|+.+
T Consensus       164 ng~~~~----g~~i~V~~a  178 (213)
T 4f02_A          164 NGMLLN----DRKVFVGRF  178 (213)
T ss_dssp             TTCEET----TEECEEEEC
T ss_pred             CCCEEC----CEEEEEEEc
Confidence            5 4444    245555544

>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=99.95  E-value=5.1e-28  Score=216.99  Aligned_cols=149  Identities=18%  Similarity=0.209  Sum_probs=122.6

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCC-CCCCcEEEEEe-hH-HHHHHHhh-cCCCCc---cccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP-TAPKAISLDVI-SE-LVLILGQW-ATEGNL---CGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg-~rsRGYAFVtF-sE-sAeaALq~-ssr~i~---~k~VQ   95 (534)
                      .+++|||||||+++||++|+++|++||+|..+.+++++.++ .++||||||+| ++ +|++|++. ....+.   .+.+.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~   81 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQ   81 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceE
Confidence            46899999999999999999999999999999999987653 15899999999 55 88888875 333332   23334


Q ss_pred             ecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHH
Q psy3698          96 VVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSD  175 (534)
Q Consensus        96 VrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~k  175 (534)
                      +.+....         .......++|||+|||..+|+++|+++| +.||.|..+.|..|++|.++|||||+|.+.++|.+
T Consensus        82 ~~~~~~~---------~~~~~~~~~l~v~nl~~~~t~~~l~~~F-~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~  151 (175)
T 3nmr_A           82 MKPADSE---------KNNAVEDRKLFIGMISKKCTENDIRVMF-SSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQT  151 (175)
T ss_dssp             EEECGGG---------CCSCGGGSEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHH
T ss_pred             Ecccccc---------ccccCCCCeEEEcCCCCcCCHHHHHHHH-HhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHH
Confidence            3321111         1122356899999999999999999999 99999999999999999999999999999999999


Q ss_pred             HHHhcC
Q psy3698         176 AIRAAF  181 (534)
Q Consensus       176 AIea~~  181 (534)
                      ||+..+
T Consensus       152 A~~~l~  157 (175)
T 3nmr_A          152 AIKAMH  157 (175)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            998876

>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=99.95  E-value=1.2e-27  Score=212.51  Aligned_cols=146  Identities=12%  Similarity=0.100  Sum_probs=127.7

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      +++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++. .+..+.++.+++....
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 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITG-QSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-cceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecC
Confidence            5899999999999999999999999999999999998888 8999999999 55 88888874 6677777777775211


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                                +........+|||+|||..+|+++|+++| +.||.|..+.|..|+ +|.++|+|||+|.+.++|.+||+.
T Consensus        81 ----------~~~~~~~~~~l~v~nl~~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~  149 (167)
T 1fxl_A           81 ----------PSSASIRDANLYVSGLPKTMTQKELEQLF-SQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKG  149 (167)
T ss_dssp             ----------CCCGGGTTCEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHH
T ss_pred             ----------CCcccCCCCcEEECCCCCcCCHHHHHHHH-HhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHH
Confidence                      11223456889999999999999999999 999999999999998 999999999999999999999997


Q ss_pred             cC
Q psy3698         180 AF  181 (534)
Q Consensus       180 ~~  181 (534)
                      .+
T Consensus       150 l~  151 (167)
T 1fxl_A          150 LN  151 (167)
T ss_dssp             HT
T ss_pred             hc
Confidence            65

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

Probab=99.95  E-value=1.4e-27  Score=211.92  Aligned_cols=146  Identities=15%  Similarity=0.089  Sum_probs=125.3

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceeccccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw~l  101 (534)
                      |+|||+|||+++||++|+++|++||+|..+.+++++. + +++|||||+| ++ +|++|++ ..+..+.++.+.+.....
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-N-KNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQ   78 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC---CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC-C-CCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCC
Confidence            6899999999999999999999999999999999875 4 7999999999 55 8888884 466777777777763211


Q ss_pred             CCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         102 SDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       102 sds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                              .......+..+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|+|||+|.+.++|.+||+..
T Consensus        79 --------~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l  149 (166)
T 3md3_A           79 --------SQQSSSDDTFNLFVGDLNVNVDDETLRNAF-KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSM  149 (166)
T ss_dssp             --------CCCCCCTTCEEEEEESCCTTCCHHHHHHHH-TTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHH
T ss_pred             --------CCCCCCCCCceEEECCCCCCCCHHHHHHHH-hccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHh
Confidence                    111233457899999999999999999999 999999999999996 8999999999999999999999975


Q ss_pred             C
Q psy3698         181 F  181 (534)
Q Consensus       181 ~  181 (534)
                      +
T Consensus       150 ~  150 (166)
T 3md3_A          150 Q  150 (166)
T ss_dssp             T
T ss_pred             C
Confidence            5

>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=99.95  E-value=1.4e-27  Score=213.36  Aligned_cols=146  Identities=16%  Similarity=0.165  Sum_probs=128.0

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw~  100 (534)
                      +++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++ ..+..+.++.+.+....
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTG-YSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTT-EECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCC-ccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            5899999999999999999999999999999999998887 8999999999 66 8888887 46667777777776211


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                                +.....+..+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|+|||+|.+.++|.+||+.
T Consensus        82 ----------~~~~~~~~~~l~v~nl~~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~  150 (168)
T 1b7f_A           82 ----------PGGESIKDTNLYVTNLPRTITDDQLDTIF-GKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISA  150 (168)
T ss_dssp             ----------CCSSTTTTCEEEEESCCTTCCHHHHHHHH-TSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHH
T ss_pred             ----------CCcccCCCCCEEEeCCCCCCCHHHHHHhh-hcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHH
Confidence                      11223456899999999999999999999 999999999999998 999999999999999999999997


Q ss_pred             cC
Q psy3698         180 AF  181 (534)
Q Consensus       180 ~~  181 (534)
                      .+
T Consensus       151 l~  152 (168)
T 1b7f_A          151 LN  152 (168)
T ss_dssp             HT
T ss_pred             hc
Confidence            65

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

Probab=99.95  E-value=4.3e-27  Score=218.71  Aligned_cols=162  Identities=14%  Similarity=0.186  Sum_probs=128.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVP   98 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrP   98 (534)
                      ..+++|||+|||+++||++|+++|++||+|..+.++++..++ +++|||||+| ++ +|++|++ .....+.++.+.+..
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 AIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTM-KHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGR  104 (216)
T ss_dssp             HHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC--CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEEC
T ss_pred             CcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCC-ccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEec
Confidence            346899999999999999999999999999999999998887 8999999999 66 8888888 467777777777752


Q ss_pred             cccCCCCCCC-CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHH
Q psy3698          99 WAISDSNYSP-QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus        99 w~lsds~~~~-~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kA  176 (534)
                      .......... ..........++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+|
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A  183 (216)
T 2qfj_A          105 PSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVF-EAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDA  183 (216)
T ss_dssp             CSCCGGGHHHHHHHHHHHTTSCEEEEECCCTTCCHHHHHHHH-TTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHH
T ss_pred             CCCccccchhhhhhhcccCCCcEEEEeCCCCcCCHHHHHHHH-hccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHH
Confidence            1100000000 0000012456899999999999999999999 999999999999997 999999999999999999999


Q ss_pred             HHhcC-ceee
Q psy3698         177 IRAAF-IEVK  185 (534)
Q Consensus       177 Iea~~-veIk  185 (534)
                      |+..+ ..+.
T Consensus       184 ~~~l~g~~~~  193 (216)
T 2qfj_A          184 VSSMNLFDLG  193 (216)
T ss_dssp             HHHHTTCBCS
T ss_pred             HHHccCCEeC
Confidence            99755 3443

>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=99.95  E-value=4.5e-27  Score=230.34  Aligned_cols=142  Identities=7%  Similarity=-0.029  Sum_probs=116.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ..+...++|||+|||+++||++|+++|++||+|..+.++++..   .++|||||+| ++ +|++||++....+.++.+.+
T Consensus        36 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v  112 (292)
T 2ghp_A           36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLK---KNFRFARIEFARYDGALAAITKTHKVVGQNEIIV  112 (292)
T ss_dssp             ------CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTT---SSSEEEEEEESSHHHHHHHHTTTTCEETTEECEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC---CCcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEE
Confidence            3455679999999999999999999999999999999999875   3589999999 65 99999987777777777776


Q ss_pred             cccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCC-CeEEEEEecCCCCCCceEEEEEeCCHHHHHH
Q psy3698          97 VPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVYAGIDTDKHKYPIGSGRITFGSTRAYSD  175 (534)
Q Consensus        97 rPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~k  175 (534)
                      .+                 ....+|||+|||..+|+++|+++| +.|| .|..+.|..|+.+.++|||||+|.+.++|.+
T Consensus       113 ~~-----------------~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~  174 (292)
T 2ghp_A          113 SH-----------------LTECTLWMTNFPPSYTQRNIRDLL-QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARY  174 (292)
T ss_dssp             EE-----------------CCSCEEEEECCCTTCCHHHHHHHH-HHTTCCCCEEECC-------CCEEEEECSSHHHHHH
T ss_pred             EE-----------------CCCCEEEEECCCCCCCHHHHHHHH-HHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHH
Confidence            53                 135789999999999999999999 9999 9999999999888899999999999999999


Q ss_pred             HHHhcC
Q psy3698         176 AIRAAF  181 (534)
Q Consensus       176 AIea~~  181 (534)
                      ||+..+
T Consensus       175 A~~~l~  180 (292)
T 2ghp_A          175 CVEKLN  180 (292)
T ss_dssp             HHHHHT
T ss_pred             HHHHhC
Confidence            999654

>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=99.94  E-value=2.2e-25  Score=217.58  Aligned_cols=134  Identities=15%  Similarity=0.102  Sum_probs=116.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPW   99 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw   99 (534)
                      .+++|||+|||+++||++|+++|++|| |..+.+      + +++|||||+| ++ +|++|++. .+..+.++.+.+.. 
T Consensus        21 ~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~------~-~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~-   91 (284)
T 3smz_A           21 NRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV------D-KYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQL-   91 (284)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE------E-TTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE-
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE------e-cCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEe-
Confidence            468999999999999999999999999 888877      2 6689999999 55 88888865 66667777776652 


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHH
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIR  178 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIe  178 (534)
                                     .....+|||+|||..+|+++|+++| +.||.|..+.|..|+ +|.++|||||+|.+.++|.+||+
T Consensus        92 ---------------~~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~  155 (284)
T 3smz_A           92 ---------------QPTDALLCVANLPPSLTQQQFEELV-RPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKS  155 (284)
T ss_dssp             ---------------CCCSCEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH
T ss_pred             ---------------cCCCCEEEEcCCCCcCCHHHHHHHH-HhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHH
Confidence                           1234789999999999999999999 999999999999997 99999999999999999999997


Q ss_pred             hcC
Q psy3698         179 AAF  181 (534)
Q Consensus       179 a~~  181 (534)
                      ..+
T Consensus       156 ~l~  158 (284)
T 3smz_A          156 DLL  158 (284)
T ss_dssp             HHT
T ss_pred             HhC
Confidence            654

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

Probab=99.93  E-value=2.1e-26  Score=211.32  Aligned_cols=154  Identities=12%  Similarity=0.126  Sum_probs=120.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccC-----------CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCC
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFG-----------PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGN   89 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG-----------~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i   89 (534)
                      .+++|||||||+++||++|+++|++||           .|..+.+      + ++||||||+| ++ +|++||++.+..+
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------N-QDKNFAFLEFRSVDETTQAMAFDGIIF   75 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEE------E-TTTTEEEEEESCSHHHHHHGGGTTEEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEe------c-CCCCEEEEEeCCHHHHHHHHHhcCCEE
Confidence            469999999999999999999999995           4444433      3 5689999999 54 8889997777777


Q ss_pred             ccccceecccccCCCCCC----------CCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCC
Q psy3698          90 LCGRVEVVPWAISDSNYS----------PQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKY  158 (534)
Q Consensus        90 ~~k~VQVrPw~lsds~~~----------~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~  158 (534)
                      .++.+.+...........          .........+..+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.
T Consensus        76 ~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f-~~~G~v~~~~~~~~~~~~~  154 (198)
T 2yh0_A           76 QGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELL-TSFGPLKAFNLVKDSATGL  154 (198)
T ss_dssp             TTEEEEEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHH-HTBSCEEEEEEEECTTTCS
T ss_pred             cCceEEEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHH-HHcCCccEEEEeecCCCCC
Confidence            778777763221100000          00011122456899999999999999999999 999999999999997 999


Q ss_pred             CceEEEEEeCCHHHHHHHHHhcC-cee
Q psy3698         159 PIGSGRITFGSTRAYSDAIRAAF-IEV  184 (534)
Q Consensus       159 pKGfGFVtF~d~EsA~kAIea~~-veI  184 (534)
                      ++|||||+|.+.++|.+||+..+ ..+
T Consensus       155 ~~g~afV~f~~~~~a~~A~~~l~g~~~  181 (198)
T 2yh0_A          155 SKGYAFCEYVDINVTDQAIAGLNGMQL  181 (198)
T ss_dssp             EEEEEEEEESSSSHHHHHHHHHTTCEE
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEE
Confidence            99999999999999999999754 444

>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=99.93  E-value=1.8e-25  Score=218.15  Aligned_cols=168  Identities=15%  Similarity=0.158  Sum_probs=133.8

Q ss_pred             CccccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHH
Q psy3698           5 QKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILG   82 (534)
Q Consensus         5 ~~tWsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaAL   82 (534)
                      ++.++.-.+|..  ......++|||||||+++||++|+++|++||.|..+.+++       +||||||+| +. +|++|+
T Consensus         5 ~~~~~~~~~p~~--~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~-------~kg~afV~f~~~~~A~~A~   75 (261)
T 3sde_A            5 TIDIKSFLKPGE--KTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR-------DRGFGFIRLESRTLAEIAK   75 (261)
T ss_dssp             --CCCCCCCTTC--CSSCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET-------TTTEEEEECSSHHHHHHHH
T ss_pred             ccCccccCCCCC--CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC-------CCcEEEEEECCHHHHHHHH
Confidence            344554444433  6677889999999999999999999999999999998854       468999999 55 888888


Q ss_pred             h-hcCCCCccccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCce
Q psy3698          83 Q-WATEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIG  161 (534)
Q Consensus        83 q-~ssr~i~~k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKG  161 (534)
                      + ..+..+.++.+.+...                .+..+|||+|||..+|+++|+++| +.||.|..|.|..|++|.++|
T Consensus        76 ~~l~g~~i~g~~l~v~~a----------------~~~~~l~v~nl~~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g  138 (261)
T 3sde_A           76 AELDGTILKSRPLRIRFA----------------THGAALTVKNLSPVVSNELLEQAF-SQFGPVEKAVVVVDDRGRATG  138 (261)
T ss_dssp             HHHTTCEETTEECEEEEC----------------CCSSEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEEETTSCEEE
T ss_pred             HHcCCcEECCceeEeeec----------------ccCCcccccCCCCCCCHHHHHHHH-HhcCCeEEEEeeeCCCCCcCc
Confidence            7 4666777777777621                135789999999999999999999 999999999999999999999


Q ss_pred             EEEEEeCCHHHHHHHHHhc-Cceeeccceeeeeeeccc
Q psy3698         162 SGRITFGSTRAYSDAIRAA-FIEVKSGRICKKLQIDPY  198 (534)
Q Consensus       162 fGFVtF~d~EsA~kAIea~-~veIk~~k~~KrVeIkPy  198 (534)
                      ||||+|.+.++|.+||+.. ...+......+.|.|++.
T Consensus       139 ~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~  176 (261)
T 3sde_A          139 KGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPM  176 (261)
T ss_dssp             EEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEEC
T ss_pred             EEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeec
Confidence            9999999999999999986 333332222345555544

>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=99.93  E-value=4.8e-26  Score=205.98  Aligned_cols=148  Identities=12%  Similarity=0.049  Sum_probs=122.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      .++...++|||||||+++||++|+++|++||.|.. .++++..++ ++||||||+| ++ +|++||++.+..+.++.+.+
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~-~~~~~~~~~-~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v   85 (175)
T 1fje_B            8 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTG-TNRKFGYVDFESAEDLEKALELTGLKVFGNEIKL   85 (175)
T ss_dssp             SSCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEE-TTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEE
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEEECCCC-ccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEE
Confidence            35566799999999999999999999999999876 455666666 8999999999 66 89999987777777888777


Q ss_pred             cccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHH
Q psy3698          97 VPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus        97 rPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kA  176 (534)
                      ......        ......+.++|||+|||..+|+++|+++| +.||.|..+    +.++.++|||||+|.+.++|.+|
T Consensus        86 ~~~~~~--------~~~~~~~~~~l~v~nlp~~~t~~~l~~~F-~~~g~v~~~----~~~~~~~g~afV~f~~~~~A~~A  152 (175)
T 1fje_B           86 EKPKGR--------DSKKVRAARTLLAKNLSFNITEDELKEVF-EDALEIRLV----SQDGKSKGIAYIEFKSEADAEKN  152 (175)
T ss_dssp             ECCCCS--------SCSTTGGGGEEEEESCCSSCCHHHHHHHC-TTCSEEEEE----CSSSSCCSEEEEECSSHHHHHHH
T ss_pred             ecCCCc--------cccccccCCEEEEeCCCCCCCHHHHHHHH-HhcCeEEEe----cCCCCCceEEEEEECCHHHHHHH
Confidence            632211        12223457899999999999999999999 899988766    56889999999999999999999


Q ss_pred             HHhcC
Q psy3698         177 IRAAF  181 (534)
Q Consensus       177 Iea~~  181 (534)
                      |+..+
T Consensus       153 ~~~l~  157 (175)
T 1fje_B          153 LEEKQ  157 (175)
T ss_dssp             HHHHT
T ss_pred             HHHhC
Confidence            99865

>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=99.93  E-value=3e-25  Score=199.35  Aligned_cols=145  Identities=14%  Similarity=0.184  Sum_probs=120.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhcc----C-------CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCC
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQF----G-------PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGN   89 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqF----G-------~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i   89 (534)
                      .+++|||||||+++||++|+++|++|    |       .|..+.+.       ++||||||+| ++ +|++|++..+..+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~-------~~~g~afV~f~~~~~A~~A~~~~~~~~   75 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN-------QDKNFAFLEFRSVDETTQAMAFDGIIF   75 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEE-------TTTTEEEEEESSHHHHHHHGGGTTCEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEec-------CCCCEEEEEeCCHHHHHHHHHhCCcEe
Confidence            46899999999999999999999999    6       56655553       4579999999 55 8888987777778


Q ss_pred             ccccceecccccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeC
Q psy3698          90 LCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFG  168 (534)
Q Consensus        90 ~~k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~  168 (534)
                      .++.+.+....          .........+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.
T Consensus        76 ~g~~i~v~~~~----------~~~~~~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~g~~~g~afV~f~  144 (172)
T 2g4b_A           76 QGQSLKIRRPH----------DYQPLPGAHKLFIGGLPNYLNDDQVKELL-TSFGPLKAFNLVKDSATGLSKGYAFCEYV  144 (172)
T ss_dssp             TTEECEEECCS----------SCCCCTTTTCEEEECCCTTCCHHHHHHHH-HTTSCEEEEEEEECTTTCSEEEEEEEEES
T ss_pred             cCceeeecCCc----------ccCCCCCCCEEEEEcCCCcCCHHHHHHHH-HhcCCceEEEEEecCCCCCcceEEEEEeC
Confidence            88887776211          11112346889999999999999999999 899999999999997 9999999999999


Q ss_pred             CHHHHHHHHHhcC-ceee
Q psy3698         169 STRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       169 d~EsA~kAIea~~-veIk  185 (534)
                      +.++|.+||+..+ ..+.
T Consensus       145 ~~~~A~~A~~~l~g~~~~  162 (172)
T 2g4b_A          145 DINVTDQAIAGLNGMQLG  162 (172)
T ss_dssp             STTHHHHHHHHHTTCEET
T ss_pred             CHHHHHHHHHHcCCCEEC
Confidence            9999999999754 4443

>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=99.92  E-value=2.1e-24  Score=205.84  Aligned_cols=158  Identities=11%  Similarity=0.067  Sum_probs=122.0

Q ss_pred             ccCeEEEeCCC-CCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecc
Q psy3698          23 LSNKIFIGGVP-WDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVP   98 (534)
Q Consensus        23 ~SrKVFVGNLP-~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrP   98 (534)
                      ..++||||||| +++|+++|+++|++||.|..++++++      .||||||+| +. +|++||+ +++..+.++.+.|..
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            35799999999 89999999999999999999999875      369999999 55 8888887 466667777766652


Q ss_pred             cccCCC----------------CCCCC---C--------CCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCe--EEE
Q psy3698          99 WAISDS----------------NYSPQ---G--------HSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDV--VYA  149 (534)
Q Consensus        99 w~lsds----------------~~~~~---~--------~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~V--v~V  149 (534)
                      ......                .+...   .        ......+.++|||+|||..+|+++|+++| +.||.|  +.+
T Consensus        77 s~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F-~~~G~v~~~~v  155 (205)
T 3tyt_A           77 SKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEIC-DELGVKRPTSV  155 (205)
T ss_dssp             CSCSCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHH-HHHTCCCCSEE
T ss_pred             ccCCccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHH-HhcCCcceEEE
Confidence            211000                00000   0        00012356789999999999999999999 999999  899


Q ss_pred             EEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeeccc
Q psy3698         150 GIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKSGR  188 (534)
Q Consensus       150 ~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~~k  188 (534)
                      +|..|+ +.++|+|||+|.+.++|.+||...+ .++....
T Consensus       156 ~~~~~~-~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~  194 (205)
T 3tyt_A          156 KVFSGK-SERSSSGLLEWDSKSDALETLGFLNHYQMKNPN  194 (205)
T ss_dssp             EECSCC-SSSSEEEEEECSSHHHHHHHHHHHTTCEECCSS
T ss_pred             EEEcCC-CCCceEEEEEeCCHHHHHHHHHHhCCCCccCCC
Confidence            998876 5567999999999999999999876 4454443

>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=99.92  E-value=2.2e-24  Score=210.48  Aligned_cols=149  Identities=9%  Similarity=0.043  Sum_probs=127.7

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw~  100 (534)
                      .++|||+|||+++|+++|+++|++||.|..+.++++..++ +++|||||+| +. +|++|++ ..+..+.++.+.+....
T Consensus        95 ~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A           95 DALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTG-QSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             SCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCC-ccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            4789999999999999999999999999999999998888 9999999999 55 8888884 46677777777775322


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcC-CHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRL-TAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~-TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      ...       .........+|||+|||..+ |+++|+++| +.||.|..+.|..|++|.++|+|||+|.+.++|.+||+.
T Consensus       174 ~~~-------~~~~~~~~~~l~v~nlp~~~~~~~~l~~~f-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~  245 (284)
T 3smz_A          174 AGQ-------LTPALLHSRCLCVDRLPPGFNDVDALCRAL-SAVHSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQ  245 (284)
T ss_dssp             GGG-------CCTTTTSCSEEEEECCCTTCCCHHHHHHHT-CSSSCCSEEEEEECSSCCEEEEEEEECSSHHHHHHHHHH
T ss_pred             CCC-------CCcccCCccEEEEecCCcccCCHHHHHHHh-hCCCCeEEEEEEECCCCCcccEEEEEeCCHHHHHHHHHH
Confidence            111       11122456899999999995 999999999 999999999999999999999999999999999999997


Q ss_pred             cC
Q psy3698         180 AF  181 (534)
Q Consensus       180 ~~  181 (534)
                      .+
T Consensus       246 l~  247 (284)
T 3smz_A          246 AD  247 (284)
T ss_dssp             HT
T ss_pred             hC
Confidence            65

>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=99.91  E-value=2.7e-23  Score=202.55  Aligned_cols=150  Identities=13%  Similarity=0.049  Sum_probs=117.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHH----HHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLL----TVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLr----e~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ..+++|||+|||+++||++|+    ++|++||.|..+.+++   ++ ++||||||+| +. +|++|++. .+..+.++.+
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 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR---SL-KMRGQAFVIFKEVSSATNALRSMQGFPFYDKPM   82 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC---CC-CcceEEEEEECCHHHHHHHHHHhcCCeeCCcEE
Confidence            447899999999999999977    8999999999998887   45 7899999999 55 88888854 5566666666


Q ss_pred             eecccccCCCCC--------CC----------------------------------------------------------
Q psy3698          95 EVVPWAISDSNY--------SP----------------------------------------------------------  108 (534)
Q Consensus        95 QVrPw~lsds~~--------~~----------------------------------------------------------  108 (534)
                      .|.... .....        ..                                                          
T Consensus        83 ~v~~a~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  161 (282)
T 3pgw_A           83 RIQYAK-TDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQP  161 (282)
T ss_pred             EEEEec-cCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCC
Confidence            654211 11000        00                                                          


Q ss_pred             ------------------------------------CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEe
Q psy3698         109 ------------------------------------QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGID  152 (534)
Q Consensus       109 ------------------------------------~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~  152 (534)
                                                          ........+.++|||+|||..+|+++|+++| +.||.|..|.|.
T Consensus       162 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F-~~~G~i~~v~~~  240 (282)
T 3pgw_A          162 PYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLF-NQFPGFKEVRLV  240 (282)
T ss_pred             CCCCCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHH-HhcCCeEEEEEe
Confidence                                                0000112356889999999999999999999 999999999998


Q ss_pred             cCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         153 TDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       153 ~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++    +|||||+|.+.++|.+||+..+
T Consensus       241 ~~~----~g~afV~f~~~~~A~~A~~~l~  265 (282)
T 3pgw_A          241 PGR----HDIAFVEFDNEVQAGAARDALQ  265 (282)
T ss_pred             cCC----CcEEEEEeCCHHHHHHHHHHcC
Confidence            754    6899999999999999999866

>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=99.90  E-value=2e-23  Score=204.48  Aligned_cols=152  Identities=8%  Similarity=0.009  Sum_probs=119.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccC-CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFG-PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVP   98 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG-~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrP   98 (534)
                      ..++|||+|||+++|+++|+++|++|| +|..+.++++.. + +++|||||+| +. +|++|++ +.+..+.++.+.+..
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-N-TSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKV  193 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC---------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCC-C-CcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            368999999999999999999999999 999999998876 5 7899999999 55 8888888 577777777777752


Q ss_pred             cccCCCCCCCCCCCCCCCCCceeEeccccCc-CCHHHHHHHhhhcCCCeEEEEEecCCC--CCCceEEEEEeCCHHHHHH
Q psy3698          99 WAISDSNYSPQGHSTKLEPGKTIFVGALHGR-LTAQALYNVMNDLFGDVVYAGIDTDKH--KYPIGSGRITFGSTRAYSD  175 (534)
Q Consensus        99 w~lsds~~~~~~~s~~~d~~ktIFVGNLP~~-~TeedLreiF~s~FG~Vv~V~I~~DkT--G~pKGfGFVtF~d~EsA~k  175 (534)
                      .... ....  .......+..+|||+|||.. +|+++|+++| +.||.|..+.|..|+.  +.++|||||+|.+.++|.+
T Consensus       194 a~~~-~~~~--~~~~~~~~~~~l~v~nlp~~~~t~~~l~~~F-~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~  269 (292)
T 2ghp_A          194 SNPL-EKSK--RTDSATLEGREIMIRNLSTELLDENLLRESF-EGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAER  269 (292)
T ss_dssp             CCCC------------CCTTTEEEEEEECTTTCCHHHHHHHH-GGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHH
T ss_pred             CCCC-cccc--cccccCCCCceEEEECCCcccCCHHHHHHHH-hccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHH
Confidence            2111 1100  01123345789999999999 9999999999 9999999999999985  9999999999999999999


Q ss_pred             HHHhcC
Q psy3698         176 AIRAAF  181 (534)
Q Consensus       176 AIea~~  181 (534)
                      || ..+
T Consensus       270 A~-~l~  274 (292)
T 2ghp_A          270 AL-QMN  274 (292)
T ss_dssp             HG-GGT
T ss_pred             HH-Hhc
Confidence            99 655

>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=99.90  E-value=7.6e-23  Score=195.71  Aligned_cols=150  Identities=10%  Similarity=0.019  Sum_probs=118.3

Q ss_pred             CCccCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          21 EILSNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        21 p~~SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      ...+++|||+|||+ ++||++|+++|++||+|..+.+++++      +|||||+| ++ +|++|++ ..+..+.++.+.+
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            34579999999999 99999999999999999999999864      68999999 55 8888887 5667777777777


Q ss_pred             cccccCCCCCCC-------------------C-CC-----CCCCCCCceeEeccccCcCCHHHHHHHhhhcCC-CeEEEE
Q psy3698          97 VPWAISDSNYSP-------------------Q-GH-----STKLEPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVYAG  150 (534)
Q Consensus        97 rPw~lsds~~~~-------------------~-~~-----s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~  150 (534)
                      ............                   . ..     .....+.++|||+|||..+|+++|+++| +.|| .|..+.
T Consensus       105 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~~i~~v~  183 (229)
T 2adc_A          105 TLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLF-SSNGGVVKGFK  183 (229)
T ss_dssp             ECCSCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHH-HTTSCCEEEEE
T ss_pred             EEecCccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHH-HHcCCCeeEEE
Confidence            532211000000                   0 00     0112346899999999999999999999 9999 999999


Q ss_pred             EecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         151 IDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       151 I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      |..+    .+|+|||+|.+.++|.+||+..+
T Consensus       184 i~~~----~~g~afV~f~~~~~A~~Ai~~l~  210 (229)
T 2adc_A          184 FFQK----DRKMALIQMGSVEEAVQALIDLH  210 (229)
T ss_dssp             ECSS----STTCEEEEESSHHHHHHHHHHHT
T ss_pred             EEEC----CCcEEEEEECCHHHHHHHHHHHC
Confidence            8653    47999999999999999999765

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

Probab=99.90  E-value=5.2e-23  Score=190.31  Aligned_cols=147  Identities=10%  Similarity=0.048  Sum_probs=116.8

Q ss_pred             cCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceeccc
Q psy3698          24 SNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPW   99 (534)
Q Consensus        24 SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw   99 (534)
                      +++|||+|||+ ++||++|+++|++||.|..+.+++++      +|||||+| ++ +|++|++ ..+..+.++.+.+...
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~------~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a   76 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK------KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS   76 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC------SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEEC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEe
Confidence            58999999999 99999999999999999999998864      68999999 54 8888887 5677777777776532


Q ss_pred             ccCCCCC----------------------CC---CCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCC-CeEEEEEec
Q psy3698         100 AISDSNY----------------------SP---QGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVYAGIDT  153 (534)
Q Consensus       100 ~lsds~~----------------------~~---~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~I~~  153 (534)
                      .......                      ..   ........+..+|||+|||..+|+++|+++| +.|| .|..+.|..
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f-~~~G~~v~~v~i~~  155 (198)
T 1qm9_A           77 KHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLF-SSNGGVVKGFKFFQ  155 (198)
T ss_dssp             CCCSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHH-HHTTSCCCEEEESS
T ss_pred             cCCCcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHH-HHcCCCceEEEEEe
Confidence            2110000                      00   0000112457899999999999999999999 9999 999999966


Q ss_pred             CCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         154 DKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       154 DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +    .+|+|||+|.+.++|.+||+..+
T Consensus       156 ~----~~g~afV~f~~~~~A~~A~~~l~  179 (198)
T 1qm9_A          156 K----DRKMALIQMGSVEEAVQALIDLH  179 (198)
T ss_dssp             T----TSSCEEEECSSHHHHHHHHHHHT
T ss_pred             C----CCcEEEEEeCCHHHHHHHHHHhc
Confidence            4    37999999999999999999765

>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=99.74  E-value=1.6e-18  Score=150.26  Aligned_cols=106  Identities=13%  Similarity=0.028  Sum_probs=64.8

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecccc
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWA  100 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~  100 (534)
                      +.+|||||||+++||++|+++|++||+|..+.+++|..   .+||||||+| +. +|++||+. ....+.++.+.|..+.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~---~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~   81 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN---GSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   81 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT---EEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESS
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCC---CCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            57899999999999999999999999999999998864   5799999999 55 88888864 7777888888876443


Q ss_pred             cCCCCCCCCCCCCCCCCCceeEeccccCcCCHHH
Q psy3698         101 ISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQA  134 (534)
Q Consensus       101 lsds~~~~~~~s~~~d~~ktIFVGNLP~~~Teed  134 (534)
                      .......  ..........+|||+|||.++|++.
T Consensus        82 ~~~~~~~--~~~~~~~~~~~lyv~Nl~~~~T~~a  113 (115)
T 4f25_A           82 SRKEREA--ELGARAKEFTNVYIKNFGPGSTRAA  113 (115)
T ss_dssp             CCCC------------------------------
T ss_pred             Ccccccc--ccccccCCCCceEeCCCCCCccccc
Confidence            2211111  1122223446799999999999874

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

Probab=99.70  E-value=6.6e-17  Score=145.68  Aligned_cols=124  Identities=17%  Similarity=0.044  Sum_probs=87.5

Q ss_pred             EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcC--CCCcc------ccceecccccCCCCCCCCCCCCCCCCCceeEe
Q psy3698          54 EWPQGTPESPTAPKAISLDVI-SE-LVLILGQWAT--EGNLC------GRVEVVPWAISDSNYSPQGHSTKLEPGKTIFV  123 (534)
Q Consensus        54 v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ss--r~i~~------k~VQVrPw~lsds~~~~~~~s~~~d~~ktIFV  123 (534)
                      +.++++..   +++|||||+| +. +|++|++...  ..+.+      .......+.....   . ..........+|||
T Consensus         3 ~kl~ln~~---~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~-~~~~~~~~~~~l~v   75 (158)
T 2kn4_A            3 YKLILNGK---TLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHH---H-HHHMDVEGMTSLKV   75 (158)
T ss_dssp             EEEEEECS---SCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCCCC---S-SCCCCCCBCCEEEE
T ss_pred             EEEEecCc---cccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccccccc---c-ccccCCCCCCEEEE
Confidence            34555543   6899999999 55 8888886511  11111      1111111111100   0 11222345689999


Q ss_pred             ccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         124 GALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       124 GNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +|||..+|+++|+++| +.||.|..+.|..|+ ++.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        76 ~nl~~~~~~~~l~~~F-~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~  138 (158)
T 2kn4_A           76 DNLTYRTSPDTLRRVF-EKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLD  138 (158)
T ss_dssp             ESCCTTCCHHHHHHHH-HHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESS
T ss_pred             eCCCCCCCHHHHHHHH-HhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            9999999999999999 999999999999997 99999999999999999999998755 4443

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

Probab=99.65  E-value=3.7e-16  Score=135.01  Aligned_cols=86  Identities=29%  Similarity=0.381  Sum_probs=73.3

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCC---CCCCCcEEEEEe-hH-HHHHHHhh-----------
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES---PTAPKAISLDVI-SE-LVLILGQW-----------   84 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~T---g~rsRGYAFVtF-sE-sAeaALq~-----------   84 (534)
                      ...+++|||||||+++||++|+++|++||+|. +.++.+..+   + ++||||||+| ++ +|++||+.           
T Consensus         5 ~~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g-~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~   82 (114)
T 2dnl_A            5 SSGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYF-PPKGYAFLLFQEESSVQALIDACLEEDGKLYLC   82 (114)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCS-CTTSEEEECCSSHHHHHHHHHHSEEETTEEEEE
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCC-CcccEEEEEECCHHHHHHHHHhhhhcCCcEEEe
Confidence            34579999999999999999999999999999 677777665   5 8999999999 55 88888875           


Q ss_pred             -cCCCCccccceecccccCCCCCCC
Q psy3698          85 -ATEGNLCGRVEVVPWAISDSNYSP  108 (534)
Q Consensus        85 -ssr~i~~k~VQVrPw~lsds~~~~  108 (534)
                       ..+.++.+.++++||.+.+.+|..
T Consensus        83 ~~~~~~~~~~~~v~p~~~~d~~~~~  107 (114)
T 2dnl_A           83 VSSPTIKDKPVQIRPWNLSDSDFVM  107 (114)
T ss_dssp             ECCSSSCSEEEEEECCCCCCCCCCC
T ss_pred             ccCCCcCCCeeeccCCcccCCceec
Confidence             223677889999999999998876

>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=99.65  E-value=1.3e-15  Score=139.28  Aligned_cols=69  Identities=22%  Similarity=0.307  Sum_probs=62.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+.....+.
T Consensus        11 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~   80 (196)
T 1l3k_A           11 EQLRKLFIGGLSFETTDESLRSHF-EQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVD   80 (196)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEEC
Confidence            456899999999999999999999 999999999999998 899999999999999999999987544443

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.64  E-value=1.2e-15  Score=136.37  Aligned_cols=63  Identities=21%  Similarity=0.315  Sum_probs=58.7

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CC--CCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HK--YPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG--~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++|||+|||.++|+++|+++| +.||.|..+.|..|+ ++  +++|||||+|.+.++|.+||+..+
T Consensus         3 ~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   68 (175)
T 3nmr_A            3 AIKMFVGQVPRTWSEKDLRELF-EQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALH   68 (175)
T ss_dssp             CEEEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             ceEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhc
Confidence            5789999999999999999999 999999999999998 44  899999999999999999998754

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

Probab=99.60  E-value=2.3e-15  Score=126.25  Aligned_cols=97  Identities=15%  Similarity=0.137  Sum_probs=72.5

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceeccccc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVPWAI  101 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrPw~l  101 (534)
                      ++|||||||+++||++|+++|++||+|..+.++++      ++|||||+| ++ +|++|++. ....+.++.+.|.....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   74 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN------PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTG   74 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS------SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC------CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccC
Confidence            58999999999999999999999999999999886      579999999 55 88888874 66677888887763322


Q ss_pred             CCCCCCCCCCCCCCCCCceeEecccc
Q psy3698         102 SDSNYSPQGHSTKLEPGKTIFVGALH  127 (534)
Q Consensus       102 sds~~~~~~~s~~~d~~ktIFVGNLP  127 (534)
                      ..................+||||||+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~ifvg~L~  100 (101)
T 2hvz_A           75 MPRRSRFDRPPARRKLLEVLFNGPLE  100 (101)
T ss_dssp             CCCSSCCCSCCCSCCCCSCCCSCCCC
T ss_pred             CCCcccCCCCCccccCCCceecCCCC
Confidence            22111111122223446889999996

>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=99.60  E-value=5.3e-15  Score=131.71  Aligned_cols=64  Identities=22%  Similarity=0.299  Sum_probs=59.9

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.++|||+|||..+|+++|+++| +.||.|..+.|..++ ++.++|||||+|.+.++|.+||+...
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~   66 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALF-RAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLN   66 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHH-HTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHT
T ss_pred             CccEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcC
Confidence            45789999999999999999999 999999999999997 89999999999999999999998644

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

Probab=99.58  E-value=4.9e-15  Score=127.27  Aligned_cols=78  Identities=14%  Similarity=0.050  Sum_probs=69.6

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      +......++|||||||+++||++|+++|++||+|..+.+++|+. + ++||||||+| ++ +|++||++....+.++.+.
T Consensus         5 ~~~~~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g-~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l~   82 (103)
T 1s79_A            5 LKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-K-AFKGSIFVVFDSIESAKKFVETPGQKYKETDLL   82 (103)
T ss_dssp             CSSCSGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-T-SCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCE
T ss_pred             ccccCCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC-C-CCccEEEEEECCHHHHHHHHHcCCCEECCEEEE
Confidence            45567789999999999999999999999999999999999987 6 9999999999 66 9999999877788888877


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        83 V~   84 (103)
T 1s79_A           83 IL   84 (103)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.57  E-value=2.8e-14  Score=126.27  Aligned_cols=63  Identities=16%  Similarity=0.266  Sum_probs=59.8

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f-~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~   65 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLF-GSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLN   65 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             cceEEEcCCCCCCCHHHHHHHH-HhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcC
Confidence            5789999999999999999999 999999999999998 99999999999999999999998644

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

Probab=99.57  E-value=3.5e-15  Score=128.28  Aligned_cols=88  Identities=20%  Similarity=0.183  Sum_probs=65.1

Q ss_pred             ccCCCCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhc
Q psy3698           8 WEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWA   85 (534)
Q Consensus         8 WsG~lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s   85 (534)
                      |+..++... .+++...++|||||||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||+..
T Consensus        10 ~~~~~~~~~-~~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg-~~kg~afV~f~~~~~A~~Ai~~~   87 (109)
T 2rs2_A           10 HSSGLVPRG-SHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK-RSRGFGFVTFMDQAGVDKVLAQS   87 (109)
T ss_dssp             -----------------CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTC-CCTTCEEEEESSHHHHHHHHHSS
T ss_pred             ccCCCCccc-cccCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCC-CcCcEEEEEECCHHHHHHHHHHC
Confidence            343333333 5777788999999999999999999999999999999999999888 9999999999 66 899999876


Q ss_pred             CCCCccccceec
Q psy3698          86 TEGNLCGRVEVV   97 (534)
Q Consensus        86 sr~i~~k~VQVr   97 (534)
                      ...+.++.+.+.
T Consensus        88 ~~~l~g~~l~V~   99 (109)
T 2rs2_A           88 RHELDSKTIDPK   99 (109)
T ss_dssp             CEEETTEEEEEE
T ss_pred             CCcCCCEEEEEE
Confidence            666777777665

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

Probab=99.57  E-value=2.8e-14  Score=126.14  Aligned_cols=62  Identities=16%  Similarity=0.258  Sum_probs=57.8

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ++|||+|||.++|+++|+++| +.||.|..+.|..|+.+.++|||||+|.+.++|.+||+..+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~   62 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYF-QVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLN   62 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHH-GGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHT
T ss_pred             CEEEECCCCCcCCHHHHHHHH-HhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcC
Confidence            589999999999999999999 99999999999999988899999999999999999997644

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.57  E-value=3.8e-15  Score=126.59  Aligned_cols=75  Identities=9%  Similarity=-0.016  Sum_probs=66.5

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||||||+++||++|+++|++||+|..+.+++|+.++ ++||||||+| +. +|++|++. .+..+.++.+.|.
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~   94 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAG-HSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS   94 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCC-cccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            346799999999999999999999999999999999999888 9999999999 55 88888874 6777777777775

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

Probab=99.57  E-value=1.5e-14  Score=120.82  Aligned_cols=78  Identities=27%  Similarity=0.280  Sum_probs=69.7

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      .....++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||++....+.++.+.|.
T Consensus         6 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~   84 (99)
T 2dgs_A            6 SGSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQ-RPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVK   84 (99)
T ss_dssp             CCSSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTC-SCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-CCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEE
Confidence            34556999999999999999999999999999999999998888 8999999999 66 899999887778888888886


Q ss_pred             c
Q psy3698          98 P   98 (534)
Q Consensus        98 P   98 (534)
                      .
T Consensus        85 ~   85 (99)
T 2dgs_A           85 R   85 (99)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=99.56  E-value=2.1e-15  Score=125.97  Aligned_cols=73  Identities=11%  Similarity=0.008  Sum_probs=63.9

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccC-CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhc--CCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFG-PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWA--TEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG-~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s--sr~i~~k~VQVr   97 (534)
                      +++|||+|||+++||++|+++|++|| +|..+.+++|+.++ ++||||||+| +. +|++||+..  ...+.++.+.|.
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~-~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~   78 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSG-QSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMH   78 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSC-CCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCC-CcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEE
Confidence            57899999999999999999999999 89999999999988 9999999999 55 899999753  334667777775

>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=99.56  E-value=4e-15  Score=121.33  Aligned_cols=78  Identities=19%  Similarity=0.241  Sum_probs=67.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      .++...++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++.....+.++.+.|
T Consensus         6 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v   84 (87)
T 3s7r_A            6 KNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTG-RSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDP   84 (87)
T ss_dssp             -CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTC-CEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCC-ccccEEEEEECCHHHHHHHHHhCCCEECCEEEEE
Confidence            345667999999999999999999999999999999999998888 9999999999 55 89999987666677666665


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        85 ~   85 (87)
T 3s7r_A           85 K   85 (87)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=9.5e-15  Score=115.97  Aligned_cols=71  Identities=23%  Similarity=0.191  Sum_probs=64.3

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ||||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|+++....+.++.+.+.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~   73 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTN-RHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECK   73 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSST-TSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEE
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-CcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEE
Confidence            69999999999999999999999999999999998888 8999999999 66 899999887777877777664

>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=99.54  E-value=3.7e-14  Score=119.43  Aligned_cols=78  Identities=18%  Similarity=0.118  Sum_probs=69.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .++...++|||+|||+++|+++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++|++. ....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   88 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTG-QHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIR   88 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC-SBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-cCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            455677999999999999999999999999999999999998888 8999999999 55 88888885 66778888887


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        89 v~   90 (105)
T 1x5u_A           89 VN   90 (105)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.54  E-value=1.1e-14  Score=126.32  Aligned_cols=73  Identities=8%  Similarity=-0.020  Sum_probs=64.8

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      .++|||+|||+++||++|+++|++||+|..+.+++|+.|+ ++||||||+| +. +|++|++. +...+.++.+.|.
T Consensus         6 ~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg-~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~   81 (110)
T 3s8s_A            6 LKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTR-KHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQ   81 (110)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCC-ceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            4689999999999999999999999999999999999988 9999999999 55 88888874 6677777777665

>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=99.53  E-value=2.2e-14  Score=121.85  Aligned_cols=67  Identities=21%  Similarity=0.339  Sum_probs=61.8

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+|||+|||.++|+++|+++| +.||.|..+.|..|+ +|.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        19 gt~lfV~nLp~~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~   87 (99)
T 4fxv_A           19 GTNLIVNYLPQNMTQDELRSLF-SSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQ   87 (99)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEEC
Confidence            4689999999999999999999 999999999999998 89999999999999999999998754 4444

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

Probab=99.53  E-value=1.5e-14  Score=124.42  Aligned_cols=79  Identities=20%  Similarity=0.161  Sum_probs=69.6

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      .++...++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++||+.....+.++.+.|
T Consensus        22 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V  100 (116)
T 1x4b_A           22 REKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK-RSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEP  100 (116)
T ss_dssp             CHHHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTS-SCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEE
T ss_pred             cccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCC-CcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEE
Confidence            445566899999999999999999999999999999999998888 8999999999 65 99999988666777788777


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      ..
T Consensus       101 ~~  102 (116)
T 1x4b_A          101 KR  102 (116)
T ss_dssp             EC
T ss_pred             EE
Confidence            63

>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=99.53  E-value=3.7e-14  Score=120.53  Aligned_cols=78  Identities=12%  Similarity=0.015  Sum_probs=67.5

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeE-EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV-EWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~-v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++||++|+++|++||.|.. +.++++ .++ ++||||||+| ++ +|++||+.....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~-~~g-~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~   87 (104)
T 1wg5_A           10 PDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVD-FQG-RSTGEAFVQFASQEIAEKALKKHKERIGHRYIE   87 (104)
T ss_dssp             SSCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBC-SSS-CBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEEC-CCC-CcceEEEEEECCHHHHHHHHHhCcchhCCcEEE
Confidence            34456789999999999999999999999999987 778887 667 8999999999 66 9999999877788888887


Q ss_pred             ecc
Q psy3698          96 VVP   98 (534)
Q Consensus        96 VrP   98 (534)
                      |.+
T Consensus        88 v~~   90 (104)
T 1wg5_A           88 IFK   90 (104)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            764

>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=99.53  E-value=5.6e-14  Score=117.13  Aligned_cols=78  Identities=15%  Similarity=0.163  Sum_probs=67.9

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++ +....+.++.+.|
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (99)
T 1whw_A            4 GSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTK-KPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHV   82 (99)
T ss_dssp             CCCSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTC-CCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCC-CcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            44567899999999999999999999999999999999998888 9999999999 55 8888885 4667777788877


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      ..
T Consensus        83 ~~   84 (99)
T 1whw_A           83 LP   84 (99)
T ss_dssp             EE
T ss_pred             EE
Confidence            63

>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=99.52  E-value=4.6e-14  Score=119.05  Aligned_cols=78  Identities=17%  Similarity=0.140  Sum_probs=67.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCC---ccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGN---LCG   92 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i---~~k   92 (534)
                      ..+...++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++|++. ....+   .++
T Consensus         8 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~   86 (106)
T 2dgp_A            8 MKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTG-MHKGCAFLTYCERESALKAQSALHEQKTLPGMNR   86 (106)
T ss_dssp             CCCTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSC-SCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHhcCCcccCCCCc
Confidence            345567899999999999999999999999999999999999888 9999999999 55 88888874 55554   667


Q ss_pred             cceec
Q psy3698          93 RVEVV   97 (534)
Q Consensus        93 ~VQVr   97 (534)
                      .+.|.
T Consensus        87 ~l~v~   91 (106)
T 2dgp_A           87 PIQVK   91 (106)
T ss_dssp             CCEEE
T ss_pred             eEEEE
Confidence            77776

>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=99.52  E-value=1.2e-14  Score=115.25  Aligned_cols=71  Identities=23%  Similarity=0.239  Sum_probs=63.5

Q ss_pred             eEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        26 KVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ||||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++.....+.++.+.++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~   73 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTN-KRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIK   73 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCS-SSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-CcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEE
Confidence            69999999999999999999999999999999998888 8999999999 54 999999987677777766654

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

Probab=99.52  E-value=3.8e-14  Score=122.92  Aligned_cols=69  Identities=20%  Similarity=0.287  Sum_probs=63.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| ++||.|..|.|+.|+ ++++||||||+|.+.++|.+||+..+ .++.
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F-~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~   74 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMC-RKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVM   74 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHH-HhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            356899999999999999999999 999999999999998 89999999999999999999999865 4444

>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=99.52  E-value=6.1e-14  Score=121.99  Aligned_cols=76  Identities=17%  Similarity=0.201  Sum_probs=66.4

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ....++|||+|||+++|+++|+++|++||+|..+.++++. ++ +++|||||+| +. +|++|++. .+..+.++.+.|.
T Consensus         4 ~~~~~~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            4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TS-KSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVE   81 (116)
T ss_dssp             TCSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST-TT-TCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CC-CcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            4456899999999999999999999999999999999988 67 8999999999 55 88888874 6677788888776


Q ss_pred             c
Q psy3698          98 P   98 (534)
Q Consensus        98 P   98 (534)
                      .
T Consensus        82 ~   82 (116)
T 2fy1_A           82 Q   82 (116)
T ss_dssp             E
T ss_pred             E
Confidence            3

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

Probab=99.52  E-value=1.4e-14  Score=115.06  Aligned_cols=72  Identities=22%  Similarity=0.270  Sum_probs=64.0

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++.....+.++.+.+.
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~   74 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTK-RSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPK   74 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSS-SCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCC-CcCceEEEEEcCHHHHHHHHHhCCCccCCEEEEEE
Confidence            589999999999999999999999999999999998888 9999999999 55 899999875577777777665

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

Probab=99.52  E-value=4.9e-14  Score=116.41  Aligned_cols=74  Identities=12%  Similarity=0.111  Sum_probs=66.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      .+++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++ +....+.++.+.|.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   80 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTG-RSKGYGFITFSDSECARRALEQLNGFELAGRPMRVG   80 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSC-CCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCC-ceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            45899999999999999999999999999999999998888 9999999999 55 8888888 47778888888876

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

Probab=99.52  E-value=7.1e-14  Score=117.83  Aligned_cols=78  Identities=13%  Similarity=0.143  Sum_probs=68.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCC-CCCCCCCCcEEEEEe-hH-HHHHHHhh--cCCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGT-PESPTAPKAISLDVI-SE-LVLILGQW--ATEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD-~~Tg~rsRGYAFVtF-sE-sAeaALq~--ssr~i~~k~   93 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.++++ +.++ +++|||||+| +. +|++||+.  ....+.++.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~   88 (107)
T 2cph_A           10 PKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTG-AHRGFGFVDFITKQDAKKAFNALCHSTHLYGRR   88 (107)
T ss_dssp             CCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSC-SSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCB
T ss_pred             ccCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCC-CcCceEEEEECCHHHHHHHHHHhccCCeECCCE
Confidence            45566799999999999999999999999999999999998 6777 8999999999 55 88888875  577788888


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        89 l~v~   92 (107)
T 2cph_A           89 LVLE   92 (107)
T ss_dssp             CEEE
T ss_pred             EEEE
Confidence            8776

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.52  E-value=4e-14  Score=115.39  Aligned_cols=70  Identities=23%  Similarity=0.291  Sum_probs=63.9

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ +++++|||||+|.+.++|.+||+....++.
T Consensus         8 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~   78 (87)
T 3s7r_A            8 EEDAGKMFVGGLSWDTSKKDLKDYF-TKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLD   78 (87)
T ss_dssp             CSCTTEEEEECCCTTCCHHHHHHHH-TTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEEC
Confidence            3457899999999999999999999 999999999999997 899999999999999999999987665554

>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=7.6e-13  Score=128.75  Aligned_cols=64  Identities=17%  Similarity=0.348  Sum_probs=58.0

Q ss_pred             CCCCceeEeccccCcCCHHHHH----HHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALY----NVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLr----eiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||..+|+++|+    ++| +.||.|..|.|..  ++++||||||+|.+.++|.+||+..+
T Consensus         6 ~~~~~~l~V~nlp~~~~~~~l~~~L~~~F-~~~G~i~~v~~~~--~~~~~g~afV~f~~~~~a~~A~~~l~   73 (282)
T 3pgw_A            6 TRPNHTIYINNLNEKIKKDELKKSLYAIF-SQFGQILDILVSR--SLKMRGQAFVIFKEVSSATNALRSMQ   73 (282)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHH-hccCCeEEEEEcC--CCCcceEEEEEECCHHHHHHHHHHhc
Confidence            4567899999999999999977    899 9999999998876  77899999999999999999997755

>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=5.2e-14  Score=117.81  Aligned_cols=78  Identities=14%  Similarity=0.041  Sum_probs=67.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeE--------EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCC
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV--------EWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATE   87 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~--------v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr   87 (534)
                      ..+...++|||||||+++||++|+++|++||.|..        +.+++++.++ ++||||||+| ++ +|++|++ +.+.
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g-~~~G~afV~f~~~~~a~~Ai~~l~g~   86 (99)
T 2la6_A            8 HSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG-KLKGEATVSFDDPPSAKAAIDWFDGK   86 (99)
T ss_dssp             CSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTC-SEEEEEEEEBSSHHHHHHHHHHHTTC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCC-CeeeEEEEEECCHHHHHHHHHHhCCC
Confidence            34556799999999999999999999999999998        9999998888 9999999999 55 8888887 4667


Q ss_pred             CCccccceec
Q psy3698          88 GNLCGRVEVV   97 (534)
Q Consensus        88 ~i~~k~VQVr   97 (534)
                      .+.++.+.|.
T Consensus        87 ~~~g~~l~V~   96 (99)
T 2la6_A           87 EFSGNPIKVS   96 (99)
T ss_dssp             BSSSSBCEEE
T ss_pred             EeCCcEEEEE
Confidence            7777776664

>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=99.51  E-value=3.1e-14  Score=116.02  Aligned_cols=75  Identities=17%  Similarity=0.113  Sum_probs=67.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVP   98 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrP   98 (534)
                      ..++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|+.+....+.++.+.|.+
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V~~   81 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSG-HPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIP   81 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSS-SCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEE
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEE
Confidence            46899999999999999999999999999999999998888 9999999999 44 8888887677788888888764

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

Probab=99.51  E-value=7.7e-14  Score=129.31  Aligned_cols=64  Identities=14%  Similarity=0.159  Sum_probs=58.4

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..++|||+|||.++|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~   91 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAF-APFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMN   91 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHH-GGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHS
T ss_pred             cCCEEEEECCCCCCCHHHHHHHH-HhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHcc
Confidence            35789999999999999999999 999999999999998 99999999999999999999998644

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

Probab=99.51  E-value=5.4e-14  Score=117.23  Aligned_cols=81  Identities=11%  Similarity=0.224  Sum_probs=69.2

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeE-EEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceeeccceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVV-YAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVKSGRICK  191 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv-~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk~~k~~K  191 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|. .+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+......+
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~   84 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAF-ATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAK   84 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHH-HHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCE
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHH-HHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcce
Confidence            3567899999999999999999999 9999999 99999998 99999999999999999999999755 5565554444


Q ss_pred             eeeec
Q psy3698         192 KLQID  196 (534)
Q Consensus       192 rVeIk  196 (534)
                      ++.|.
T Consensus        85 ~l~v~   89 (99)
T 2div_A           85 RFKLN   89 (99)
T ss_dssp             ECCEE
T ss_pred             eEEEe
Confidence            44443

>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=99.50  E-value=3e-14  Score=122.13  Aligned_cols=77  Identities=17%  Similarity=0.018  Sum_probs=67.3

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      +....++|||+|||+++|+++|+++|++||.|..+.+++++.++ +++|||||+| +. +|++||.+....+.++.+.|.
T Consensus        21 ~~~~~~~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           21 EERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSR-RSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQ   99 (114)
T ss_dssp             THHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSS-SCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEE
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCC-ccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEE
Confidence            34567899999999999999999999999999999999999888 8999999999 55 888888667777777777765

>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=99.50  E-value=2.6e-14  Score=122.48  Aligned_cols=100  Identities=11%  Similarity=0.182  Sum_probs=80.5

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceeccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVPW   99 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrPw   99 (534)
                      .+++|||+|||+++|+++|+++|++||.|..+.++++.    .++|||||+| +. +|++|++ +.+..+.++.+.+...
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    4589999999 55 8888888 4777777777777621


Q ss_pred             ccCCCCCCCCCCCCCCCCCceeEeccccCcCCHHHHHHHhhhcCCC
Q psy3698         100 AISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGD  145 (534)
Q Consensus       100 ~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~  145 (534)
                      ....               .   ..+++...++++|.++| ++||-
T Consensus        83 ~~~~---------------~---~~~~~~~~~~~~l~~~~-~~~g~  109 (115)
T 3lqv_A           83 NANR---------------A---FQKMDTKKKEEQLKLLK-EKYGI  109 (115)
T ss_dssp             CHHH---------------H---TTTSCHHHHHHHHHHHH-HHHCC
T ss_pred             cCCh---------------h---hhhhhHhHhHHHHHHHH-HHhCC
Confidence            1100               0   15778889999999999 88884

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

Probab=99.50  E-value=7.8e-14  Score=119.87  Aligned_cols=78  Identities=15%  Similarity=0.187  Sum_probs=68.7

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||+.....+.++.+.|
T Consensus        12 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V   90 (116)
T 2cqd_A           12 QKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTG-KSRGYGFVTMADRAAAERACKDPNPIIDGRKANV   90 (116)
T ss_dssp             CCSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSC-CCCSEEEEEESSHHHHHHHHTCSSCEETTEECEE
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCC-ccceEEEEEECCHHHHHHHHHhCCCcCCCEEEEE
Confidence            445567999999999999999999999999999999999998888 9999999999 55 89999987555777777777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        91 ~   91 (116)
T 2cqd_A           91 N   91 (116)
T ss_dssp             E
T ss_pred             E
Confidence            6

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

Probab=99.50  E-value=5.1e-14  Score=118.39  Aligned_cols=77  Identities=14%  Similarity=0.097  Sum_probs=68.3

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      +....++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||+ +....+.++.+.|
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   87 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTK-APRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRV   87 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSC-SBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEE
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCC-CCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEE
Confidence            34557999999999999999999999999999999999998888 8999999999 55 8888888 4777788888877


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        88 ~   88 (103)
T 2dnm_A           88 Q   88 (103)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.50  E-value=1.8e-14  Score=119.03  Aligned_cols=73  Identities=18%  Similarity=0.122  Sum_probs=64.2

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccC--CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceecc
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFG--PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVVP   98 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG--~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVrP   98 (534)
                      .+|||||||+++||++|+++|++||  .|..+.+++|+.++ ++||||||+| ++ +|++|++ +++..+.++.+.|..
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g-~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~   79 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANG-QSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP   79 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTC-CEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCC-ccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEE
Confidence            4799999999999999999999999  99999999999888 9999999999 55 8888886 577788888888763

>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=99.50  E-value=9.2e-14  Score=124.41  Aligned_cols=62  Identities=18%  Similarity=0.250  Sum_probs=52.7

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcC----C-------CeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCcee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLF----G-------DVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEV  184 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~F----G-------~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veI  184 (534)
                      +.++|||+|||.++|+++|+++| +.|    |       .|..+.+..     +||||||+|.+.++|.+||+.....+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F-~~~g~~~g~~~~~~~~v~~~~~~~-----~~g~afV~f~~~~~A~~A~~~~~~~~   75 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQ-----DKNFAFLEFRSVDETTQAMAFDGIIF   75 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHH-HHHHHHTTCCSSSSCSEEEEEEET-----TTTEEEEEESSHHHHHHHGGGTTCEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHH-HHHhhhcccccCCCCceeeeEecC-----CCCEEEEEeCCHHHHHHHHHhCCcEe
Confidence            46899999999999999999999 899    6       777777765     68999999999999999993333444

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

Probab=99.50  E-value=2.5e-14  Score=120.68  Aligned_cols=79  Identities=19%  Similarity=0.198  Sum_probs=69.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      .+....++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||+.....+.++.+.|
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~V   89 (105)
T 2dh8_A           11 SGADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTN-QSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDP   89 (105)
T ss_dssp             CCSSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSC-CEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCC-CcceEEEEEECCHHHHHHHHHhCCCeECCEEEEE
Confidence            345567999999999999999999999999999999999998888 8999999999 55 89999988666777777777


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      ..
T Consensus        90 ~~   91 (105)
T 2dh8_A           90 KP   91 (105)
T ss_dssp             CC
T ss_pred             EE
Confidence            63

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

Probab=99.50  E-value=7.2e-14  Score=116.92  Aligned_cols=78  Identities=18%  Similarity=0.163  Sum_probs=67.6

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      .......++|||+|||+++||++|+++|++||+|..+.+++++ ++ ++||||||+| +. +|++|++. ....+.++.+
T Consensus        11 ~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   88 (100)
T 2do4_A           11 YSTSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AG-KPKGLAYVEYENESQASQAVMKMDGMTIKENII   88 (100)
T ss_dssp             CSSCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TS-CEEEEEEEEESSHHHHHHHHHHHTTEESSSCEE
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CC-CEEeEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3556678999999999999999999999999999999999988 67 8999999999 55 88888865 6667777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        89 ~v~   91 (100)
T 2do4_A           89 KVA   91 (100)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            775

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

Probab=99.50  E-value=8.4e-14  Score=116.66  Aligned_cols=78  Identities=18%  Similarity=0.156  Sum_probs=68.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++. ....+.++.+.|
T Consensus         8 ~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   86 (102)
T 1x5s_A            8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQ-RSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRV   86 (102)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSC-SCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-CcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            34456899999999999999999999999999999999998887 8999999999 55 88888854 777788888887


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      ..
T Consensus        87 ~~   88 (102)
T 1x5s_A           87 DQ   88 (102)
T ss_dssp             EE
T ss_pred             EE
Confidence            63

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

Probab=99.50  E-value=4.6e-14  Score=116.34  Aligned_cols=79  Identities=15%  Similarity=0.019  Sum_probs=68.4

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ..++...++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. ....+.++.+
T Consensus         9 ~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   87 (95)
T 2cqc_A            9 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR-RSRGFAFVYFENVDDAKEAKERANGMELDGRRI   87 (95)
T ss_dssp             CCSCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSS-SEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCC-CcccEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            3556677999999999999999999999999999999999998887 8999999999 55 88888884 6666777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        88 ~v~   90 (95)
T 2cqc_A           88 RVS   90 (95)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            665

>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=99.50  E-value=2.5e-14  Score=123.46  Aligned_cols=77  Identities=8%  Similarity=-0.107  Sum_probs=66.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCe-eEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPV-KVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V-~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ..+...++|||+|||+++||++|+++|++||.| ..+.+++|+ ++ ++||||||+| ++ +|++||+.....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~-~g-~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~   87 (114)
T 2cpy_A           10 DVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-NG-QGLGQALVQFKNEDDARKSERLHRKKLNGREAF   87 (114)
T ss_dssp             SCCSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT-TS-SCSSCEEEECSSHHHHHHHGGGCSEEETTEEEE
T ss_pred             CCCCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC-CC-CcceEEEEEECCHHHHHHHHHhCCCccCCeEEE
Confidence            345567999999999999999999999999999 788899988 77 8999999999 66 9999998866677777776


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        88 v~   89 (114)
T 2cpy_A           88 VH   89 (114)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

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

Probab=99.50  E-value=1.8e-14  Score=120.27  Aligned_cols=62  Identities=11%  Similarity=0.113  Sum_probs=58.8

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCC-CeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFG-DVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ++|||+|||.++|+++|+++| +.|| .|..|+|+.|+ ++.+||||||+|.+.++|.+||+...
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F-~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~   65 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQL-QSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQ   65 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHH-HHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTT
T ss_pred             CEEEEeCCCCCCCHHHHHHHH-HHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcC
Confidence            689999999999999999999 9999 89999999998 89999999999999999999998753

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

Probab=99.49  E-value=2.3e-14  Score=121.80  Aligned_cols=77  Identities=12%  Similarity=0.003  Sum_probs=62.8

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCC--eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCC----CCc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGP--VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATE----GNL   90 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~--V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr----~i~   90 (534)
                      ....-.+|||+|||+++||++|+++|++||.  |..+.+++|+.++ ++||||||+| +. +|++||+. ++.    .+.
T Consensus         5 ~~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg-~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~   83 (95)
T 2lkz_A            5 HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQ-QNRGFAFVQLSSAMDASQLLQILQSLHPPLKID   83 (95)
T ss_dssp             SSCCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSS-SCSSEEEEECSSSHHHHHHHHHHHSSSSCEEET
T ss_pred             cCCccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCC-CCceEeEEEECCHHHHHHHHHHhcCCCCCceEC
Confidence            3345678999999999999999999999996  5678899999988 9999999999 44 88888875 222    356


Q ss_pred             cccceec
Q psy3698          91 CGRVEVV   97 (534)
Q Consensus        91 ~k~VQVr   97 (534)
                      +|.+.|.
T Consensus        84 Gr~i~V~   90 (95)
T 2lkz_A           84 GKTIGVD   90 (95)
T ss_dssp             TEEEEEE
T ss_pred             CEEEEEE
Confidence            6666665

>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=99.49  E-value=3.5e-14  Score=121.26  Aligned_cols=77  Identities=12%  Similarity=0.072  Sum_probs=66.5

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ..+...++|||+|||+++||++|+++|++||.| .+.+++|+ ++ ++||||||+| ++ +|++||++....+.++.+.|
T Consensus        10 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~-~g-~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V   86 (102)
T 1wez_A           10 FQSTTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGP-DG-RVTGEADVEFATHEDAVAAMAKDKANMQHRYVEL   86 (102)
T ss_dssp             CCCSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESS-SS-CEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECC-CC-CEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEE
Confidence            345567899999999999999999999999955 88888887 67 9999999999 55 89999988888888888887


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      .+
T Consensus        87 ~~   88 (102)
T 1wez_A           87 FL   88 (102)
T ss_dssp             EE
T ss_pred             EE
Confidence            64

>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=99.49  E-value=1.3e-13  Score=116.88  Aligned_cols=78  Identities=19%  Similarity=0.157  Sum_probs=68.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-c------CCCC
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-A------TEGN   89 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-s------sr~i   89 (534)
                      .++...++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++||+. .      ...+
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~   88 (111)
T 1x4h_A           10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTE-HSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKL   88 (111)
T ss_dssp             CCCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSC-CBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEES
T ss_pred             CcCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-CCccEEEEEECCHHHHHHHHHHhccccccCCcEE
Confidence            345567899999999999999999999999999999999998888 8999999999 55 88888875 4      5677


Q ss_pred             ccccceec
Q psy3698          90 LCGRVEVV   97 (534)
Q Consensus        90 ~~k~VQVr   97 (534)
                      .++.+.|.
T Consensus        89 ~g~~l~v~   96 (111)
T 1x4h_A           89 DGRQLKVD   96 (111)
T ss_dssp             SSCEEEEE
T ss_pred             cCEEEEEE
Confidence            77877776

>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=99.49  E-value=6.3e-14  Score=120.44  Aligned_cols=89  Identities=10%  Similarity=0.059  Sum_probs=73.2

Q ss_pred             ccCCCCCCC-CCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-
Q psy3698           8 WEGVLPLRT-QFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-   83 (534)
Q Consensus         8 WsG~lPPR~-~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-   83 (534)
                      |+..++... ....+..+++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++ 
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~F~~~~~A~~Ai~~   87 (108)
T 2jrs_A            9 SHMAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETG-RSKGYGFITFSDSECAKKALEQ   87 (108)
T ss_dssp             SCSSSSSCCSSCCSCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTT-EEEEEEEEEESCHHHHHHHHHH
T ss_pred             hhhccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-ccceEEEEEECCHHHHHHHHHH
Confidence            444443322 34556677899999999999999999999999999999999998887 8999999999 55 8888887 


Q ss_pred             hcCCCCccccceec
Q psy3698          84 WATEGNLCGRVEVV   97 (534)
Q Consensus        84 ~ssr~i~~k~VQVr   97 (534)
                      ..+..+.++.+.|.
T Consensus        88 l~g~~i~g~~l~V~  101 (108)
T 2jrs_A           88 LNGFELAGRPMKVG  101 (108)
T ss_dssp             HTTCCSSSSCCEEE
T ss_pred             cCCCEECCEEEEEE
Confidence            47777888888776

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

Probab=99.49  E-value=4.2e-14  Score=122.05  Aligned_cols=82  Identities=21%  Similarity=0.265  Sum_probs=67.5

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-C---CCCceEEEEEeCCHHHHHHHHHhcC------ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-H---KYPIGSGRITFGSTRAYSDAIRAAF------IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-T---G~pKGfGFVtF~d~EsA~kAIea~~------veIk  185 (534)
                      ...++|||||||..+|+++|+++| ++||.|. +.++.|+ +   |++||||||+|.+.++|.+||++.+      +.+.
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F-~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~~   83 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASF-RRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACLEEDGKLYLCV   83 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHT-TTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSEEETTEEEEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHH-HhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhhhcCCcEEEec
Confidence            346889999999999999999999 9999999 8888887 5   7999999999999999999998762      1111


Q ss_pred             c--cceeeeeeecccc
Q psy3698         186 S--GRICKKLQIDPYL  199 (534)
Q Consensus       186 ~--~k~~KrVeIkPyL  199 (534)
                      .  ..-.++++|+|+.
T Consensus        84 ~~~~~~~~~~~v~p~~   99 (114)
T 2dnl_A           84 SSPTIKDKPVQIRPWN   99 (114)
T ss_dssp             CCSSSCSEEEEEECCC
T ss_pred             cCCCcCCCeeeccCCc
Confidence            1  1224689999984

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

Probab=99.49  E-value=2.2e-14  Score=121.34  Aligned_cols=76  Identities=14%  Similarity=-0.024  Sum_probs=66.2

Q ss_pred             CCccCeEEEeCCCC------CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcc
Q psy3698          21 EILSNKIFIGGVPW------DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLC   91 (534)
Q Consensus        21 p~~SrKVFVGNLP~------diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~   91 (534)
                      ....++|||+|||+      ++++++|+++|++||+|..+.+++++.|+ ++||||||+| +. +|++||+ +.+..+.+
T Consensus         3 ~~~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg-~~kG~afV~f~~~~~A~~Ai~~lng~~~~g   81 (100)
T 3ns6_A            3 LGSDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATG-KTKGFLFVECGSMNDAKKIIKSFHGKRLDL   81 (100)
T ss_dssp             SCGGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTT-EECSEEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCcCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCC-ccceEEEEEECCHHHHHHHHHHhCCcccCC
Confidence            34578999999999      99999999999999999999999999888 9999999999 55 8888886 46667776


Q ss_pred             -ccceec
Q psy3698          92 -GRVEVV   97 (534)
Q Consensus        92 -k~VQVr   97 (534)
                       +.+.|.
T Consensus        82 ~r~l~V~   88 (100)
T 3ns6_A           82 KHRLFLY   88 (100)
T ss_dssp             SCBCEEE
T ss_pred             CeEEEEE
Confidence             776665

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

Probab=99.49  E-value=3.8e-14  Score=115.01  Aligned_cols=74  Identities=12%  Similarity=0.029  Sum_probs=63.0

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ..++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+++.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~   80 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTN-KCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQS   80 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSC-SCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-CcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeec
Confidence            35899999999999999999999999999999999998888 8999999999 55 88888874 5555665555443

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

Probab=99.49  E-value=7.2e-14  Score=119.97  Aligned_cols=71  Identities=14%  Similarity=0.155  Sum_probs=63.9

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccc
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGR  188 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k  188 (534)
                      ..++|||||||.++|+++|+++| +.||.|..|.|+.|+.+.+||||||+|.+.++|.+||+.....+....
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F-~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~   80 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWL-EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETD   80 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHH-HTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHH-hhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEE
Confidence            45899999999999999999999 999999999999998899999999999999999999995455555433

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

Probab=99.49  E-value=8.8e-14  Score=116.97  Aligned_cols=77  Identities=10%  Similarity=-0.031  Sum_probs=67.5

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ..++...++|||+|||+++|+++|+++|++||+|..+.++++  ++ +++|||||+| +. +|++|++. ....+.++.+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~--~g-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l   85 (103)
T 2d9p_A            9 RITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GG-RSKGFGFVCFSSPEEATKAVTEMNGRIVATKPL   85 (103)
T ss_dssp             CCCCSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC--SS-SEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBC
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CC-CcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            456678899999999999999999999999999999999988  56 8999999999 55 88888874 7777888888


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        86 ~V~   88 (103)
T 2d9p_A           86 YVA   88 (103)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>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=99.49  E-value=5.2e-14  Score=113.78  Aligned_cols=75  Identities=11%  Similarity=0.083  Sum_probs=64.6

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+.+.
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   82 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-KHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   82 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTT-EECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCC-ccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            346899999999999999999999999999999999998877 8999999999 55 88888854 6666766666654

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

Probab=99.49  E-value=5.1e-14  Score=118.42  Aligned_cols=78  Identities=14%  Similarity=0.012  Sum_probs=68.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      .+....++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++||+ +....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   88 (103)
T 2cq0_A           10 RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTG-QSKGFAFISFHRREDAARAIAGVSGFGYDHLILN   88 (103)
T ss_dssp             CCCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSC-SEEEEEEEEESSHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCC-ceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEE
Confidence            455667999999999999999999999999999999999998888 8999999999 55 8888888 466677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        89 v~   90 (103)
T 2cq0_A           89 VE   90 (103)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.49  E-value=7.4e-14  Score=115.12  Aligned_cols=76  Identities=9%  Similarity=0.163  Sum_probs=64.9

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      +...++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++ +....+.++.+.|.
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   91 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTR-KSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKAS   91 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSC-CCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCC-CcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            3455899999999999999999999999999999999998887 8999999999 55 8888886 45566666666654

>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=99.48  E-value=4.6e-14  Score=114.59  Aligned_cols=74  Identities=9%  Similarity=0.023  Sum_probs=64.6

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ..++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+.+.
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   81 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATG-KSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   81 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence            35799999999999999999999999999999999998887 8999999999 55 88888884 6666777777665

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

Probab=99.48  E-value=7.4e-14  Score=117.79  Aligned_cols=76  Identities=13%  Similarity=0.052  Sum_probs=67.0

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ....++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++|++. .+..+.++.+.|.
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 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTG-YLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVD   98 (106)
T ss_dssp             BTTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTS-SEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCC-ceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEE
Confidence            4456899999999999999999999999999999999998888 9999999999 55 88888874 6777777777775

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

Probab=99.48  E-value=1e-13  Score=114.77  Aligned_cols=74  Identities=22%  Similarity=0.137  Sum_probs=65.5

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEE-eecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVE-WPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v-~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      ..++|||+|||+++||++|+++|++||+|..+ .+++++.++ +++|||||+| ++ +|++|++ +....+.++.+.|.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   81 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTG-NSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVS   81 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTC-SCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCC-CcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            35899999999999999999999999999988 999998888 8999999999 65 8888888 46666777777776

>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=99.48  E-value=5.5e-14  Score=120.07  Aligned_cols=77  Identities=18%  Similarity=-0.052  Sum_probs=67.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCC---eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP---VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~---V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~   93 (534)
                      .+....++|||||||+++||++|+++|++||.   |..+.+++++. + ++||||||+| ++ +|++||++....+.++.
T Consensus         6 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g-~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~   83 (107)
T 2lmi_A            6 EEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-G-KRRGDALIEMESEQDVQKALEKHRMYMGQRY   83 (107)
T ss_dssp             CCCSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-S-TTCSEEEEEBSSHHHHHHHHTTTTCCSSSSC
T ss_pred             CCCCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-C-CEeeEEEEEECCHHHHHHHHHhCcceeCCeE
Confidence            45667799999999999999999999999998   88899999887 7 9999999999 66 99999997777777777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        84 i~V~   87 (107)
T 2lmi_A           84 VEVY   87 (107)
T ss_dssp             CCCE
T ss_pred             EEEE
Confidence            6665

>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=99.48  E-value=7.2e-14  Score=116.29  Aligned_cols=73  Identities=16%  Similarity=0.118  Sum_probs=64.6

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      +++|||||||+++||++|+++|++||.|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+.|.
T Consensus         2 ~~~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            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTG-RSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCG   77 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTC-CBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCC-ccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            4789999999999999999999999999999999998888 8999999999 55 88888864 6667777777765

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

Probab=99.48  E-value=4.7e-14  Score=124.67  Aligned_cols=85  Identities=14%  Similarity=0.134  Sum_probs=71.9

Q ss_pred             CCCCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC
Q psy3698          12 LPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG   88 (534)
Q Consensus        12 lPPR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~   88 (534)
                      .|+.....++...++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++||+. ....
T Consensus        30 ~p~~~~~~~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~  108 (139)
T 1u6f_A           30 IPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETR-QSRGYGFVKFQSGSSAQQAIAGLNGFN  108 (139)
T ss_dssp             CCSSCSSCCTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTT-EEEEEEEEEESSHHHHHHHHHHTTTEE
T ss_pred             CCCcccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-CcceEEEEEECCHHHHHHHHHHhCCCE
Confidence            3444434666778999999999999999999999999999999999998887 8999999999 55 88888884 6667


Q ss_pred             Cccccceec
Q psy3698          89 NLCGRVEVV   97 (534)
Q Consensus        89 i~~k~VQVr   97 (534)
                      +.++.+.|.
T Consensus       109 ~~g~~l~v~  117 (139)
T 1u6f_A          109 ILNKRLKVA  117 (139)
T ss_dssp             CSSCEEEEE
T ss_pred             ECCeEEEEE
Confidence            777777776

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

Probab=99.48  E-value=2e-13  Score=113.96  Aligned_cols=69  Identities=25%  Similarity=0.358  Sum_probs=62.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+.....+.
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~   77 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYF-KKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIM   77 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHH-SSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEEC
Confidence            456899999999999999999999 999999999999997 899999999999999999999985444454

>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=99.48  E-value=8.3e-14  Score=117.12  Aligned_cols=77  Identities=16%  Similarity=0.124  Sum_probs=66.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ......++|||+|||+++|+++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++||+. ...+.++.+.|
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~-~~~~~g~~l~v   87 (103)
T 2cqg_A           10 RAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTG-HSKGFGFVRFTEYETQVKVMSQ-RHMIDGRWCDC   87 (103)
T ss_dssp             CCCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSC-SEEEEEEEEESSHHHHHHHHHS-CEEETTEEEEE
T ss_pred             CccCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCC-CccceEEEEECCHHHHHHHHHc-CCeeCCeEEEE
Confidence            344567899999999999999999999999999999999998888 9999999999 55 88999984 44566677766


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        88 ~   88 (103)
T 2cqg_A           88 K   88 (103)
T ss_dssp             E
T ss_pred             E
Confidence            5

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

Probab=99.48  E-value=7.7e-14  Score=119.17  Aligned_cols=78  Identities=17%  Similarity=0.143  Sum_probs=68.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCee--------EEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCC
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK--------VEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATE   87 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~--------~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr   87 (534)
                      .+....++|||+|||+++|+++|+++|++||.|.        .+.+++++.++ ++||||||+| ++ +|++||+. ...
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g-~~~g~afV~f~~~~~A~~Ai~~l~g~   88 (113)
T 2cpe_A           10 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG-KPKGDATVSYEDPPTAKAAVEWFDGK   88 (113)
T ss_dssp             CCCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTC-SBCSEEEEEBSSHHHHHHHHHHHTTC
T ss_pred             ccCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCC-CeeeEEEEEECCHHHHHHHHHHcCCC
Confidence            4566789999999999999999999999999998        58899998888 9999999999 55 88888874 677


Q ss_pred             CCccccceec
Q psy3698          88 GNLCGRVEVV   97 (534)
Q Consensus        88 ~i~~k~VQVr   97 (534)
                      .+.++.+.|.
T Consensus        89 ~~~g~~l~V~   98 (113)
T 2cpe_A           89 DFQGSKLKVS   98 (113)
T ss_dssp             EETTEECEEE
T ss_pred             ccCCCEEEEE
Confidence            7777877776

>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=99.48  E-value=1.5e-13  Score=115.75  Aligned_cols=77  Identities=17%  Similarity=0.109  Sum_probs=65.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc---c
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC---G   92 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~---k   92 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.+++++ ++ ++||||||+| +. +|++||+. ....+.+   +
T Consensus        10 ~~~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~   87 (105)
T 2dnh_A           10 SRGGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DG-SSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASS   87 (105)
T ss_dssp             CSCCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECS-SS-CEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSS
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CC-CcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCc
Confidence            444567999999999999999999999999999999999987 56 8999999999 55 88888874 5666665   6


Q ss_pred             cceec
Q psy3698          93 RVEVV   97 (534)
Q Consensus        93 ~VQVr   97 (534)
                      .+.|.
T Consensus        88 ~l~V~   92 (105)
T 2dnh_A           88 SLVVK   92 (105)
T ss_dssp             CCEEE
T ss_pred             cEEEE
Confidence            77665

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

Probab=99.48  E-value=9e-14  Score=119.11  Aligned_cols=79  Identities=10%  Similarity=-0.001  Sum_probs=69.1

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ..+....++|||+|||+++||++|+++|++||.|..+.+++++.++ +++|||||+| ++ +|++||+. ....+.++.+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   87 (115)
T 2dgo_A            9 KKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATG-KSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQI   87 (115)
T ss_dssp             CCCSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHTTTCEETTEEC
T ss_pred             CCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCC-CcceEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            4566678999999999999999999999999999999999998877 8999999999 55 88888874 6667777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        88 ~V~   90 (115)
T 2dgo_A           88 RTN   90 (115)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            776

>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=99.48  E-value=4.9e-14  Score=118.79  Aligned_cols=77  Identities=16%  Similarity=0.160  Sum_probs=63.8

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCC-CCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP-ESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~-~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ......++|||||||+++||++|+++|++|| |..+.+++++ .++ ++||||||+| ++ +|++||++.+..+.++.+.
T Consensus        14 ~~~~~~~~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           14 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPE-RLKGFGYAEFEDLDSLLSALSLNEESLGNRRIR   91 (100)
T ss_dssp             ------CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTC-CCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCC-ccCeEEEEEECCHHHHHHHHhcCCCEECCeEEE
Confidence            3456679999999999999999999999999 9999999998 577 8999999999 55 8888887677788888777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        92 V~   93 (100)
T 2j76_E           92 VD   93 (100)
T ss_dssp             CE
T ss_pred             EE
Confidence            65

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

Probab=99.48  E-value=1.4e-13  Score=118.47  Aligned_cols=78  Identities=14%  Similarity=0.044  Sum_probs=66.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .+....++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++|++. .+..+.++.+.
T Consensus        35 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~  113 (118)
T 2khc_A           35 IEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTS-LSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLK  113 (118)
T ss_dssp             CCCCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSS-CCCCEEEEEEESSHHHHHHHHHCCCCEETTEECC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCC-CcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            455567899999999999999999999999999999999998888 9999999999 44 88888874 56666666665


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       114 V~  115 (118)
T 2khc_A          114 VQ  115 (118)
T ss_dssp             EE
T ss_pred             EE
Confidence            54

>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=99.47  E-value=8.8e-14  Score=124.88  Aligned_cols=115  Identities=13%  Similarity=0.073  Sum_probs=81.8

Q ss_pred             CCCcEEEEEe-hH-HHHHHHhh--cCCCCccccceecccccC-----C-CCCCCCCCCCCCCCCceeEeccccCcCCHHH
Q psy3698          65 APKAISLDVI-SE-LVLILGQW--ATEGNLCGRVEVVPWAIS-----D-SNYSPQGHSTKLEPGKTIFVGALHGRLTAQA  134 (534)
Q Consensus        65 rsRGYAFVtF-sE-sAeaALq~--ssr~i~~k~VQVrPw~ls-----d-s~~~~~~~s~~~d~~ktIFVGNLP~~~Teed  134 (534)
                      ..+|+++|+| +. +|++|++.  ++..+.+ .+.+......     . .............+.++|||||||..+|+++
T Consensus        11 ~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~t~~~   89 (150)
T 2i2y_A           11 TLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTE   89 (150)
T ss_dssp             SSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSSCCCCSCSSSSTTSCEEEEESCCSCCSCHH
T ss_pred             cccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHHH
Confidence            6789999999 44 77777753  3444444 4433311100     0 0000001222345678999999999999999


Q ss_pred             HHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         135 LYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       135 LreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      |+++| +.||.|..|.|..|    +||||||+|.+.++|.+||+..+ ..+.
T Consensus        90 l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~g~~~~  136 (150)
T 2i2y_A           90 LERAF-GYYGPLRSVWVARN----PPGFAFVEFEDPRDAADAVRELDGRTLC  136 (150)
T ss_dssp             HHHHH-HHHSCEEEEEECSS----SCSEEEEEESSHHHHHHHHHHHSSSCSS
T ss_pred             HHHHH-HhhCCEEEEEEeeC----CCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            99999 99999999999986    68999999999999999999754 3443

>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=99.47  E-value=1.4e-13  Score=116.15  Aligned_cols=75  Identities=16%  Similarity=0.162  Sum_probs=66.2

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCC-CCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceecc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES-PTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVVP   98 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~T-g~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVrP   98 (534)
                      ...++|||+|||+++||++|+++|++|| |..+.+++++.+ + +++|||||+| ++ +|++||++....+.++.+.|..
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g-~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~   90 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPE-RLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDV   90 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTT-SBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCC-CcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEE
Confidence            4468999999999999999999999999 999999999887 6 8999999999 55 8888887677778888887763

>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=99.47  E-value=8.1e-14  Score=112.17  Aligned_cols=72  Identities=8%  Similarity=0.022  Sum_probs=64.0

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      .+|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+.+.
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 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTG-SSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN   76 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTC-CEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCC-CccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEE
Confidence            689999999999999999999999999999999998888 8999999999 55 88888884 6667777777665

>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=99.47  E-value=9.3e-14  Score=119.23  Aligned_cols=78  Identities=17%  Similarity=0.052  Sum_probs=68.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .+....++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++||+. ....+.++.+.
T Consensus        20 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   98 (115)
T 2cpz_A           20 KEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTN-LSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLK   98 (115)
T ss_dssp             CCCSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSC-SEEEEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             cCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCC-CcCccEEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            455567899999999999999999999999999999999998877 8999999999 55 88888855 66777778777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        99 V~  100 (115)
T 2cpz_A           99 VQ  100 (115)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

>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=99.47  E-value=1.3e-13  Score=119.91  Aligned_cols=77  Identities=13%  Similarity=0.065  Sum_probs=67.8

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++||++|+++|++||.|..+.+++++.++ .++|||||+| +. +|++||+ +....+.++.+.|
T Consensus        18 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   96 (126)
T 3ex7_B           18 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTG-YLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISV   96 (126)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTS-SBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            44557899999999999999999999999999999999998888 8999999999 55 8888886 4777788888777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        97 ~   97 (126)
T 3ex7_B           97 D   97 (126)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.47  E-value=5e-14  Score=123.08  Aligned_cols=78  Identities=9%  Similarity=-0.000  Sum_probs=66.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ......++|||+|||+++||++|+++|++||.|..+.++.+..++ +++|||||+| ++ +|++||++....+.++.+.|
T Consensus        20 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g-~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V   98 (124)
T 1wel_A           20 SPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNG-KATGEGFVEFRNEADYKAALCRHKQYMGNRFIQV   98 (124)
T ss_dssp             SCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTS-SEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEE
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCC-CCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEE
Confidence            344566899999999999999999999999999876666666677 8999999999 55 99999988777788777776


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        99 ~   99 (124)
T 1wel_A           99 H   99 (124)
T ss_dssp             E
T ss_pred             E
Confidence            5

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

Probab=99.47  E-value=7.3e-14  Score=116.43  Aligned_cols=72  Identities=7%  Similarity=-0.044  Sum_probs=62.8

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCee-EEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccc
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK-VEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGR   93 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~-~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~   93 (534)
                      ...+++|||||||+++||++|+++|++||+|. .+.+++++.++ +++|||||+| +. +|++|++. ....+.++.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   81 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTG-IPAGYCFVEFADLATAEKCLHKINGKPLPGAT   81 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSC-CEEEEEEEECSCHHHHHHHHHTTTTSEESSCS
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCC-CcCCEEEEEeCCHHHHHHHHHHHcCCccCCCC
Confidence            34578999999999999999999999999999 99999998888 8999999999 55 88888884 555666665

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

Probab=99.47  E-value=7e-14  Score=117.15  Aligned_cols=77  Identities=10%  Similarity=0.068  Sum_probs=67.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++. ....+.++.+.|
T Consensus         8 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   86 (102)
T 2cqb_A            8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-KHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRV   86 (102)
T ss_dssp             SCCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSC-CCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            34456899999999999999999999999999999999998888 8999999999 55 88888864 666777777777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        87 ~   87 (102)
T 2cqb_A           87 N   87 (102)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=1.8e-13  Score=115.22  Aligned_cols=65  Identities=18%  Similarity=0.284  Sum_probs=61.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+++.++|||||+|.+.++|.+||+..+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~   77 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLF-QPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALH   77 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHH-TTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHc
Confidence            457899999999999999999999 99999999999999999999999999999999999999765

>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=99.46  E-value=3.3e-13  Score=112.43  Aligned_cols=69  Identities=17%  Similarity=0.144  Sum_probs=63.1

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   76 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLF-SAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQ   76 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHH-HTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            456899999999999999999999 999999999999998 99999999999999999999998765 4443

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

Probab=99.46  E-value=1.7e-13  Score=115.53  Aligned_cols=79  Identities=20%  Similarity=0.304  Sum_probs=68.5

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKL  193 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrV  193 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+.....+..    ++|
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g----~~l   87 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYF-SQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDG----RNI   87 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHH-HTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETT----EEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECC----EEE
Confidence            4567899999999999999999999 999999999999997 8999999999999999999999984455543    455


Q ss_pred             eeccc
Q psy3698         194 QIDPY  198 (534)
Q Consensus       194 eIkPy  198 (534)
                      .|+..
T Consensus        88 ~V~~a   92 (105)
T 2dh8_A           88 DPKPC   92 (105)
T ss_dssp             BCCCS
T ss_pred             EEEEc
Confidence            55544

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

Probab=99.46  E-value=1.9e-13  Score=114.92  Aligned_cols=76  Identities=11%  Similarity=-0.016  Sum_probs=65.9

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhc-cCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC-Cccccc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQ-FGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG-NLCGRV   94 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~Fsq-FG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~-i~~k~V   94 (534)
                      ++...++|||+|||+++||++|+++|++ ||+|..+.+++++ ++ ++||||||+| +. +|++||+. .... +.++.+
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~-~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l   82 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TG-VSKGYGFVKFTDELEQKRALTECQGAVGLGSKPV   82 (104)
T ss_dssp             CSSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT-TC-CEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC-CC-CccceEEEEECCHHHHHHHHHHccCCcccCCEeE
Confidence            3445689999999999999999999999 9999999999998 77 8999999999 55 88888884 5556 777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        83 ~v~   85 (104)
T 2dhg_A           83 RLS   85 (104)
T ss_dssp             CCC
T ss_pred             EEE
Confidence            776

>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=99.46  E-value=2.1e-13  Score=110.63  Aligned_cols=69  Identities=22%  Similarity=0.229  Sum_probs=62.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   74 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAF-APFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG   74 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHH-HhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456899999999999999999999 999999999999997 99999999999999999999999754 4444

>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=99.46  E-value=5.3e-14  Score=116.24  Aligned_cols=66  Identities=15%  Similarity=0.210  Sum_probs=58.5

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCC--CeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFG--DVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG--~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+|||||||..+|+++|+++| +.||  .|..+.|..|+ +|++||||||+|.+.++|.+||+..+ .++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F-~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~   71 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAV-HSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH   71 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHH-HTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSS
T ss_pred             eEEEEeCCCCCCCHHHHHHHH-HHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            579999999999999999999 9999  99999999998 99999999999999999999998765 3444

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

Probab=99.46  E-value=1.7e-13  Score=115.38  Aligned_cols=75  Identities=8%  Similarity=0.020  Sum_probs=66.6

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ....++|||+|||+++||++|+++|++|| |..+.+++++.++ ++||||||+| ++ +|++||++....+.++.+.|.
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 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTD-KFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVD   88 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSC-SEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCC-ccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEE
Confidence            34568999999999999999999999997 9999999998888 8999999999 55 888888777777888888776

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

Probab=99.45  E-value=3.4e-13  Score=119.05  Aligned_cols=78  Identities=9%  Similarity=-0.000  Sum_probs=66.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeE--EeecCCCCCCCCCCcEEEEEe-hHHHHHHHhh-cCC----CCc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV--EWPQGTPESPTAPKAISLDVI-SELVLILGQW-ATE----GNL   90 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~--v~~~rD~~Tg~rsRGYAFVtF-sEsAeaALq~-ssr----~i~   90 (534)
                      ......++|||||||+++||++|+++|++||.|..  +++++|+.++ ++||||||+| +.+|++|++. .+.    .+.
T Consensus        18 ~~~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg-~~rG~aFV~f~~~~a~~Ai~~l~g~~~~~~~~   96 (131)
T 2m2b_A           18 SSENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQ-LNRGFAFIQLSTIEAAQLLQILQALHPPLTID   96 (131)
T ss_dssp             CCSCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSS-SBCSCEEEECCHHHHHHHHHHHTTCCCSCCGG
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCC-CcceEEEEEECCHHHHHHHHHhcCCCCCccCC
Confidence            34456789999999999999999999999999976  9999999888 9999999999 3366667665 555    788


Q ss_pred             cccceec
Q psy3698          91 CGRVEVV   97 (534)
Q Consensus        91 ~k~VQVr   97 (534)
                      ++.+.|.
T Consensus        97 gr~l~V~  103 (131)
T 2m2b_A           97 GKTINVE  103 (131)
T ss_dssp             GCCCCCE
T ss_pred             CEEEEEE
Confidence            8888776

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.45  E-value=2.3e-13  Score=120.92  Aligned_cols=78  Identities=15%  Similarity=0.025  Sum_probs=69.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .++...++|||+|||+++||++|+++|++||+|..+.+++++.++ ++||||||+| ++ +|++||+. .+..+.++.+.
T Consensus        41 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~  119 (129)
T 2kxn_B           41 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR-RSRGFAFVYFENVDDAKEAKERANGMELDGRRIR  119 (129)
T ss_dssp             SCCCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSS-CCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            455667899999999999999999999999999999999998888 8999999999 55 88888884 77778888877


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       120 V~  121 (129)
T 2kxn_B          120 VD  121 (129)
T ss_dssp             ES
T ss_pred             EE
Confidence            76

>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=99.45  E-value=7.1e-14  Score=126.04  Aligned_cols=69  Identities=14%  Similarity=0.059  Sum_probs=57.0

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|.. .++.|. ++.+||||||+|.+.++|.+||+.....+.
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f-~~~g~~~~-~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~   79 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAI-SELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVF   79 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHH-HHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHH-HHhCCcce-EEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeC
Confidence            3567999999999999999999999 88998766 334443 888999999999999999999964334444

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.45  E-value=6.3e-14  Score=122.25  Aligned_cols=77  Identities=17%  Similarity=0.032  Sum_probs=66.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCC---eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGP---VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~---V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~   93 (534)
                      .+....++|||+|||+++||++|+++|++||.   |..+.+++++. + ++||||||+| ++ +|++||++....+.++.
T Consensus        12 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g-~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~   89 (118)
T 2db1_A           12 PEGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-G-RQSGEAFVELESEDDVKLALKKDRESMGHRY   89 (118)
T ss_dssp             SCBCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-S-CEEEEEEEEBSSHHHHHHHGGGTTEEETTEE
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-C-CCCeEEEEEECCHHHHHHHHhcCCCeECCeE
Confidence            34456789999999999999999999999999   88888888876 6 8999999999 66 99999997777777777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        90 i~V~   93 (118)
T 2db1_A           90 IEVF   93 (118)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            6664

>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=99.45  E-value=1.5e-13  Score=116.76  Aligned_cols=77  Identities=12%  Similarity=0.095  Sum_probs=67.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++ +.+..+.++.+.|
T Consensus        22 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V  100 (110)
T 1oo0_B           22 RSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG-FSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV  100 (110)
T ss_dssp             CBTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTS-SBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEE
Confidence            44567899999999999999999999999999999999998888 8999999999 55 8888887 4666777777777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus       101 ~  101 (110)
T 1oo0_B          101 D  101 (110)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.45  E-value=1.7e-13  Score=122.75  Aligned_cols=77  Identities=16%  Similarity=0.065  Sum_probs=65.8

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCee--EEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK--VEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~--~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~V   94 (534)
                      .++...++|||||||+++||++|+++|++| .|+  .+.+++|+. + ++||||||+| ++ +|++||+.....+.++.|
T Consensus        37 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~-G-rsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I  113 (126)
T 2hgm_A           37 ADSANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE-G-KITGEAFVQFASQELAEKALGKHKERIGHRYI  113 (126)
T ss_dssp             TCSSSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS-S-SSCSEEEEEESSTTHHHHHHTTTTCCBTTBCC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC-C-CCceEEEEEECCHHHHHHHHHHCCCEECCEEE
Confidence            445567899999999999999999999999 566  888999887 7 8999999999 55 999999987777777777


Q ss_pred             eecc
Q psy3698          95 EVVP   98 (534)
Q Consensus        95 QVrP   98 (534)
                      .|.+
T Consensus       114 ~V~~  117 (126)
T 2hgm_A          114 EVFK  117 (126)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            6653

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

Probab=99.45  E-value=1.6e-13  Score=117.97  Aligned_cols=69  Identities=23%  Similarity=0.318  Sum_probs=62.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..|.|..|+ +|.+||||||+|.+.++|.+||+.....+.
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F-~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~   92 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELD   92 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHH-TTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCC
Confidence            456899999999999999999999 999999999999998 899999999999999999999998765554

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

Probab=99.45  E-value=2.5e-13  Score=116.71  Aligned_cols=71  Identities=27%  Similarity=0.251  Sum_probs=64.7

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+..+..+.
T Consensus        13 ~~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~   84 (116)
T 2cqd_A           13 KDTTFTKIFVGGLPYHTTDASLRKYF-EGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIID   84 (116)
T ss_dssp             CSCSSSEEEEECCCSSCCHHHHHHHH-HTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEET
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHH-HhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCCcCC
Confidence            34567899999999999999999999 999999999999997 899999999999999999999998775444

>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=99.45  E-value=1.2e-13  Score=116.54  Aligned_cols=66  Identities=17%  Similarity=0.246  Sum_probs=62.0

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+..+
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~   76 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLF-EEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALH   76 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHH-HHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhc
Confidence            4567899999999999999999999 999999999999998 89999999999999999999999765

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

Probab=99.45  E-value=1.8e-13  Score=110.77  Aligned_cols=69  Identities=14%  Similarity=0.081  Sum_probs=57.5

Q ss_pred             cCeEEEeCCCCCC------CHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccc-c
Q psy3698          24 SNKIFIGGVPWDT------PEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCG-R   93 (534)
Q Consensus        24 SrKVFVGNLP~di------TEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k-~   93 (534)
                      +++|||||||+++      |+++|+++|++||+|..+.+++  .++ ++||||||+| +. +|++|++. ++..+.++ .
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 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE--EDG-KTKGYIFLEYASPAHAVDAVKNADGYKLDKQHT   77 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCC--BTT-BCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecC--CCC-cEeEEEEEEECCHHHHHHHHHHhcCcccCCcee
Confidence            4789999999999      7899999999999999998873  456 8999999999 55 88888874 56666655 4


Q ss_pred             ce
Q psy3698          94 VE   95 (534)
Q Consensus        94 VQ   95 (534)
                      +.
T Consensus        78 l~   79 (81)
T 2krb_A           78 FR   79 (81)
T ss_dssp             CC
T ss_pred             EE
Confidence            44

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

Probab=99.45  E-value=3.3e-13  Score=111.20  Aligned_cols=71  Identities=20%  Similarity=0.199  Sum_probs=64.1

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        11 ~~~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   83 (95)
T 2cqc_A           11 NPDPNCCLGVFGLSLYTTERDLREVF-SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD   83 (95)
T ss_dssp             SCCGGGCEEEESCCSSCCHHHHHHHH-HTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHH-HhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            34567899999999999999999999 999999999999998 79999999999999999999999755 4443

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

Probab=99.45  E-value=5.3e-14  Score=117.93  Aligned_cols=77  Identities=9%  Similarity=-0.020  Sum_probs=66.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccccee
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEV   96 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQV   96 (534)
                      ..+...++|||||||+++||++|+++|++||.|.. .++++..++ ++||||||+| +. +|++||++....+.++.+.|
T Consensus        12 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g-~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V   89 (101)
T 1fj7_A           12 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTG-TNRKFGYVDFESAEDLEKALELTGLKVFGNEIKL   89 (101)
T ss_dssp             TTCSCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEE-TTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCC-CcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEE
Confidence            44556789999999999999999999999999987 777777777 8999999999 55 89999988777888888877


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        90 ~   90 (101)
T 1fj7_A           90 E   90 (101)
T ss_dssp             E
T ss_pred             E
Confidence            6

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

Probab=99.45  E-value=2.9e-13  Score=113.75  Aligned_cols=71  Identities=20%  Similarity=0.202  Sum_probs=64.4

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   83 (103)
T 2cq0_A           11 RADDNATIRVTNLSEDTRETDLQELF-RPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYD   83 (103)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTS-TTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEET
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHH-HhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            34567999999999999999999999 999999999999997 89999999999999999999999755 4444

>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=99.45  E-value=2.8e-13  Score=114.90  Aligned_cols=66  Identities=26%  Similarity=0.341  Sum_probs=61.9

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~   78 (111)
T 1x4h_A           12 VTEGKTVFIRNLSFDSEEEALGEVL-QQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAAS   78 (111)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHH-HTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhc
Confidence            3567899999999999999999999 999999999999998 89999999999999999999999864

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.45  E-value=1.2e-13  Score=114.08  Aligned_cols=76  Identities=18%  Similarity=0.158  Sum_probs=65.3

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      .+...++|||+|||+++|+++|+++|++||+|..+.+++++. + ++||||||+| +. +|++|++ +....+.++.+.|
T Consensus        12 ~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   89 (95)
T 2ywk_A           12 QEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-G-KPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINV   89 (95)
T ss_dssp             CTTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-S-CEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-C-CCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEE
Confidence            345678999999999999999999999999999999999876 6 8999999999 44 8888888 4666777777766


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        90 ~   90 (95)
T 2ywk_A           90 S   90 (95)
T ss_dssp             E
T ss_pred             E
Confidence            5

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.44  E-value=3.3e-13  Score=113.56  Aligned_cols=70  Identities=23%  Similarity=0.312  Sum_probs=63.8

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (105)
T 1x5u_A           12 RNQDATVYVGGLDEKVSEPLLWELF-LQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLY   83 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHH-HTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            4567899999999999999999999 999999999999998 99999999999999999999999754 4444

>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=99.44  E-value=1.8e-13  Score=118.48  Aligned_cols=66  Identities=23%  Similarity=0.406  Sum_probs=59.0

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+|||||||..+|+++|+++| +.||.|..|+|..|+. .+||||||+|.+.++|.+||+..+ .++.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F-~~~G~v~~v~i~~d~~-~~kg~afV~f~~~~~A~~Ai~~l~~~~~~   71 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTF-SAFGNILSCKVVCDEN-GSKGYGFVHFETQEAAERAIEKMNGMLLN   71 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEEETT-EEEEEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCEEEECCCCCCCCHHHHHHHH-hccCCEEEEEEeecCC-CCCceEEEEECCHHHHHHHHHHcCCCEEC
Confidence            4679999999999999999999 9999999999999874 389999999999999999998754 4444

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.44  E-value=1.1e-13  Score=112.38  Aligned_cols=75  Identities=12%  Similarity=0.085  Sum_probs=65.0

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      .+++|||+|||+++||++|+++|++||+|..+.++++..++.+++|||||+| +. +|++|++. .+..+.++.+.+.
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   80 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITAT   80 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEE
Confidence            3589999999999999999999999999999999998876634899999999 55 88888884 7777777777776

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

Probab=99.44  E-value=1e-13  Score=127.36  Aligned_cols=74  Identities=20%  Similarity=0.181  Sum_probs=65.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccC--CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFG--PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG--~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ..++|||||||+++||++|+++|++||  +|..+.+++|+.++ ++||||||+| ++ +|++||+. .+..+.++.+.|.
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 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANG-QSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTC-CEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            457999999999999999999999999  99999999999888 9999999999 65 89999887 6677777777765

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

Probab=99.44  E-value=7.4e-14  Score=110.88  Aligned_cols=67  Identities=24%  Similarity=0.303  Sum_probs=61.9

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      .+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+..+..
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g   68 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDS   68 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHH-TTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCCCccCC
Confidence            379999999999999999999 999999999999997 8999999999999999999999987755543

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

Probab=99.44  E-value=1.1e-13  Score=115.24  Aligned_cols=75  Identities=17%  Similarity=0.053  Sum_probs=64.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCC---CCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPE---SPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~---Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      ..++|||+|||+++||++|+++|++||+|..+.+++++.   ++ +++|||||+| +. +|++|++. ....+.++.+.|
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVL-LSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEV   82 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCE-EEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCc-CcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            357899999999999999999999999999999998776   55 7899999999 55 88888885 667777787777


Q ss_pred             cc
Q psy3698          97 VP   98 (534)
Q Consensus        97 rP   98 (534)
                      ..
T Consensus        83 ~~   84 (98)
T 2cpf_A           83 RI   84 (98)
T ss_dssp             EC
T ss_pred             EE
Confidence            63

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

Probab=99.44  E-value=3.7e-14  Score=120.57  Aligned_cols=64  Identities=13%  Similarity=0.127  Sum_probs=59.3

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCC--eEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGD--VVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~--Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .-.||||+|||+.+|+++|+++| ++||.  |..|+|.+|+ +|++||||||+|.+.++|.+||+..+
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F-~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~ln   74 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTAL-SPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQ   74 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHS-TTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHH
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHH-HhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhc
Confidence            34789999999999999999999 99995  6789999998 89999999999999999999999864

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.44  E-value=8e-14  Score=116.00  Aligned_cols=77  Identities=12%  Similarity=0.006  Sum_probs=64.9

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++||++|+++|++||.|..+.+++++.++ ++||||||+| ++ +|++|++. ....+.++.+.|
T Consensus        11 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g-~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V   89 (98)
T 2cqp_A           11 GKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKG-MPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKL   89 (98)
T ss_dssp             CCCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSS-CEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCC-CeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            34455899999999999999999999999999877778887777 8999999999 55 88888864 556777777776


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        90 ~   90 (98)
T 2cqp_A           90 V   90 (98)
T ss_dssp             E
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=99.44  E-value=1.9e-13  Score=110.88  Aligned_cols=65  Identities=23%  Similarity=0.276  Sum_probs=60.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~   68 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLC-QPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALK   68 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTS-TTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhc
Confidence            356899999999999999999999 999999999999997 89999999999999999999998644

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

Probab=99.44  E-value=4.5e-13  Score=110.63  Aligned_cols=69  Identities=23%  Similarity=0.355  Sum_probs=62.6

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   73 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIF-EPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELA   73 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHH-TTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            346899999999999999999999 999999999999998 89999999999999999999999754 4443

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

Probab=99.44  E-value=4.5e-13  Score=110.42  Aligned_cols=70  Identities=26%  Similarity=0.314  Sum_probs=63.3

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+++++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   84 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIF-SKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLF   84 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHT-TTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEET
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHH-HhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            3557899999999999999999999 999999999999998 79999999999999999999998755 3443

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.44  E-value=3.1e-13  Score=112.42  Aligned_cols=68  Identities=16%  Similarity=0.279  Sum_probs=62.1

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +.++|||+|||..+++++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   70 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLC-SNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLG   70 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHH-HTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCcEEEEECCCCCCCHHHHHHHH-HhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            35799999999999999999999 999999999999997 89999999999999999999998755 4444

>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=99.44  E-value=4.1e-13  Score=108.00  Aligned_cols=66  Identities=20%  Similarity=0.262  Sum_probs=60.9

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f-~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~   69 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAF-KDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLN   69 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHH-TTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             eEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeC
Confidence            689999999999999999999 999999999999996 89999999999999999999999754 4443

>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=99.44  E-value=2.4e-13  Score=109.85  Aligned_cols=69  Identities=20%  Similarity=0.241  Sum_probs=62.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+++++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   75 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF   75 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHH-GGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHH-hccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            456899999999999999999999 999999999999996 89999999999999999999998754 4443

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

Probab=99.44  E-value=4e-13  Score=113.24  Aligned_cols=70  Identities=13%  Similarity=0.168  Sum_probs=63.6

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecC-C-CCCCceEEEEEeCCHHHHHHHHHhc--Cceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTD-K-HKYPIGSGRITFGSTRAYSDAIRAA--FIEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~D-k-TG~pKGfGFVtF~d~EsA~kAIea~--~veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..| + ++.++|||||+|.+.++|.+||+..  ...+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~   85 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELF-STFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLY   85 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHH-HTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSS
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHH-HccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeEC
Confidence            3557899999999999999999999 99999999999999 4 9999999999999999999999986  35554

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

Probab=99.44  E-value=3.6e-13  Score=113.17  Aligned_cols=65  Identities=18%  Similarity=0.261  Sum_probs=61.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhc-CCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDL-FGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~-FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+..+|||+|||..+|+++|+++| +. ||.|..|.|..|+++.++|||||+|.+.++|.+||+..+
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~   72 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFF-VKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQ   72 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHH-HHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHcc
Confidence            456899999999999999999999 88 999999999999999999999999999999999999765

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.43  E-value=6.3e-13  Score=111.72  Aligned_cols=77  Identities=12%  Similarity=0.056  Sum_probs=66.2

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      ...+...++|||+|||+++||++|+++|++||+|..+.++++..   .++|||||+| +. +|++|++. ....+.++.+
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   85 (103)
T 2cq3_A            9 SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFGFVTFENSADADRAREKLHGTVVEGRKI   85 (103)
T ss_dssp             SCCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT---TTCCEEEEEESCHHHHHHHHHHHTTCEETTEEC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC---CCcEEEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            35566779999999999999999999999999999999998865   4799999999 55 88888874 6677778887


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        86 ~v~   88 (103)
T 2cq3_A           86 EVN   88 (103)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            776

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

Probab=99.43  E-value=3.8e-13  Score=118.01  Aligned_cols=78  Identities=10%  Similarity=0.084  Sum_probs=66.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++|+++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++|++. .+..+.++.+.
T Consensus        58 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~  136 (140)
T 2ku7_A           58 GSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETE-KHRGFAFVEFELAEDAAAAIDNMNESELFGRTIR  136 (140)
T ss_dssp             SSCSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTC-CCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEE
T ss_pred             CCCCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCC-CcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            455667999999999999999999999999999999999998888 9999999999 55 88888864 55556666655


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       137 v~  138 (140)
T 2ku7_A          137 VN  138 (140)
T ss_dssp             EE
T ss_pred             EE
Confidence            53

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

Probab=99.43  E-value=5.4e-13  Score=111.54  Aligned_cols=69  Identities=17%  Similarity=0.216  Sum_probs=63.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   84 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEIC-KAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIK   84 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHH-TTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            456889999999999999999999 99999999999999999999999999999999999998755 4443

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

Probab=99.43  E-value=1.5e-13  Score=117.86  Aligned_cols=78  Identities=12%  Similarity=0.066  Sum_probs=66.8

Q ss_pred             CCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccc
Q psy3698          17 QFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGR   93 (534)
Q Consensus        17 ~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~   93 (534)
                      ........++|||||||+++||++|+++|++||+|..+.++++..   .+||||||+| ++ +|++|++. .+..+.++.
T Consensus        22 ~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~---~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~   98 (109)
T 2err_A           22 NTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFGFVTFENSADADRAREKLHGTVVEGRK   98 (109)
T ss_dssp             CCSCTTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT---BCTTEEEEECCCSHHHHHHHHHHTTCEETTEE
T ss_pred             CccCCCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC---CCceEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            356777889999999999999999999999999999999998854   5899999999 44 88888874 666777777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        99 l~V~  102 (109)
T 2err_A           99 IEVN  102 (109)
T ss_dssp             CEEE
T ss_pred             EEEE
Confidence            7775

>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=99.43  E-value=8.7e-14  Score=116.71  Aligned_cols=75  Identities=20%  Similarity=0.224  Sum_probs=66.0

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++|+++|+++|++||+|..+.+++++.++ +++|||||+| +. +|++|++ +.+..+.++.+.|.
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   83 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETG-KPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVD   83 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTT-EEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEE
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCC-ccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEE
Confidence            456899999999999999999999999999999999998877 8999999999 55 8888887 46677777777775

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

Probab=99.43  E-value=1.5e-13  Score=119.28  Aligned_cols=75  Identities=16%  Similarity=0.080  Sum_probs=67.0

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++||++|+++|++||+|..+.+++++.++ +++|||||+| ++ +|++||++.+..+.++.+.|.
T Consensus        34 ~~~~~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           34 IDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSG-HPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVL  110 (124)
T ss_dssp             HHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTS-SCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-CcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            346899999999999999999999999999999999998888 8999999999 55 888888767777888888776

>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=99.43  E-value=6.4e-14  Score=110.96  Aligned_cols=66  Identities=21%  Similarity=0.278  Sum_probs=60.7

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      +|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+.....+..
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g   67 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYF-GGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGL   67 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHH-HHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTT
T ss_pred             CEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECC
Confidence            69999999999999999999 999999999999997 8999999999999999999999875555543

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

Probab=99.43  E-value=2.4e-13  Score=114.26  Aligned_cols=71  Identities=25%  Similarity=0.247  Sum_probs=63.9

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   81 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVF-EKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELD   81 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHH-TTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBT
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            34567999999999999999999999 999999999999998 79999999999999999999999754 3443

>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=99.43  E-value=2.6e-13  Score=115.31  Aligned_cols=69  Identities=10%  Similarity=0.055  Sum_probs=62.1

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEE-EEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY-AGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~-V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....+|||+|||+.+|+++|+++| +.||.|.. +.|..|.++++||||||+|.+.++|.+||+.....+.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~   82 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFF-SGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIG   82 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHT-TTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhC
Confidence            456899999999999999999999 99999997 8898989999999999999999999999998434443

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

Probab=99.43  E-value=6.1e-13  Score=113.89  Aligned_cols=70  Identities=20%  Similarity=0.215  Sum_probs=63.7

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (115)
T 2dgo_A           12 TSNHFHVFVGDLSPEITTEDIKAAF-APFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLG   83 (115)
T ss_dssp             STTCEEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            4567999999999999999999999 999999999999997 99999999999999999999998755 4444

>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=99.43  E-value=1.6e-13  Score=118.38  Aligned_cols=79  Identities=6%  Similarity=0.018  Sum_probs=67.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCe-EEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDV-VYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKL  193 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~V-v~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrV  193 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.| ..|.|+.|+++++||||||+|.+.++|.+||+.....+..    ++|
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~g----r~i   86 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFL-EGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNG----REA   86 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHT-TTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETT----EEE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHH-HhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCC----eEE
Confidence            3456899999999999999999999 999999 8899999999999999999999999999999884455543    345


Q ss_pred             eeccc
Q psy3698         194 QIDPY  198 (534)
Q Consensus       194 eIkPy  198 (534)
                      .|.+.
T Consensus        87 ~v~~a   91 (114)
T 2cpy_A           87 FVHVV   91 (114)
T ss_dssp             EEEEE
T ss_pred             EEEEC
Confidence            55443

>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=99.43  E-value=3.5e-13  Score=111.24  Aligned_cols=70  Identities=27%  Similarity=0.362  Sum_probs=63.5

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+++++|+++| +.||.|..+.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~~l~v~nlp~~~~~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   83 (95)
T 2ywk_A           13 EEADRTVFVGNLEARVREEILYELF-LQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLY   83 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHH-HhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 99999999999999989999999999999999999999754 4444

>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=99.43  E-value=5.2e-13  Score=112.25  Aligned_cols=64  Identities=19%  Similarity=0.260  Sum_probs=60.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+.
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~   76 (103)
T 2cqg_A           12 VQKTSDLIVLGLPWKTTEQDLKEYF-STFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ   76 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHH-GGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHS
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHH-HhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHc
Confidence            3456899999999999999999999 999999999999997 899999999999999999999995

>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=99.43  E-value=5.5e-13  Score=112.57  Aligned_cols=71  Identities=15%  Similarity=0.304  Sum_probs=64.5

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+..+|||+|||..+|+++|+++| +.||.|..+.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        25 ~~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   96 (107)
T 3ulh_A           25 GVETGGKLLVSNLDFGVSDADIQELF-AEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLD   96 (107)
T ss_dssp             CCCCSEEEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            34567999999999999999999999 89999999999999999999999999999999999999754 4444

>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=99.43  E-value=7.3e-14  Score=115.39  Aligned_cols=73  Identities=11%  Similarity=0.014  Sum_probs=63.8

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      .++|||+|||+++||++|+++|++||.|..+.+++++.++ ++||||||+| ++ +|++||+. ....+.++.+.|.
T Consensus        15 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g-~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~   90 (95)
T 2ek1_A           15 PTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKG-MPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLS   90 (95)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTS-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCC-CEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEE
Confidence            4889999999999999999999999999888888888877 8999999999 55 88888874 6777777777765

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.42  E-value=1.5e-13  Score=119.73  Aligned_cols=73  Identities=14%  Similarity=-0.032  Sum_probs=63.9

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++||++|+++|++| .|..+.+++|+. + ++||||||+| ++ +|++||++....+.++.+.|.
T Consensus        14 ~~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~-g-~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~   88 (109)
T 2dnn_A           14 PDDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV-G-RNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVS   88 (109)
T ss_dssp             HHHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT-C-CCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC-C-CCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            345799999999999999999999999 899999999876 6 8999999999 65 899999877777777777665

>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=99.42  E-value=9.6e-14  Score=125.54  Aligned_cols=76  Identities=16%  Similarity=0.011  Sum_probs=65.5

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCC---eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGP---VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~---V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~V   94 (534)
                      ++...++|||||||+++||++|+++|++||.   |..+.+++|+. + ++||||||+| ++ +|++||++....+.++.+
T Consensus        40 ~~~~~~~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           40 EGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-G-RQSGEAFVELGSEDDVKMALKKDRESMGHRYI  117 (136)
T ss_dssp             SCCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-S-CEEEEEEEECSSHHHHHHHHTTTEEESSSSEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-C-CCCeEEEEEECCHHHHHHHHhcCCCEECCEEE
Confidence            3455789999999999999999999999999   78888998877 7 9999999999 66 999999876667777766


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus       118 ~V~  120 (136)
T 2hgl_A          118 EVF  120 (136)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            664

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

Probab=99.42  E-value=7.9e-14  Score=117.06  Aligned_cols=74  Identities=16%  Similarity=0.231  Sum_probs=64.4

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      +..+++|||||||+++|+++|+++|++||.|..+.+++++ ++ ++||||||+| +. +|++|++ ....+.++.+.|.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g-~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~v~   81 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TG-VSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLKLG   81 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TS-CEEEEEEEEESSCCCHHHHTT-CCCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CC-CccceEEEEECCHHHHHHHHh-CCCeECCEEEEEE
Confidence            3457899999999999999999999999999999999998 77 8999999999 55 8899998 6666777766654

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

Probab=99.42  E-value=1.2e-13  Score=116.70  Aligned_cols=67  Identities=18%  Similarity=0.148  Sum_probs=61.7

Q ss_pred             CceeEeccccC------cCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHG------RLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~------~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .++|||+|||.      .+++++|+++| +.||.|..|.|+.|+ ++++||||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~vfV~nLp~v~~~~~~~~~~~L~~~F-~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~   80 (100)
T 3ns6_A            6 DQYIVVNGAPVIPSAKVPVLKKALTSLF-SKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLD   80 (100)
T ss_dssp             GGEEEEESCCCCBGGGHHHHHHHHHHHH-HTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CcEEEEeCCCcCChHHHHHHHHHHHHHH-HhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccC
Confidence            57899999999      99999999999 999999999999998 79999999999999999999998755 4443

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

Probab=99.42  E-value=2.7e-13  Score=113.52  Aligned_cols=70  Identities=20%  Similarity=0.232  Sum_probs=63.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELF   80 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHH-TTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHh-hccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            4567899999999999999999999 999999999999997 89999999999999999999998754 4444

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

Probab=99.42  E-value=6.2e-13  Score=112.08  Aligned_cols=70  Identities=14%  Similarity=0.273  Sum_probs=63.2

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        20 ~~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   91 (106)
T 1p27_B           20 SVEGWILFVTGVHEEATEEDIHDKF-AEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM   91 (106)
T ss_dssp             BTTBEEEEEECCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-hccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEEC
Confidence            3456899999999999999999999 999999999999998 89999999999999999999999754 4444

>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=99.42  E-value=3.6e-13  Score=109.67  Aligned_cols=67  Identities=22%  Similarity=0.238  Sum_probs=60.3

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      .++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||......+.
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~   73 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHF-HGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFR   73 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHH-GGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEEC
Confidence            4789999999999999999999 999999999999997 999999999999999999999933334444

>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=99.42  E-value=4.5e-13  Score=113.46  Aligned_cols=74  Identities=12%  Similarity=0.069  Sum_probs=64.5

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCC-eeEEeec-CCCCCCCCCCcEEEEEe-hH-HHHHHHhhc---CCCCccccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGP-VKVEWPQ-GTPESPTAPKAISLDVI-SE-LVLILGQWA---TEGNLCGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~-V~~v~~~-rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s---sr~i~~k~VQ   95 (534)
                      ..++|||||||+++|+++|+++|++||. |..+.++ +++.++ ++||||||+| +. +|++|++..   ...+.++.+.
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g-~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~   85 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKM-KNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIA   85 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTT-TTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCC-CcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEE
Confidence            4689999999999999999999999998 9999888 788877 8999999999 55 888888863   3677788877


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        86 V~   87 (109)
T 2dis_A           86 VD   87 (109)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.42  E-value=8e-13  Score=112.81  Aligned_cols=70  Identities=29%  Similarity=0.263  Sum_probs=63.5

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f-~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   82 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVF-SMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLF   82 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHH-TTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3457899999999999999999999 99999999999999999999999999999999999999754 4443

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

Probab=99.42  E-value=6.7e-13  Score=111.00  Aligned_cols=70  Identities=20%  Similarity=0.213  Sum_probs=63.0

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEE--------EEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-cee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY--------AGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEV  184 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~--------V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veI  184 (534)
                      ..+..+|||+|||..+|+++|+++| +.||.|..        +.|..|+ ++++||||||+|.+.++|.+||+..+ .++
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~   88 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYF-KQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEF   88 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHH-TTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEe
Confidence            3457899999999999999999999 99999999        9999997 89999999999999999999998754 444


Q ss_pred             e
Q psy3698         185 K  185 (534)
Q Consensus       185 k  185 (534)
                      .
T Consensus        89 ~   89 (99)
T 2la6_A           89 S   89 (99)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.42  E-value=4.8e-13  Score=112.06  Aligned_cols=66  Identities=24%  Similarity=0.307  Sum_probs=61.7

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~   75 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVF-SKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN   75 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHH-HHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHH-HhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhC
Confidence            4567899999999999999999999 999999999999997 89999999999999999999998755

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

Probab=99.42  E-value=2.9e-13  Score=111.32  Aligned_cols=76  Identities=11%  Similarity=0.010  Sum_probs=65.9

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      .+...++|||+|||+++||++|+++|++| .|..+.++++ .++ +++|||||+| ++ +|++||++....+.++.+.|.
T Consensus         6 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~-~~g-~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~   82 (91)
T 2dgw_A            6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRN-AHG-NKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVF   82 (91)
T ss_dssp             CCCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEEC-TTS-CEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEE
T ss_pred             CCCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEEC-CCC-CCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEE
Confidence            34456999999999999999999999999 9999999998 667 8999999999 55 899999877777888887776


Q ss_pred             c
Q psy3698          98 P   98 (534)
Q Consensus        98 P   98 (534)
                      .
T Consensus        83 ~   83 (91)
T 2dgw_A           83 R   83 (91)
T ss_dssp             E
T ss_pred             E
Confidence            3

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.42  E-value=5.3e-13  Score=112.18  Aligned_cols=76  Identities=20%  Similarity=0.202  Sum_probs=64.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      .+....++|||+|||+++||++|+++|++||+|..+.+++++.   .+||||||+| ++ +|++|++ +....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~---~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   86 (103)
T 2cqi_A           10 EDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHT---SNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVK   86 (103)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCC---SSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCC---CCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEE
Confidence            3445679999999999999999999999999999999999865   4689999999 55 8888887 466677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        87 V~   88 (103)
T 2cqi_A           87 VN   88 (103)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.41  E-value=7.5e-13  Score=115.21  Aligned_cols=77  Identities=9%  Similarity=0.041  Sum_probs=66.8

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.+++++ ++ ++||||||+| ++ +|++|++ ..+..+.++.+.
T Consensus        30 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~g-~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~  107 (124)
T 2kt5_A           30 EGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SG-RSLGTADVHFERRADALKAMKQYKGVPLDGRPMD  107 (124)
T ss_dssp             CCCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS-SS-SCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC-CC-CEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEE
Confidence            344566899999999999999999999999999999999998 77 8999999999 65 8888888 466677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       108 V~  109 (124)
T 2kt5_A          108 IQ  109 (124)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

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

Probab=99.41  E-value=6.2e-13  Score=109.15  Aligned_cols=73  Identities=15%  Similarity=0.076  Sum_probs=62.9

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++|+++|+++|++||+|..+.++++  ++ ++||||||+| +. +|++|++. ....+.++.+.|.
T Consensus         6 ~~~~~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            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NG-KSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVR   81 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES--SS-CEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc--CC-CcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            34689999999999999999999999999999998875  45 8899999999 55 88888874 6777777777776

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

Probab=99.41  E-value=6.8e-13  Score=111.73  Aligned_cols=70  Identities=16%  Similarity=0.131  Sum_probs=61.7

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...+.++|||+|||..+|+++|+++| +.|| |..|.|..|+ ++.++|||||+|.+.++|.+||+.....+.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F-~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~   81 (103)
T 2dng_A           11 PTEPPYTAYVGNLPFNTVQGDIDAIF-KDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLG   81 (103)
T ss_dssp             CSSSCEEEEEESCCTTCCHHHHHHHT-TTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEET
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHH-HhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeEC
Confidence            34567999999999999999999999 8997 9999999998 899999999999999999999933335554

>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=99.41  E-value=1e-13  Score=146.76  Aligned_cols=70  Identities=20%  Similarity=0.234  Sum_probs=63.8

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+..+|||+|||..+|+++|+++| +.||.|+.|.|+.|+ ++.++|||||+|.+.++|.+||+.++ ..|.
T Consensus        99 ~~~~~~lfV~nL~~~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~  170 (437)
T 3pgw_S           99 GDAFKTLFVARVNYDTTESKLRREF-EVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKID  170 (437)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEEC
Confidence            3566899999999999999999999 999999999999997 99999999999999999999998865 4444

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

Probab=99.41  E-value=1.8e-13  Score=108.53  Aligned_cols=65  Identities=29%  Similarity=0.354  Sum_probs=59.1

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      +|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+.....+.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~   66 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYF-EQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEIN   66 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHH-HTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSS
T ss_pred             CEEEecCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEEC
Confidence            59999999999999999999 999999999999998 899999999999999999999974344443

>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=99.41  E-value=3.2e-13  Score=114.05  Aligned_cols=76  Identities=9%  Similarity=0.011  Sum_probs=65.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .....++|||+|||+++||++|+++|++||+|..+.++++. ++ +++|||||+| +. +|++|++. ....+.++.+.|
T Consensus        25 ~~~~~~~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           25 GVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SG-RSLGTADVHFERKADALKAMKQYNGVPLDGRPMNI  102 (107)
T ss_dssp             CCCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT-TS-CEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CC-CcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            34456899999999999999999999999999999999988 67 8999999999 55 88888884 666777777666


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus       103 ~  103 (107)
T 3ulh_A          103 Q  103 (107)
T ss_dssp             E
T ss_pred             E
Confidence            4

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

Probab=99.41  E-value=7.5e-13  Score=111.25  Aligned_cols=69  Identities=17%  Similarity=0.203  Sum_probs=62.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..| ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   81 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAF-SPFGTITSAKVMME-GGRSKGFGFVCFSSPEEATKAVTEMNGRIVA   81 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTT-TTTSCEEEEEEEEC-SSSEEEEEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEcC-CCCcCEEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3467899999999999999999999 99999999999998 89999999999999999999999754 3443

>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=99.41  E-value=4.7e-13  Score=114.84  Aligned_cols=69  Identities=22%  Similarity=0.313  Sum_probs=62.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   93 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMF-MPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIG   93 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHH-GGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456899999999999999999999 999999999999998 99999999999999999999998754 4444

>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=99.41  E-value=2.3e-13  Score=123.66  Aligned_cols=76  Identities=9%  Similarity=0.047  Sum_probs=64.3

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      .+...++|||+|||+++||++|+++|++|| |+.+.|++|+. + ++||||||+| ++ +|++||++....+.++.+.|.
T Consensus        42 ~~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~-g-~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i~V~  118 (139)
T 2hgn_A           42 QSTTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD-G-RVTGEADVEFATHEEAVAAMSKDRANMQHRYIELF  118 (139)
T ss_dssp             ---CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS-S-CSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC-C-CCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEE
Confidence            445678999999999999999999999999 66889999876 6 9999999999 55 899999777778888877775


Q ss_pred             c
Q psy3698          98 P   98 (534)
Q Consensus        98 P   98 (534)
                      .
T Consensus       119 ~  119 (139)
T 2hgn_A          119 L  119 (139)
T ss_dssp             E
T ss_pred             E
Confidence            3

>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=99.41  E-value=1.3e-12  Score=127.22  Aligned_cols=62  Identities=19%  Similarity=0.192  Sum_probs=56.1

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ......+|||+|||.++|+++|+++| +.||.|..|.|..     +||||||+|.+.++|.+||+..+
T Consensus        18 ~~~~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~-----~kg~afV~f~~~~~A~~A~~~l~   79 (261)
T 3sde_A           18 TYTQRCRLFVGNLPTDITEEDFKRLF-ERYGEPSEVFINR-----DRGFGFIRLESRTLAEIAKAELD   79 (261)
T ss_dssp             SSCGGGEEEEESCCTTCCHHHHHHHT-GGGCCCSEEEEET-----TTTEEEEECSSHHHHHHHHHHHT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHH-HhcCCEEEEEEeC-----CCcEEEEEECCHHHHHHHHHHcC
Confidence            34556899999999999999999999 9999999999976     58999999999999999998654

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

Probab=99.41  E-value=4.1e-13  Score=114.58  Aligned_cols=77  Identities=13%  Similarity=0.051  Sum_probs=65.7

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++|+++|+++|++||+|..+.+++++. + +++|||||+| ++ +|++|++ +....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~-g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   87 (114)
T 2do0_A           10 QAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-G-KSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMH   87 (114)
T ss_dssp             CCCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT-C-SEEEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC-C-CeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEE
Confidence            3444578999999999999999999999999999999999874 6 8999999999 55 8888887 466777777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        88 v~   89 (114)
T 2do0_A           88 VK   89 (114)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=99.41  E-value=4e-13  Score=114.69  Aligned_cols=68  Identities=15%  Similarity=0.247  Sum_probs=60.1

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||+++|+++|+++| +.||. +.|.|+.|+++++||||||+|.+.++|.+||+.....+.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~-~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~   80 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFF-SPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQ   80 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSS-CSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHcCc-eEEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeEC
Confidence            456899999999999999999999 99995 499999999999999999999999999999965333443

>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=99.40  E-value=1.7e-13  Score=112.37  Aligned_cols=72  Identities=19%  Similarity=0.197  Sum_probs=62.8

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hHHHHHHHhh-cCCCCccccceec
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SELVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sEsAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ++|||||||+++||++|+++|++||+|..+.+++++.++ +++|||||+| +++|++|++. .+..+.++.+.+.
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~a~~a~~~l~g~~~~g~~l~V~   75 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETK-KPKGFGFVEMQEESVSEAIAKLDNTDFMGRTIRVT   75 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSC-CCCEEEEEEECTTHHHHHHHTSCSSCCSSSSCSEE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCC-CcceEEEEEECCHHHHHHHHHhCCCEECCeEEEEE
Confidence            689999999999999999999999999999999998888 9999999999 3336667764 6777888877776

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

Probab=99.40  E-value=6.9e-13  Score=112.86  Aligned_cols=76  Identities=14%  Similarity=0.083  Sum_probs=63.6

Q ss_pred             CCCCccCeEEEeCCCCCC------CHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCC
Q psy3698          19 SDEILSNKIFIGGVPWDT------PEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGN   89 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~di------TEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i   89 (534)
                      .....+++|||||||+++      |+++|+++|++||+|..+.+++  .++ ++||||||+| +. +|++|++. .+..+
T Consensus        10 ~~~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~--~~g-~~~G~afV~f~~~~~A~~Ai~~l~g~~~   86 (105)
T 2nlw_A           10 EADGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE--EDG-KTKGYIFLEYASPAHAVDAVKNADGYKL   86 (105)
T ss_dssp             SCCSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCC--BTT-BSCCEEEEEECSSSHHHHHHHHCSSEEC
T ss_pred             CCCCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeC--CCC-CeeeEEEEEECCHHHHHHHHHHhCCccc
Confidence            345567899999999999      7899999999999999998883  556 8999999999 55 88888885 66777


Q ss_pred             ccc-cceec
Q psy3698          90 LCG-RVEVV   97 (534)
Q Consensus        90 ~~k-~VQVr   97 (534)
                      .++ .+.|.
T Consensus        87 ~g~~~l~V~   95 (105)
T 2nlw_A           87 DKQHTFRVN   95 (105)
T ss_dssp             STTCEEEEE
T ss_pred             CCCceEEEE
Confidence            777 77765

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=1.5e-13  Score=122.40  Aligned_cols=74  Identities=12%  Similarity=0.065  Sum_probs=61.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCe----eEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPV----KVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V----~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ...++|||+|||+++||++|+++|++||+|    ..+.++++. ++ ++||||||+| ++ +|++||+.....|.++.|.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~-~g-r~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~   98 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP-DG-RPTGDAFVLFACEEYAQNALRKHKDLLGKRYIE   98 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT-TS-CEEEEEEECCSSHHHHHHHHTTTTEESSSCEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC-CC-CEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEE
Confidence            346899999999999999999999999986    577788774 67 8999999999 66 9999998766666666555


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        99 V~  100 (123)
T 2dha_A           99 LF  100 (123)
T ss_dssp             CE
T ss_pred             EE
Confidence            43

>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=99.40  E-value=7.5e-13  Score=119.13  Aligned_cols=78  Identities=10%  Similarity=-0.008  Sum_probs=68.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ......++|||||||+++||++|+++|++||+|..+.+++|+.++ ++||||||+| ++ +|++||+. .+..+.++.+.
T Consensus        65 ~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~  143 (158)
T 2kn4_A           65 MDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK-ESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELR  143 (158)
T ss_dssp             CCCCBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCT-TSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEE
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCC-ccceEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            344557899999999999999999999999999999999998888 9999999999 55 88888874 66777888887


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       144 v~  145 (158)
T 2kn4_A          144 VQ  145 (158)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.40  E-value=4.1e-13  Score=115.35  Aligned_cols=78  Identities=22%  Similarity=0.264  Sum_probs=66.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQ  194 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVe  194 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+.....+.    .+++.
T Consensus        25 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~----g~~l~   99 (116)
T 1x4b_A           25 EQFRKLFIGGLSFETTEESLRNYY-EQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSID----GRVVE   99 (116)
T ss_dssp             HHHTEEEEECCTTCCCHHHHHHHH-TSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEET----TEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEEC----CEEEE
Confidence            345899999999999999999999 999999999999997 899999999999999999999988445554    24555


Q ss_pred             eccc
Q psy3698         195 IDPY  198 (534)
Q Consensus       195 IkPy  198 (534)
                      |+..
T Consensus       100 V~~a  103 (116)
T 1x4b_A          100 PKRA  103 (116)
T ss_dssp             EECC
T ss_pred             EEEC
Confidence            5543

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

Probab=99.40  E-value=6.1e-13  Score=114.40  Aligned_cols=70  Identities=24%  Similarity=0.272  Sum_probs=63.3

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.+||||||+|.+.++|.+||+..+ .++.
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~  108 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTF-LPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVG  108 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHT-TTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            3456899999999999999999999 999999999999997 89999999999999999999999754 4443

>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=1.3e-12  Score=111.78  Aligned_cols=65  Identities=22%  Similarity=0.261  Sum_probs=61.3

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ....+|||+|||..+|+++|+++| +.||.|..+.|..|+++.+||||||+|.+.++|.+||+..+
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~   87 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENML-KPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFN   87 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTT-TTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhC
Confidence            456899999999999999999999 99999999999999999999999999999999999999754

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=8.5e-13  Score=111.32  Aligned_cols=69  Identities=14%  Similarity=0.170  Sum_probs=61.0

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-C-CCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-H-KYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-T-G~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.|| |..|.|..|+ + +.++|||||+|.+.++|.+||......+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~   82 (104)
T 1wi8_A           12 KSPPYTAFLGNLPYDVTEESIKEFF-RGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLG   82 (104)
T ss_dssp             SSSCEEEEEESCCSSCCHHHHHHHT-TTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEET
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHH-HHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeC
Confidence            3567999999999999999999999 9999 9999999998 5 99999999999999999999933334444

>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=99.40  E-value=7.7e-13  Score=115.01  Aligned_cols=69  Identities=17%  Similarity=0.224  Sum_probs=63.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +..++|||+|||..+|+++|+++| +.||.|..|.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~   74 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVF-GKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLH   74 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHH-HTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            456899999999999999999999 99999999999999999999999999999999999999754 3443

>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=7.2e-13  Score=113.28  Aligned_cols=70  Identities=14%  Similarity=0.120  Sum_probs=60.4

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNL   90 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~   90 (534)
                      ......++|||+|||+++|+++|+++|++||+|..+.+++++ ++ ++||||||+| +. +|++|++. ++..+.
T Consensus        20 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~-~g-~~~g~afV~f~~~~~a~~A~~~l~g~~~~   92 (114)
T 1x5o_A           20 QQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SG-TSRGVGFARMESTEKCEAVIGHFNGKFIK   92 (114)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SS-CEEEEEEEEESCHHHHHHHHHHHBTCCCC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CC-CcceEEEEEECCHHHHHHHHHHhCCCEEc
Confidence            445667999999999999999999999999999999999998 67 8999999999 55 88888874 555554

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.40  E-value=5.3e-13  Score=116.23  Aligned_cols=76  Identities=12%  Similarity=0.102  Sum_probs=64.2

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeec
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQID  196 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIk  196 (534)
                      ...+|||+|||+++|+++|+++| +.| .|..|.|+.|+.|++||||||+|.++++|.+||+....++..    +.|+|.
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F-~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~g----r~i~V~   88 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFF-HGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQ----RYVEVS   88 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHT-TTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETT----EEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHh-ccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECC----eEEEEE
Confidence            35799999999999999999999 889 899999999999999999999999999999999654444442    345555


Q ss_pred             cc
Q psy3698         197 PY  198 (534)
Q Consensus       197 Py  198 (534)
                      +.
T Consensus        89 ~a   90 (109)
T 2dnn_A           89 PA   90 (109)
T ss_dssp             EC
T ss_pred             EC
Confidence            43

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

Probab=99.40  E-value=4.8e-13  Score=110.62  Aligned_cols=68  Identities=26%  Similarity=0.332  Sum_probs=62.0

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEE-EEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYA-GIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V-~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +.++|||+|||..+|+++|+++| +.||.|..+ .|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   74 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTF-SAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC   74 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHH-HTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            46899999999999999999999 999999999 999996 99999999999999999999999655 4443

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

Probab=99.40  E-value=1.3e-12  Score=107.17  Aligned_cols=68  Identities=25%  Similarity=0.319  Sum_probs=61.1

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~v~~~~i~~~-~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~   74 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKF-NECGHVLYADIKME-NGKSKGCGVVKFESPEVAERACRMMNGMKLS   74 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHH-HTTSCEEEEEEEES-SSCEEEEEEEEESSHHHHHHHHHHHTTCCBT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEcc-CCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            456899999999999999999999 99999999999884 78899999999999999999999754 3443

>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=99.39  E-value=5.2e-13  Score=120.56  Aligned_cols=78  Identities=12%  Similarity=-0.020  Sum_probs=67.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.+++++.++ .++|||||+| ++ +|++||+. ....+.++.+.
T Consensus        34 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~-~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~  112 (156)
T 1h2v_Z           34 KLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKK-TACGFCFVEYYSRADAENAMRYINGTRLDDRIIR  112 (156)
T ss_dssp             TTTTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTC-CEEEEEEEEESSHHHHHHHHHHTTTSEETTEECE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            334567899999999999999999999999999999999998888 8999999999 55 88888884 66777777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       113 V~  114 (156)
T 1h2v_Z          113 TD  114 (156)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

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

Probab=99.39  E-value=7.5e-13  Score=121.64  Aligned_cols=68  Identities=18%  Similarity=0.234  Sum_probs=61.9

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCC--CeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFG--DVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG--~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+|||||||..+|+++|+++| +.||  .|..|.|+.|+ +|++||||||+|.+.++|.+||+..+ .++.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F-~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~  125 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVI-RSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLN  125 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHH-HHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            45899999999999999999999 9999  99999999997 99999999999999999999999955 5554

>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=99.39  E-value=1.1e-12  Score=111.54  Aligned_cols=70  Identities=14%  Similarity=0.249  Sum_probs=63.3

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        23 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   94 (110)
T 1oo0_B           23 SVEGWILFVTSIHEEAQEDEIQEKF-CDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM   94 (110)
T ss_dssp             BTTBEEEEEESCCTTCCHHHHHHHH-GGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            3456899999999999999999999 999999999999997 89999999999999999999999754 4443

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

Probab=99.39  E-value=1.2e-12  Score=114.79  Aligned_cols=67  Identities=19%  Similarity=0.241  Sum_probs=62.4

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.+||||||+|.+.++|.+||+..+
T Consensus        59 ~~~~~~~l~v~nlp~~~~~~~l~~~f-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~  126 (140)
T 2ku7_A           59 SATTKRVLYVGGLAEEVDDKVLHAAF-IPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMN  126 (140)
T ss_dssp             SCSSCCEEEEECCCTTCCHHHHHHHH-GGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHST
T ss_pred             CCCCCcEEEEEeCCCCCCHHHHHHHH-HhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhC
Confidence            34567999999999999999999999 999999999999997 89999999999999999999998765

>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=99.39  E-value=4e-13  Score=111.72  Aligned_cols=69  Identities=10%  Similarity=0.037  Sum_probs=62.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..+.++.++ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F-~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   83 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFF-YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG   83 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHT-TTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            456899999999999999999999 999999988888876 89999999999999999999998766 4554

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

Probab=99.39  E-value=2.4e-13  Score=121.55  Aligned_cols=68  Identities=25%  Similarity=0.258  Sum_probs=62.5

Q ss_pred             CCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         113 TKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       113 ~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ....+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+..+
T Consensus        42 ~~~~~~~~l~V~nLp~~~te~~L~~~F-~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~  110 (135)
T 2lea_A           42 PDVEGMTSLKVDNLTYRTSPDTLRRVF-EKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMD  110 (135)
T ss_dssp             SSGGGCCCEEEECCCSSCHHHHHHHHH-GGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTT
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcC
Confidence            344567899999999999999999999 999999999999997 89999999999999999999998754

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

Probab=99.39  E-value=7.7e-13  Score=125.00  Aligned_cols=70  Identities=20%  Similarity=0.336  Sum_probs=62.1

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCcee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEV  184 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veI  184 (534)
                      +..+..+|||||||.++|+++|+++| +.||.|+.|.|++|+ +++++|||||+|.+.++|.+||+..+...
T Consensus        11 p~~p~~tlfVgnLp~~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~   81 (213)
T 4f02_A           11 PSYPMASLYVGDLHPDVTEAMLYEKF-SPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDV   81 (213)
T ss_dssp             ----CCEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHH-HhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhh
Confidence            34567899999999999999999999 999999999999998 89999999999999999999999876433

>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=99.39  E-value=4.1e-13  Score=130.35  Aligned_cols=74  Identities=16%  Similarity=0.076  Sum_probs=64.5

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccC--CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFG--PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG--~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ..++|||||||+++||++|+++|++||  +|..+.|++|+.++ ++||||||+| ++ +|++||+. ....+.++.+.|.
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 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANG-QSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT  145 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTC-CEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEE
Confidence            567899999999999999999999999  99999999999888 9999999999 55 89999984 6667777777665

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

Probab=99.39  E-value=5e-13  Score=116.69  Aligned_cols=72  Identities=17%  Similarity=0.093  Sum_probs=59.6

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-c--CCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-A--TEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-s--sr~i~~k~   93 (534)
                      ..+...++|||||||+++||++|+++|++||+|..++++++       ||||||+| ++ +|++|++. .  ...+.++.
T Consensus        11 ~~~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~-------kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~   83 (105)
T 1sjq_A           11 GSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQP   83 (105)
T ss_dssp             -CCCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHTTSCCEETTEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC-------CCEEEEEECCHHHHHHHHHHhccCCceECCEE
Confidence            34556789999999999999999999999999999999874       68999999 55 88888874 2  34567777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        84 l~V~   87 (105)
T 1sjq_A           84 IYIQ   87 (105)
T ss_dssp             CCBC
T ss_pred             EEEE
Confidence            7665

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

Probab=99.39  E-value=8.5e-13  Score=116.58  Aligned_cols=70  Identities=16%  Similarity=0.239  Sum_probs=63.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ....++|||+|||..+|+++|+++| +.||.|+.|.|..|+ ++++||||||+|.+.++|.+||+..+ ..+.
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~  110 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLF-ERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNIL  110 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHH-HHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 999999999999998 89999999999999999999999755 3444

>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=99.39  E-value=1.9e-12  Score=108.76  Aligned_cols=69  Identities=19%  Similarity=0.227  Sum_probs=61.7

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+.+ ++|||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f-~~~G~v~~v~i~~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~   81 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMF-GQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLHGTVVE   81 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHG-GGTSCEEEEEEECCTTT-TCCEEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCC-CcEEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 99999999999998755 89999999999999999999754 4444

>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=99.38  E-value=1e-12  Score=116.73  Aligned_cols=70  Identities=20%  Similarity=0.198  Sum_probs=63.6

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .++.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F-~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~  114 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVF-SKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELD  114 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHH-TTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            4567899999999999999999999 999999999999997 89999999999999999999999754 4444

>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=99.38  E-value=8.5e-13  Score=111.76  Aligned_cols=70  Identities=14%  Similarity=0.159  Sum_probs=62.3

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCC-eEEEEEe-cCC-CCCCceEEEEEeCCHHHHHHHHHhcC---ceeec
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGD-VVYAGID-TDK-HKYPIGSGRITFGSTRAYSDAIRAAF---IEVKS  186 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~-Vv~V~I~-~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~---veIk~  186 (534)
                      .+.++|||+|||..+|+++|+++| +.||. |..+.|. .|+ ++.+||||||+|.+.++|.+||+..+   ..+..
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f-~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g   81 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEI-AKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWG   81 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHH-HHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTT
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHH-HHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecC
Confidence            346899999999999999999999 99998 9999998 776 88999999999999999999999763   45554

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.38  E-value=1.5e-12  Score=110.62  Aligned_cols=75  Identities=12%  Similarity=0.012  Sum_probs=63.1

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ..+...++|||+|||+++||++|+++|++||+|..+.++.+   + ++||||||+| ++ +|++||+. ....+.++.+.
T Consensus        17 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~---~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   92 (109)
T 1x4a_A           17 PAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR---R-GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLR   92 (109)
T ss_dssp             CCCCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS---S-SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC---C-CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            44556789999999999999999999999999999988664   3 5789999999 55 88888854 66677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        93 V~   94 (109)
T 1x4a_A           93 VE   94 (109)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

>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=99.38  E-value=8.3e-13  Score=113.11  Aligned_cols=68  Identities=19%  Similarity=0.238  Sum_probs=61.2

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ..++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||......+.
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~   92 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFF-SAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLL   92 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHH-TTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeC
Confidence            45899999999999999999999 999999999999998 799999999999999999999933345554

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

Probab=99.37  E-value=5.6e-13  Score=107.83  Aligned_cols=61  Identities=15%  Similarity=0.143  Sum_probs=56.3

Q ss_pred             ceeEeccccCcC------CHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRL------TAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~------TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ++|||+|||..+      |+++|+++| +.||.|..+.|+ ..+|.+||||||+|.+.++|.+||+..+
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F-~~~G~i~~v~i~-~~~g~~~g~afV~f~~~~~A~~Ai~~ln   68 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIF-SKFGKITNDFYP-EEDGKTKGYIFLEYASPAHAVDAVKNAD   68 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHH-HTTCCEEEEECC-CBTTBCCCEEEEEESSHHHHHHHHTTSS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHH-hhcCCeEEEEec-CCCCcEeEEEEEEECCHHHHHHHHHHhc
Confidence            689999999999      779999999 999999999987 4589999999999999999999998754

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

Probab=99.37  E-value=2.9e-12  Score=111.45  Aligned_cols=71  Identities=17%  Similarity=0.325  Sum_probs=64.4

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+.++|||+|||..+++++|+++| +.||.|..+.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~  102 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELF-AEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD  102 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHH-HTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            44667999999999999999999999 99999999999999999999999999999999999999755 4444

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

Probab=99.37  E-value=8.2e-13  Score=118.06  Aligned_cols=76  Identities=9%  Similarity=-0.022  Sum_probs=67.5

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ....++|||+|||+++|+++|+++|++||+|..+.+++++.++ ++||||||+| +. +|++||+. ....+.++.+.|.
T Consensus        44 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g-~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  122 (135)
T 2lea_A           44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTK-ESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQ  122 (135)
T ss_dssp             GGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSS-SCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-ccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3457899999999999999999999999999999999998887 8999999999 55 88889874 6777888888776

>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=99.37  E-value=1.5e-12  Score=111.88  Aligned_cols=70  Identities=23%  Similarity=0.338  Sum_probs=63.1

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~   94 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIF-EPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELA   94 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHH-TTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            3556899999999999999999999 999999999999997 89999999999999999999998654 3443

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

Probab=99.37  E-value=9.6e-13  Score=112.36  Aligned_cols=70  Identities=19%  Similarity=0.220  Sum_probs=62.9

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeE--------EEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-cee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVV--------YAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEV  184 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv--------~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veI  184 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|.        .|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+
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 DSDNSAIYVQGLNDSVTLDDLADFF-KQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDF   90 (113)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHH-TTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCEEEEcCCCCCCCHHHHHHHH-HhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            3457899999999999999999999 9999999        69999996 89999999999999999999999754 444


Q ss_pred             e
Q psy3698         185 K  185 (534)
Q Consensus       185 k  185 (534)
                      .
T Consensus        91 ~   91 (113)
T 2cpe_A           91 Q   91 (113)
T ss_dssp             T
T ss_pred             C
Confidence            4

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

Probab=99.37  E-value=1.6e-12  Score=106.86  Aligned_cols=68  Identities=12%  Similarity=0.086  Sum_probs=61.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.| .|..+.|+.|.+++++|||||+|.+.++|.+||+.....+.
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F-~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~   75 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFL-APL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMG   75 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHH-TTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEET
T ss_pred             CCccEEEEECCCCCCCHHHHHHHH-hhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHHhCCceeC
Confidence            456899999999999999999999 899 99999999999999999999999999999999993334444

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

Probab=99.37  E-value=3.8e-13  Score=118.77  Aligned_cols=66  Identities=12%  Similarity=0.146  Sum_probs=61.2

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEE--EEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCc
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY--AGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~--V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~v  182 (534)
                      ..+.++|||||||..+|+++|+++| +.||.|..  |+|+.|+ +|++||||||+|.+. +|.+||+..+-
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F-~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g   88 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGAL-APYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQA   88 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHH-GGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcC
Confidence            3567899999999999999999999 99999977  9999999 999999999999999 99999998763

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.37  E-value=3.8e-13  Score=119.71  Aligned_cols=68  Identities=13%  Similarity=0.016  Sum_probs=60.6

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCe----EEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDV----VYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~V----v~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...+|||+|||+++|+++|+++| +.||.|    ..|.|+.|++|++||||||+|.+.++|.+||+.....+.
T Consensus        22 ~~~~v~V~nLp~~~te~dl~~~F-~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~   93 (123)
T 2dha_A           22 NQVIVRMRGLPFTATAEEVVAFF-GQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLG   93 (123)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHH-HTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeC
Confidence            45789999999999999999999 899986    689999999999999999999999999999987444443

>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=99.37  E-value=1.5e-12  Score=113.15  Aligned_cols=69  Identities=14%  Similarity=0.287  Sum_probs=62.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+..+|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   90 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKF-AEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLM   90 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHH-HTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            456899999999999999999999 999999999999998 99999999999999999999998754 4443

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.37  E-value=6.1e-13  Score=115.99  Aligned_cols=69  Identities=10%  Similarity=0.001  Sum_probs=62.1

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCC---eEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGD---VVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~---Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....+|||+|||+++|+++|+++| +.||.   |..|.|..|+.+++||||||+|.+.++|.+||+.....+.
T Consensus        15 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~   86 (118)
T 2db1_A           15 GEGYVVKLRGLPWSCSIEDVQNFL-SDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMG   86 (118)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHT-TTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEET
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeEC
Confidence            456889999999999999999999 99999   8999999998899999999999999999999994444444

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

Probab=99.37  E-value=4.9e-13  Score=112.20  Aligned_cols=68  Identities=21%  Similarity=0.323  Sum_probs=62.3

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      ..++|||+|||..+|+++|+++| +.||.|..+.|..|+++.+||||||+|.+.++|.+||+ ...++..
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g   75 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFF-ARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINFHG   75 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeECC
Confidence            45899999999999999999999 99999999999999999999999999999999999998 4445554

>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=99.36  E-value=7.8e-13  Score=118.48  Aligned_cols=68  Identities=12%  Similarity=0.080  Sum_probs=61.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeE--EEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVV--YAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv--~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....+|||+|||+++|+++|+++| +.| .|+  .|.|+.|+.|++||||||+|.+.++|.+||+....++.
T Consensus        40 ~~~~~lfVgnLp~~~te~dL~~~F-~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~  109 (126)
T 2hgm_A           40 ANDGFVRLRGLPFGCTKEEIVQFF-SGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIG  109 (126)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHT-TTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-hcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEEC
Confidence            456889999999999999999999 889 677  89999998899999999999999999999987554444

>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=99.36  E-value=1.1e-12  Score=106.48  Aligned_cols=67  Identities=12%  Similarity=0.305  Sum_probs=59.9

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCC-CceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKY-PIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~-pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++. ++|||||+|.+.++|.+||+..+ ..+.
T Consensus         4 ~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   73 (88)
T 4a8x_A            4 PTKVHIGRLTRNVTKDHIMEIF-STYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQID   73 (88)
T ss_dssp             CCEEEEECCCTTCCHHHHHHHH-HTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeEC
Confidence            4789999999999999999999 999999999999987 444 89999999999999999999754 4444

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

Probab=99.36  E-value=1.4e-12  Score=108.45  Aligned_cols=69  Identities=17%  Similarity=0.241  Sum_probs=61.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC----CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK----HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk----TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..|+    ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   76 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVF-SKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVD   76 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            356889999999999999999999 999999999999876    34899999999999999999999754 4444

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.36  E-value=2.4e-12  Score=116.24  Aligned_cols=70  Identities=23%  Similarity=0.275  Sum_probs=63.8

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+..+ ..|.
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~  107 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELF-SKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLD  107 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3467899999999999999999999 999999999999998 89999999999999999999999754 5554

>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=99.36  E-value=4.6e-13  Score=110.54  Aligned_cols=69  Identities=10%  Similarity=0.040  Sum_probs=60.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.++.|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   83 (95)
T 2ek1_A           13 PGPTVIKVQNMPFTVSIDEILDFF-YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIG   83 (95)
T ss_dssp             --CEEEEEECCCTTCCHHHHHHHT-TTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            345899999999999999999999 999999988888887 89999999999999999999999754 4444

>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=99.36  E-value=8.7e-13  Score=109.79  Aligned_cols=70  Identities=17%  Similarity=0.113  Sum_probs=52.6

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      +....+|||||||+++||++|+++|++||+|..+.++++      +||||||+| ++ +|+++... ...+.++.+.+.
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~------srGfaFV~F~~~~~A~~~~~~-~~~~~g~~v~v~   79 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP------FRAFAFVTFADDKVAQSLCGE-DLIIKGISVHIS   79 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS------CCSEEEEEESCHHHHHHHTTC-EEEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC------CCCEEEEEECCHHHHHHHcCC-CcccCCEEEEEE
Confidence            445589999999999999999999999999999999874      689999999 55 77754432 222334455444

>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=99.36  E-value=2.4e-12  Score=107.69  Aligned_cols=68  Identities=12%  Similarity=0.142  Sum_probs=60.5

Q ss_pred             CCCCceeEeccccCcCCHHHHH----HHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALY----NVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLr----eiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .....+|||+|||..+++++|+    ++| +.||.|..|.|..|+..  ||||||+|.+.++|.+||+..+ .++.
T Consensus         6 ~~~~~~l~V~nL~~~~~~~~l~~~l~~~F-~~~G~v~~v~i~~~~~~--rg~afV~f~~~~~A~~Ai~~l~g~~~~   78 (96)
T 2dgx_A            6 SGNGADVQVSNIDYRLSRKELQQLLQEAF-ARHGKVKSVELSPHTDY--QLKAVVQMENLQDAIGAVNSLHRYKIG   78 (96)
T ss_dssp             CSSCEEEEEESCCTTSCHHHHHHHHHHHH-HHHSCEEEEEECSCCST--TCCEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhc-cccCcEEEEEEEeCCCC--CeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999    999 99999999999999854  8999999999999999999765 4444

>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=99.35  E-value=3.4e-12  Score=107.25  Aligned_cols=69  Identities=16%  Similarity=0.155  Sum_probs=61.1

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..|+.+ +||||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~-~~g~afV~f~~~~~a~~A~~~l~g~~~~   81 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLF-SQIGPCKSCKMITEHTS-NDPYCFVEFYEHRDAAAALAAMNGRKIL   81 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHH-HHHSCEEEEEEECCCCS-SCCEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHH-HhcCCEeEEEEEecCCC-CCCEEEEEECCHHHHHHHHHHhCCCCcC
Confidence            3457899999999999999999999 99999999999998744 69999999999999999999655 4444

>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=99.35  E-value=7.7e-13  Score=111.43  Aligned_cols=69  Identities=14%  Similarity=0.159  Sum_probs=59.0

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC--CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK--HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk--TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....++|||+|||..+|+++|+++| +.|| |..+.|..|+  +|+++|||||+|.+.++|.+||+.....+.
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~   86 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFF-RGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLG   86 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHS-CSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBT
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHH-HhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEEC
Confidence            3557999999999999999999999 9999 9999999997  899999999999999999999943334444

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.35  E-value=1.9e-12  Score=108.12  Aligned_cols=73  Identities=12%  Similarity=0.092  Sum_probs=60.0

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ..+..+++|||||||+++|+++|+++|++||.|. +.++.+     +++|||||+| ++ +|++|++. ....+.++.+.
T Consensus        14 ~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~-----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   87 (97)
T 2e5j_A           14 EGAPLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ-----GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLR   87 (97)
T ss_dssp             SSSCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE-----TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCE
T ss_pred             CCCCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC-----CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEE
Confidence            4556678999999999999999999999999996 444432     6789999999 55 88888865 77777877777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        88 V~   89 (97)
T 2e5j_A           88 VA   89 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.35  E-value=1.4e-12  Score=113.79  Aligned_cols=64  Identities=14%  Similarity=0.105  Sum_probs=57.5

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC---ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF---IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~---veIk  185 (534)
                      .+..+|||+|||+.+|+++|+++| +.||.|..|.|+.|     ||||||+|.+.++|.+||+...   .++.
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF-~~fG~V~~v~i~~~-----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~   80 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLG-LPFGKVTNLLMLKG-----KNQAFIEMNTEEAANTMVNYYTSVTPVLR   80 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHH-HHHCCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHTTSCCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEcC-----CCEEEEEECCHHHHHHHHHHhccCCceEC
Confidence            457899999999999999999999 99999999999984     8999999999999999999643   4554

>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=99.35  E-value=1.1e-12  Score=109.95  Aligned_cols=64  Identities=22%  Similarity=0.294  Sum_probs=60.3

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +.++|||+|||..+|+++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f-~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~   71 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIF-SEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLN   71 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHH-HTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSS
T ss_pred             CccEEEEeCCCCcCCHHHHHHHH-HhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhC
Confidence            45789999999999999999999 999999999999997 89999999999999999999998755

>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=8.3e-13  Score=115.58  Aligned_cols=72  Identities=8%  Similarity=-0.100  Sum_probs=60.3

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccC-CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFG-PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG-~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      +...++|||||||+++|+++|+++|++|| +|..+.+..+     ++||||||+| ++ +|++||+. ++..+.++.+.|
T Consensus        25 p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~-----~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V   99 (111)
T 2jvr_A           25 PAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR-----DFDGTGALEFPSEEILVEALERLNNIEFRGSVITV   99 (111)
T ss_dssp             CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC-----SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC-----CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            33458999999999999999999999999 8998888643     4789999999 55 88888864 667777787777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus       100 ~  100 (111)
T 2jvr_A          100 E  100 (111)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=4.1e-12  Score=105.80  Aligned_cols=73  Identities=14%  Similarity=0.069  Sum_probs=60.5

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCc--cc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNL--CG   92 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~--~k   92 (534)
                      ...+..+++|||+|||+++||++|+++|++||+|..+.++++       ||||||+| ++ +|++|++. ....+.  ++
T Consensus        11 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~   83 (97)
T 1why_A           11 YGKANPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG-------DSFAYIQYESLDAAQAACAKMRGFPLGGPDR   83 (97)
T ss_dssp             CCCCCCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS-------SCCEEEEESSHHHHHHHHHHHTTCBCSSSSC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC-------CCEEEEEECCHHHHHHHHHHHCCCEeCCCCc
Confidence            344455689999999999999999999999999999988753       68999999 55 88888874 666677  67


Q ss_pred             cceec
Q psy3698          93 RVEVV   97 (534)
Q Consensus        93 ~VQVr   97 (534)
                      .+.|.
T Consensus        84 ~l~V~   88 (97)
T 1why_A           84 RLRVD   88 (97)
T ss_dssp             BCEEE
T ss_pred             EEEEE
Confidence            77765

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

Probab=99.35  E-value=1.7e-12  Score=112.48  Aligned_cols=67  Identities=22%  Similarity=0.255  Sum_probs=60.6

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      .++|||+|||..+|+++|+++| +.||.|..|.|..|+ ++.++|||||+|.+.++|.+||+.....+.
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~  103 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHF-SSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFR  103 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHH-HTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEET
T ss_pred             CCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeEC
Confidence            5899999999999999999999 999999999999997 999999999999999999999943334444

>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=99.35  E-value=1.4e-12  Score=109.06  Aligned_cols=71  Identities=8%  Similarity=-0.013  Sum_probs=61.6

Q ss_pred             ccCeEEEeCCCCCCCHHHHH----HHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLL----TVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLr----e~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      ..++|||||||+++||++|+    ++|++||+|..+.+++++.+    ||||||+| ++ +|++|++ +.+..+.++.+.
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 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY----QLKAVVQMENLQDAIGAVNSLHRYKIGSKKIL   83 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST----TCCEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC----CeEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            45799999999999999999    99999999999999998763    89999999 55 8888887 466677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        84 V~   85 (96)
T 2dgx_A           84 VS   85 (96)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.35  E-value=1.2e-12  Score=109.60  Aligned_cols=73  Identities=10%  Similarity=-0.050  Sum_probs=60.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      .+...++|||+|||+++||++|+++|++||.|   .++++ .++ ++||||||+| ++ +|++||+ +....+.++.+.|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~-~~g-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   85 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQN-QNG-KSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRL   85 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBC-SSS-CBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEEC-CCC-CEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEE
Confidence            44567999999999999999999999999988   44555 456 8899999999 55 8888888 4666777777777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        86 ~   86 (101)
T 2fc9_A           86 E   86 (101)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.35  E-value=8.5e-13  Score=113.35  Aligned_cols=78  Identities=14%  Similarity=0.100  Sum_probs=66.0

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHH---HHhhccCCeeEEeecCCCCCC--CCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLL---TVFSQFGPVKVEWPQGTPESP--TAPKAISLDVI-SE-LVLILGQW-ATEGNLC   91 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLr---e~FsqFG~V~~v~~~rD~~Tg--~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~   91 (534)
                      .....++|||||||+++||++|+   ++|++||+|..+.++++..++  .+++|||||+| ++ +|++||+. ....+.+
T Consensus        11 r~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~g   90 (111)
T 2cpi_A           11 RVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDG   90 (111)
T ss_dssp             CCCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             cccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECC
Confidence            34567899999999999999999   999999999999999987653  15679999999 55 88888885 7777778


Q ss_pred             ccceec
Q psy3698          92 GRVEVV   97 (534)
Q Consensus        92 k~VQVr   97 (534)
                      +.+.|.
T Consensus        91 r~l~V~   96 (111)
T 2cpi_A           91 RTLKAS   96 (111)
T ss_dssp             EEEEEE
T ss_pred             EEEEEE
Confidence            887776

>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=99.34  E-value=7.2e-13  Score=108.57  Aligned_cols=61  Identities=26%  Similarity=0.366  Sum_probs=58.0

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ++|||+|||..+++++|+++| +.||.|..+.|..|+ ++.++|||||+|.+.+ |.+||+..+
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~   63 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELF-SQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLD   63 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTH-HHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSC
T ss_pred             cEEEECCCCCCCCHHHHHHHH-HhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhC
Confidence            589999999999999999999 999999999999998 8999999999999999 999999755

>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=99.33  E-value=6.1e-12  Score=105.15  Aligned_cols=72  Identities=15%  Similarity=0.183  Sum_probs=60.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++||++|+++|++||+|..+.++++       ||||||+| +. +|++|++. ....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~-------kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~   82 (99)
T 2cpj_A           10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD-------KGFGFIRLETRTLAEIAKVELDNMPLRGKQLR   82 (99)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT-------TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCE
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC-------CCEEEEEECCHHHHHHHHHHhCCCEeCCceEE
Confidence            44556789999999999999999999999999999988753       68999999 44 88888864 67778888887


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        83 v~   84 (99)
T 2cpj_A           83 VR   84 (99)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

>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=99.33  E-value=1.3e-12  Score=118.09  Aligned_cols=69  Identities=10%  Similarity=0.024  Sum_probs=61.6

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCC---eEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGD---VVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~---Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....+|||+|||+++|+++|+++| +.||.   |..|.|+.|+.|++||||||+|.+.++|.+||+....++.
T Consensus        42 ~~~~~lfVgnLp~~~te~dL~~~F-~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~~~g~~l~  113 (136)
T 2hgl_A           42 GEGFVVKLRGLPWSCSVEDVQNFL-SDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMG  113 (136)
T ss_dssp             CTTCEEEEESCCTTCCHHHHHHHT-TTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHTTTEEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEEC
Confidence            456899999999999999999999 99999   8899999998899999999999999999999983334443

>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=99.33  E-value=8.2e-13  Score=112.90  Aligned_cols=79  Identities=8%  Similarity=-0.020  Sum_probs=61.1

Q ss_pred             CCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccc
Q psy3698          18 FSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRV   94 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~V   94 (534)
                      .......++|||+|||+++||++|+++|++||.|..+.+..+..++ ++||||||+| +. +|++|++. ....+.++.+
T Consensus        19 ~~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g-~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l   97 (115)
T 2cpx_A           19 YNPGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTG-RMRGQAFITFPNKEIAWQALHLVNGYKLYGKIL   97 (115)
T ss_dssp             CCCCSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECS-SSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBC
T ss_pred             cCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCC-ccceEEEEEECCHHHHHHHHHHhCCCEeCCcEE
Confidence            3444567899999999999999999999999998432222222255 8899999999 55 88888875 6677777877


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        98 ~v~  100 (115)
T 2cpx_A           98 VIE  100 (115)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            776

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

Probab=99.33  E-value=2.3e-12  Score=110.90  Aligned_cols=85  Identities=16%  Similarity=0.148  Sum_probs=59.6

Q ss_pred             CCccccCCCC-CCCCCCCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHH
Q psy3698           4 PQKTWEGVLP-LRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLI   80 (534)
Q Consensus         4 ~~~tWsG~lP-PR~~~~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAea   80 (534)
                      ..+.|....+ +......+...++|||||||+++||++|+++|++||+|..+.++         ||||||+| +. +|++
T Consensus        10 ~~~~~~~~~~p~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~---------kg~afV~f~~~~~A~~   80 (108)
T 2jvo_A           10 HSSGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL---------NGFAFVEFEEAESAAK   80 (108)
T ss_dssp             ------------------CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE---------TTEEEEECSSHHHHHH
T ss_pred             ccccCcCCCCCcccccCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE---------CCEEEEEECCHHHHHH
Confidence            4455644443 33345777788999999999999999999999999999998887         58999999 55 8888


Q ss_pred             HHhh-cCCCCccccceec
Q psy3698          81 LGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        81 ALq~-ssr~i~~k~VQVr   97 (534)
                      |++. .+..+.++.+.|.
T Consensus        81 Ai~~l~g~~~~g~~l~V~   98 (108)
T 2jvo_A           81 AIEEVHGKSFANQPLEVV   98 (108)
T ss_dssp             HHHHHTTCEETTEECEEE
T ss_pred             HHHHcCCCEECCeEEEEE
Confidence            8874 6777777777775

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.33  E-value=3.7e-12  Score=109.44  Aligned_cols=69  Identities=14%  Similarity=0.093  Sum_probs=57.5

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh---cCCCCcccccee
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW---ATEGNLCGRVEV   96 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~---ssr~i~~k~VQV   96 (534)
                      ..+++|||||||+++||++|+++|++||.|..+.++++       ||||||+| ++ +|++|++.   ....+.++.+.|
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            34689999999999999999999999999999988764       68999999 55 88888874   344567777776


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        86 ~   86 (101)
T 2cq1_A           86 Q   86 (101)
T ss_dssp             E
T ss_pred             E
Confidence            5

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.33  E-value=1.8e-12  Score=115.38  Aligned_cols=74  Identities=19%  Similarity=0.149  Sum_probs=66.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ..++|||+|||+++|+++|+++|++||.|..+.+++++.++ +++|||||+| +. +|++|+++....+.++.+.|.
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g-~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~V~  161 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTG-QSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIK  161 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSS-TTSEEEEEEESSHHHHHHHHHCSEECSSSSCEEEE
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCC-ccceEEEEEECCHHHHHHHHhCCCEEeCCeEEEEe
Confidence            35689999999999999999999999999999999998888 9999999999 55 999999877777888888776

>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=99.32  E-value=1.7e-12  Score=125.96  Aligned_cols=68  Identities=15%  Similarity=0.196  Sum_probs=61.6

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCC--CeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFG--DVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG--~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...+|||+|||..+|+++|+++| +.||  .|+.|.|+.|+ ++++||||||+|.+.++|.+||+..+ .+|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F-~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~  138 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAV-HSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH  138 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHH-HTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBT
T ss_pred             CccEEEEeCCCCCCCHHHHHHHH-HHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeEC
Confidence            45789999999999999999999 9999  99999999997 99999999999999999999999765 4444

>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=99.32  E-value=6e-12  Score=107.35  Aligned_cols=67  Identities=10%  Similarity=-0.024  Sum_probs=57.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc-----ccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC-----GRV   94 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~-----k~V   94 (534)
                      ..++|||+|||+++||++|+++|++||+|..+.++++        |||||+| ++ +|++||+. +...+.+     +.+
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~--------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i   85 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD--------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   85 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT--------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC--------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEE
Confidence            4689999999999999999999999999999999876        7999999 65 88888884 5555655     666


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        86 ~V~   88 (108)
T 1x4c_A           86 RVK   88 (108)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            665

>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=99.32  E-value=3.4e-12  Score=109.57  Aligned_cols=72  Identities=19%  Similarity=0.268  Sum_probs=62.4

Q ss_pred             CCCCCCceeEeccccCcCCHHHHH---HHhhhcCCCeEEEEEecCC-C---CCCceEEEEEeCCHHHHHHHHHhcC-cee
Q psy3698         113 TKLEPGKTIFVGALHGRLTAQALY---NVMNDLFGDVVYAGIDTDK-H---KYPIGSGRITFGSTRAYSDAIRAAF-IEV  184 (534)
Q Consensus       113 ~~~d~~ktIFVGNLP~~~TeedLr---eiF~s~FG~Vv~V~I~~Dk-T---G~pKGfGFVtF~d~EsA~kAIea~~-veI  184 (534)
                      .+.....+|||+|||..+++++|+   ++| ++||.|..+.|+.|+ +   +.++|||||+|.+.++|.+||+..+ .++
T Consensus        10 ~r~~~~~~l~V~nLp~~~~~~~l~~~~~~F-~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~   88 (111)
T 2cpi_A           10 VRVVQKNLVFVVGLSQRLADPEVLKRPEYF-GKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVV   88 (111)
T ss_dssp             CCCCCSSCEEEEEECTTTCCHHHHHSTTTT-TTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEE
T ss_pred             ccccCCCEEEEECCCCCCCHHHHHHHHHHh-hccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEE
Confidence            344567899999999999999999   999 999999999999887 3   4677999999999999999999855 444


Q ss_pred             e
Q psy3698         185 K  185 (534)
Q Consensus       185 k  185 (534)
                      .
T Consensus        89 ~   89 (111)
T 2cpi_A           89 D   89 (111)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.32  E-value=1.1e-12  Score=112.01  Aligned_cols=69  Identities=12%  Similarity=-0.023  Sum_probs=61.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCC---eEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCcee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGD---VVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEV  184 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~---Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veI  184 (534)
                      .....+|||+|||+++|+++|+++| +.||.   |..|.|..|+.|++||||||+|.+.++|.+||+.....+
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F-~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~~   79 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFF-SDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYM   79 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHT-TTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCS
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHH-HhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCccee
Confidence            3456899999999999999999999 89888   899999999889999999999999999999998433333

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

Probab=99.00  E-value=1.4e-13  Score=118.47  Aligned_cols=77  Identities=17%  Similarity=0.108  Sum_probs=65.9

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeE--------EeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKV--------EWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG   88 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~--------v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~   88 (534)
                      +....++|||+|||+++|+++|+++|++||.|..        +.+++++.++ ++||||||+| +. +|++|++. ....
T Consensus         3 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g-~~~g~afV~f~~~~~A~~Ai~~l~g~~   81 (116)
T 2lcw_A            3 DNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETG-KLKGEATVSFDDPPSAKAAIDWFDGKE   81 (116)
Confidence            3455689999999999999999999999999998        8899988877 8999999999 55 88888874 6667


Q ss_pred             Cccccceec
Q psy3698          89 NLCGRVEVV   97 (534)
Q Consensus        89 i~~k~VQVr   97 (534)
                      +.++.+.|.
T Consensus        82 ~~g~~l~V~   90 (116)
T 2lcw_A           82 FSGNPIKVS   90 (116)
Confidence            777777665

>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=99.32  E-value=5.8e-12  Score=108.25  Aligned_cols=60  Identities=13%  Similarity=0.151  Sum_probs=55.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|+.+     ||||||+|.+.++|.+||+..
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F-~~fG~v~~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l   71 (101)
T 2cq1_A           12 GAPSRVLHIRKLPGEVTETEVIALG-LPFGKVTNILMLKG-----KNQAFLELATEEAAITMVNYY   71 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTT-TTTSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEECC-----CCEEEEEECCHHHHHHHHHHh
Confidence            3567899999999999999999999 99999999998874     899999999999999999864

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

Probab=99.31  E-value=3.2e-12  Score=109.61  Aligned_cols=70  Identities=19%  Similarity=0.226  Sum_probs=61.7

Q ss_pred             CCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         114 KLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .....++|||+|||..+|+++|+++| +.||.|..+.|..|+.+ +||||||+|.+.++|.+||+..+ ..+.
T Consensus        25 ~~~~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~~~~-~kg~afV~f~~~~~A~~Ai~~l~g~~~~   95 (109)
T 2err_A           25 NKSQPKRLHVSNIPFRFRDPDLRQMF-GQFGKILDVEIIFNERG-SKGFGFVTFENSADADRAREKLHGTVVE   95 (109)
T ss_dssp             CTTCCCEEEEESCCTTCCHHHHHHHG-GGTCCCSCEEECCBTTB-CTTEEEEECCCSHHHHHHHHHHTTCEET
T ss_pred             CCCCCCEEEEECCCCcCCHHHHHHHH-HhcCCEEEEEEEECCCC-CceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            34567899999999999999999999 99999999999998744 89999999999999999999754 4444

>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=99.31  E-value=3.4e-12  Score=113.56  Aligned_cols=70  Identities=17%  Similarity=0.078  Sum_probs=58.8

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhc---CCCCccccce
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWA---TEGNLCGRVE   95 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~s---sr~i~~k~VQ   95 (534)
                      ...+++|||||||+++||++|+++|++||+|..+.++++       ||||||+| ++ +|++|++..   ...+.++.+.
T Consensus        28 ~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~-------kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~  100 (119)
T 2ad9_A           28 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG-------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIY  100 (119)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG-------GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC-------CCEEEEEECCHHHHHHHHHHhccCCceECCeEEE
Confidence            334689999999999999999999999999999998874       68999999 55 888888752   3567778877


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       101 V~  102 (119)
T 2ad9_A          101 IQ  102 (119)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=99.31  E-value=6.9e-12  Score=106.57  Aligned_cols=67  Identities=15%  Similarity=0.206  Sum_probs=58.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..+  +.+||||||+|.+.++|.+||+..+ .++.
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~v~~~~i~~~--~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   87 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVF-YKYGAIRDIDLKNR--RGGPPFAFVEFEDPRDAEDAVYGRDGYDYD   87 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEECCS--SSSSCCEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEEC--CCCCcEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456899999999999999999999 99999999999664  4589999999999999999998765 4443

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

Probab=99.31  E-value=7.9e-12  Score=102.75  Aligned_cols=69  Identities=19%  Similarity=0.085  Sum_probs=58.6

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ....++|||+|||+++||++|+++|++||+|..+.++         ||||||+| +. +|++|++. ....+.++.+.|.
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   75 (90)
T 2dnq_A            5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII---------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVE   75 (90)
T ss_dssp             SSCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE---------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE---------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEE
Confidence            3456899999999999999999999999999998886         47999999 55 88888864 6667788888776


Q ss_pred             c
Q psy3698          98 P   98 (534)
Q Consensus        98 P   98 (534)
                      .
T Consensus        76 ~   76 (90)
T 2dnq_A           76 A   76 (90)
T ss_dssp             C
T ss_pred             E
Confidence            3

>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=99.31  E-value=2.7e-12  Score=117.44  Aligned_cols=75  Identities=12%  Similarity=0.085  Sum_probs=65.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++|+++|+++|++||+|..+.+++++.++ .++|||||+| +. +|++||+. .+..+.++.+.|.
T Consensus        70 ~~~~~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           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTG-FSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVD  147 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTS-SEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCC-cEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            446789999999999999999999999999999999998888 8999999999 55 88888874 6666777777775

>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=99.31  E-value=3.5e-12  Score=106.14  Aligned_cols=56  Identities=23%  Similarity=0.302  Sum_probs=50.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHH
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDA  176 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kA  176 (534)
                      .+..+|||||||.++|+++|+++| ++||.|..|.|+.|    +||||||+|.+.++|.++
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F-~~~G~i~~v~i~~~----srGfaFV~F~~~~~A~~~   64 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFF-CQYGEVVDVFIPKP----FRAFAFVTFADDKVAQSL   64 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHH-TTTSCEEEEECCSS----CCSEEEEEESCHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-hccCCEEEEEEeeC----CCCEEEEEECCHHHHHHH
Confidence            456899999999999999999999 99999999999885    899999999999999854

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.30  E-value=5.3e-12  Score=105.69  Aligned_cols=67  Identities=18%  Similarity=0.199  Sum_probs=58.7

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|   .|..+.++.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   79 (101)
T 2fc9_A           12 SGESKTLVLSNLSYSATEETLQEVF-EKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIE   79 (101)
T ss_dssp             SCCCSEEEEESCCTTCCHHHHHHHC-SSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3457999999999999999999999 899987   56777789999999999999999999999765 4444

>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=99.30  E-value=1.8e-12  Score=106.12  Aligned_cols=68  Identities=21%  Similarity=0.131  Sum_probs=53.8

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      .+++|||||||+++||++|+++|++||+|..+.++++      +||||||+| ++ +|++|+.. ...+.++.+.+.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~   73 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP------FRAFAFVTFADDQIAQSLCGE-DLIIKGISVHIS   73 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS------CCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC------CCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEE
Confidence            3589999999999999999999999999999998864      579999999 55 77766543 222344555554

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

Probab=99.30  E-value=5.1e-12  Score=107.48  Aligned_cols=68  Identities=13%  Similarity=0.126  Sum_probs=60.1

Q ss_pred             CCCceeEeccccCcC------CHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRL------TAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~------TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||||||..+      |+++|+++| +.||.|..|.|. ..+|.+||||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F-~~~G~v~~v~i~-~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~   87 (105)
T 2nlw_A           13 GIDSVIVVDNVPQVGPDRLEKLKNVIHKIF-SKFGKITNDFYP-EEDGKTKGYIFLEYASPAHAVDAVKNADGYKLD   87 (105)
T ss_dssp             SCCSEEEEESCCCCCTTTTTHHHHHHHHHH-GGGSCEEEEECC-CBTTBSCCEEEEEECSSSHHHHHHHHCSSEECS
T ss_pred             CCCCEEEEeCCCcchhhhhHHHHHHHHHHH-hcCCCEEEEEee-CCCCCeeeEEEEEECCHHHHHHHHHHhCCcccC
Confidence            346899999999999      789999999 999999999988 4689999999999999999999999865 3443

>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=99.30  E-value=1e-12  Score=119.40  Aligned_cols=68  Identities=15%  Similarity=0.245  Sum_probs=59.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||+++|+++|+++| +.|| |+.|.|+.|+.+++||||||+|.+.++|.+||+.....+.
T Consensus        44 ~~~~~lfV~nLp~~~te~dL~~~F-~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al~~~g~~l~  111 (139)
T 2hgn_A           44 TTGHCVHMRGLPYKATENDIYNFF-SPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQ  111 (139)
T ss_dssp             -CCCCEECCSCCTTCCHHHHHHHH-CSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEEC
Confidence            456899999999999999999999 9999 7799999999999999999999999999999943333333

>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=99.30  E-value=1.4e-11  Score=105.01  Aligned_cols=75  Identities=23%  Similarity=0.273  Sum_probs=62.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeeccce-eeee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKSGRI-CKKL  193 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~~k~-~KrV  193 (534)
                      ....+|||+|||.++|+++|+++| +.||.|+.|.|..|      |||||+|.+.++|.+||+..+ .++..... .++|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~~~i~~~------g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i   85 (108)
T 1x4c_A           13 RSENRVVVSGLPPSGSWQDLKDHM-REAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   85 (108)
T ss_dssp             SCCCEEEEESCCSSCCHHHHHHHH-GGGSCEEEEEEETT------TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEeEEEEecC------CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEE
Confidence            456899999999999999999999 99999999999886      999999999999999999765 45543221 2445


Q ss_pred             eecc
Q psy3698         194 QIDP  197 (534)
Q Consensus       194 eIkP  197 (534)
                      +|+.
T Consensus        86 ~V~~   89 (108)
T 1x4c_A           86 RVKV   89 (108)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            5553

>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=99.29  E-value=1.1e-12  Score=114.49  Aligned_cols=69  Identities=13%  Similarity=0.107  Sum_probs=59.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecC-CCCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTD-KHKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~D-kTG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ....+|||+|||+.+|+++|+++| +.||.|..+.++.+ .+++++|||||+|.+.++|.+||+.....+.
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F-~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~   92 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFF-KKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMG   92 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHS-CSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCST
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeEC
Confidence            456899999999999999999999 99999988555555 4999999999999999999999994334444

>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=99.29  E-value=3e-12  Score=110.66  Aligned_cols=69  Identities=12%  Similarity=0.041  Sum_probs=57.4

Q ss_pred             CccCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-c--CCCCccccce
Q psy3698          22 ILSNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-A--TEGNLCGRVE   95 (534)
Q Consensus        22 ~~SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-s--sr~i~~k~VQ   95 (534)
                      ..+++|||||||+ ++||++|+++|++||+|..++++++       ||||||+| .+ +|++|++. .  ...+.++.+.
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~-------kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~   85 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNK-------INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVR   85 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSS-------SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcC-------CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEE
Confidence            3578999999999 9999999999999999999999864       47999999 55 88888875 2  2346777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        86 V~   87 (102)
T 1x4d_A           86 VH   87 (102)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>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=5e-12  Score=105.84  Aligned_cols=71  Identities=14%  Similarity=0.028  Sum_probs=58.0

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .+...++|||||||+++|+++|+++|++||+|..+.++       ++||||||+| +. +|++|++. .+..+.++.+.|
T Consensus        23 ~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~-------~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   95 (101)
T 2la4_A           23 APPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHY-------PEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRT   95 (101)
T ss_dssp             SCSSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEE-------TTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCC
T ss_pred             CCCCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEe-------cCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            34456899999999999999999999999999998886       3479999999 55 88888864 666666666655


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        96 ~   96 (101)
T 2la4_A           96 G   96 (101)
T ss_dssp             C
T ss_pred             E
Confidence            4

>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=99.29  E-value=3.9e-12  Score=109.95  Aligned_cols=62  Identities=15%  Similarity=0.186  Sum_probs=56.5

Q ss_pred             CCCCCceeEeccccC-cCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         114 KLEPGKTIFVGALHG-RLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       114 ~~d~~ktIFVGNLP~-~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..++.++|||+|||. .+|+++|+++| +.||.|..|.|+.|     ||||||+|.+.++|.+||+..+
T Consensus        11 ~~~p~~~l~V~nLp~~~~te~dL~~lF-~~fG~V~~v~i~~~-----kg~aFVef~~~~~A~~Ai~~l~   73 (102)
T 1x4d_A           11 RVETRRVVHIMDFQRGKNLRYQLLQLV-EPFGVISNHLILNK-----INEAFIEMATTEDAQAAVDYYT   73 (102)
T ss_dssp             CCCCCCEEEEESCCCSSSHHHHHHTTT-GGGSCEEEEEECSS-----SSCEEEEESSHHHHHHHHHHHH
T ss_pred             CCCCCCEEEEeCCCCCcCCHHHHHHHH-HhcCCEEEEEEEcC-----CCEEEEEECCHHHHHHHHHHHc
Confidence            345789999999999 99999999999 99999999999874     6999999999999999999754

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

Probab=99.29  E-value=5.9e-12  Score=109.06  Aligned_cols=61  Identities=13%  Similarity=0.206  Sum_probs=56.3

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..     .||||||+|.+.++|.+||+...
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF-~~fG~V~~v~i~~-----~kg~AFVef~~~~~A~~Av~~ln   78 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEAL-QEFGPISYVVVMP-----KKRQALVEFEDVLGACNAVNYAA   78 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEET-----TTTEEEEEESSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHH-hccCCEEEEEEEc-----CCCEEEEEECCHHHHHHHHHHhc
Confidence            4578999999999999999999999 9999999999986     68999999999999999998754

>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=99.29  E-value=8.8e-12  Score=114.07  Aligned_cols=70  Identities=14%  Similarity=0.249  Sum_probs=62.8

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|..++ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        69 ~~~~~~l~V~nLp~~~t~~~L~~~F-~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~  140 (165)
T 1rk8_A           69 SVEGWILFVTSIHEEAQEDEIQEKF-CDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIM  140 (165)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHH-GGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHh-hcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456889999999999999999999 999999999999997 99999999999999999999999755 4443

>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=99.29  E-value=8e-12  Score=107.77  Aligned_cols=60  Identities=13%  Similarity=0.240  Sum_probs=55.3

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..+.++|||+|||..+|+++|+++| ++||.|..|.|+.     .||||||+|.+.++|.+||+..
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F-~~fG~V~~v~i~~-----~kg~aFVef~~~~~A~~Ai~~l   71 (104)
T 1wex_A           12 VSVSPVVHVRGLCESVVEADLVEAL-EKFGTICYVMMMP-----FKRQALVEFENIDSAKECVTFA   71 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHH-TTTSCEEEEEEET-----TTTEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEEC-----CCCEEEEEECCHHHHHHHHHHh
Confidence            3567899999999999999999999 9999999999887     4899999999999999999864

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.29  E-value=6.5e-12  Score=105.72  Aligned_cols=71  Identities=17%  Similarity=0.217  Sum_probs=57.4

Q ss_pred             CCCCCccCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccc
Q psy3698          18 FSDEILSNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGR   93 (534)
Q Consensus        18 ~~~p~~SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~   93 (534)
                      ......+++|||||||+ ++|+++|+++|++||.|..+.+.         ||||||+| ++ +|++|++. .+..+.++.
T Consensus        16 ~~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~   86 (97)
T 2xnq_A           16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---------NAFGFIQFDNPQSVRDAIEXESQEMNFGKK   86 (97)
T ss_dssp             ---CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC---------SSEEEEEESSHHHHHHHHHHHTTSEETTEE
T ss_pred             cCCCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---------CCEEEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            34555679999999998 99999999999999999988873         68999999 55 88888884 566666777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        87 l~V~   90 (97)
T 2xnq_A           87 LILE   90 (97)
T ss_dssp             CEEE
T ss_pred             EEEE
Confidence            6665

>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=99.29  E-value=5.3e-12  Score=112.29  Aligned_cols=61  Identities=15%  Similarity=0.086  Sum_probs=56.1

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||.++|+++|+++| +.||.|+.|.|+.+     ||||||+|.+.++|.+||+...
T Consensus        28 ~~ps~~LfVgNLp~~vte~dL~~lF-~~fG~V~~v~i~~~-----kG~AFVeF~~~e~A~~Ai~~l~   88 (119)
T 2ad9_A           28 GVPSRVIHIRKLPIDVTEGEVISLG-LPFGKVTNLLMLKG-----KNQAFIEMNTEEAANTMVNYYT   88 (119)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHHH-TTTSCCCEEEEEGG-----GTEEEEECSCHHHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhc
Confidence            3567899999999999999999999 99999999999884     8999999999999999998643

>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=99.29  E-value=2.4e-12  Score=113.35  Aligned_cols=60  Identities=12%  Similarity=0.149  Sum_probs=55.6

Q ss_pred             CCCCceeEeccccCc-CCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         115 LEPGKTIFVGALHGR-LTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~-~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..+.++|||+|||.+ +|+++|+++| +.||.|..|.|..     +||||||+|.+.++|.+||+..
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF-~~fG~V~~v~i~~-----~kg~aFVef~~~~~A~~Ai~~l   82 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLA-EPYGKIKNYILMR-----MKSQAFIEMETREDAMAMVDHC   82 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTT-TTTSCCSEEEEET-----TTTEEEEECSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHH-HhcCCEEEEEEec-----CCCEEEEEECCHHHHHHHHHHh
Confidence            456789999999998 9999999999 9999999999975     6899999999999999999864

>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=99.29  E-value=6.7e-12  Score=101.51  Aligned_cols=70  Identities=14%  Similarity=0.106  Sum_probs=57.5

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh--cCCCCcccccee
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW--ATEGNLCGRVEV   96 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~--ssr~i~~k~VQV   96 (534)
                      ....++|||+|||+++|+++|+++|++||+|..+.++++       ||||||+| +. +|++|++.  ....+.++.+.+
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~-------kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v   81 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR-------QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNV   81 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG-------GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCE
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC-------CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEE
Confidence            345689999999999999999999999999999988763       68999999 55 88888884  455566665555


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        82 ~   82 (85)
T 2ytc_A           82 K   82 (85)
T ss_dssp             E
T ss_pred             E
Confidence            4

>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=99.28  E-value=1.2e-11  Score=106.70  Aligned_cols=67  Identities=12%  Similarity=-0.051  Sum_probs=56.2

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh---cCCCCccccceec
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW---ATEGNLCGRVEVV   97 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~---ssr~i~~k~VQVr   97 (534)
                      +++|||+|||+++||++|+++|++||+|..++++++       ||||||+| ++ +|++|++.   ....+.++.+.|.
T Consensus        15 ~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~-------kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~   86 (104)
T 1wex_A           15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF-------KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFN   86 (104)
T ss_dssp             CSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT-------TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC-------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            578999999999999999999999999999888763       68999999 55 88888874   2234777777775

>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=99.28  E-value=1.1e-11  Score=105.49  Aligned_cols=70  Identities=14%  Similarity=0.053  Sum_probs=60.0

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      +...++|||||||+++|+++|+++|++||+|..+.++++       ||||||+| +. +|++|++. ....+.++.+.|.
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            445689999999999999999999999999999998875       68999999 55 88888854 6667777777776

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

Probab=99.28  E-value=1.1e-11  Score=102.95  Aligned_cols=71  Identities=15%  Similarity=0.122  Sum_probs=59.4

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ....++|||||||+++||++|+++|++||+|..+  +.++.++ +   ||||+| ++ +|++||++....+.++.+.|.
T Consensus         5 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g-~---~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~   77 (94)
T 2e5g_A            5 SSGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKG-V---FAIVEMGDVGAREAVLSQSQHSLGGHRLRVR   77 (94)
T ss_dssp             CTTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSC-C---EEEEEESSHHHHHHHHTCSCCEETTEECCCB
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCC-c---EEEEEECCHHHHHHHHhcCCeEECCEEEEEE
Confidence            3446899999999999999999999999999976  5555555 2   999999 66 999999877777777777776

>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=99.28  E-value=4.5e-12  Score=109.84  Aligned_cols=63  Identities=10%  Similarity=-0.037  Sum_probs=53.6

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccc
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGR   93 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~   93 (534)
                      ..++|||+|||+++||++|+++|++||+|..+.++++        |||||+| ++ +|++||+ ++...+.++.
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            3689999999999999999999999999999999875        7999999 55 8888887 4666666666

>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=99.28  E-value=6.5e-12  Score=101.79  Aligned_cols=69  Identities=13%  Similarity=0.150  Sum_probs=58.5

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhcc----C-------CeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCC
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQF----G-------PVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEG   88 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqF----G-------~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~   88 (534)
                      ..+++|||||||+++|+++|+++|++|    |       +|..+.++++       ||||||+| ++ +|++|+.+++..
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            346899999999999999999999999    8       8998888754       68999999 65 888888667777


Q ss_pred             Cccccceec
Q psy3698          89 NLCGRVEVV   97 (534)
Q Consensus        89 i~~k~VQVr   97 (534)
                      +.++.+.|.
T Consensus        77 ~~g~~l~V~   85 (87)
T 2hzc_A           77 FQGQSLKIR   85 (87)
T ss_dssp             ETTEECEEE
T ss_pred             ECCeEEEEe
Confidence            777776664

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.28  E-value=6.2e-12  Score=105.23  Aligned_cols=75  Identities=17%  Similarity=0.070  Sum_probs=61.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      ..+...++|||+|||+++||++|+++|++|+.   +.+++++.++ +++|||||+| ++ +|++||+ +....+.++.+.
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~---~~~~~~~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   85 (102)
T 2fc8_A           10 ARSQPSKTLFVKGLSEDTTEETLKESFDGSVR---ARIVTDRETG-SSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVT   85 (102)
T ss_dssp             SSSCCCSSEEEECCCTTCCHHHHHHTSTTCSE---EEEEECSSSC-SEEEEEEEECSSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCCCCCEEEEeCCCCccCHHHHHHHhcCCeE---EEEEecCCCC-CcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            34456799999999999999999999998854   4556676667 8999999999 55 8888887 477777777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        86 V~   87 (102)
T 2fc8_A           86 LD   87 (102)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.28  E-value=6.7e-12  Score=117.38  Aligned_cols=76  Identities=9%  Similarity=0.011  Sum_probs=65.5

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .+...++|||+|||+++||++|+++|++||+|..+.++.+. ++ +++|||||+| +. +|++||+. ....+.++.+.|
T Consensus        84 ~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~-~g-~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V  161 (177)
T 2f3j_A           84 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SG-RSLGTADVHFERRADALKAMKQYKGVPLDGRPMDI  161 (177)
T ss_dssp             SCTTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT-TS-SCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CC-CEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEE
Confidence            34456899999999999999999999999999999999998 67 8999999999 55 88888884 666777777766


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus       162 ~  162 (177)
T 2f3j_A          162 Q  162 (177)
T ss_dssp             E
T ss_pred             E
Confidence            5

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

Probab=99.27  E-value=1.1e-11  Score=110.69  Aligned_cols=71  Identities=11%  Similarity=-0.029  Sum_probs=59.1

Q ss_pred             ccCeEEEeCCCCCCCHHHHH----HHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLL----TVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLr----e~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ..++|||||||+++++++|+    ++|++||+|..+.+.+   ++ ++||||||+| +. +|++|++. .+..+.++.+.
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 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL---SD-DNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLV  103 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC---CC-SSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc---CC-CcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEE
Confidence            36799999999999999876    6999999999888765   35 7899999999 55 88888864 77777788777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       104 V~  105 (127)
T 2a3j_A          104 IT  105 (127)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=99.27  E-value=1e-11  Score=111.36  Aligned_cols=73  Identities=16%  Similarity=0.216  Sum_probs=62.6

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQ   95 (534)
                      ......++|||||||+++||++|+++|++||+|..+.++++      +||||||+| ++ +|++|++ +.+..+.++.+.
T Consensus        68 ~~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~------~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~  141 (150)
T 2i2y_A           68 DSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN------PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVR  141 (150)
T ss_dssp             SSSTTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS------SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCE
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC------CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            44556789999999999999999999999999999999886      479999999 55 8888887 477778888777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       142 v~  143 (150)
T 2i2y_A          142 VE  143 (150)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=2e-11  Score=98.66  Aligned_cols=64  Identities=22%  Similarity=0.260  Sum_probs=57.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc-C-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA-F-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~-~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|..     +||||||+|.+.++|.+||+.. + ..+.
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f-~~~G~i~~~~~~~-----~kg~afV~f~~~~~A~~a~~~l~~~~~~~   75 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHF-YQFGEIRTITVVQ-----RQQCAFIQFATRQAAEVAAEKSFNKLIVN   75 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHH-HTTSCEEEEEEEG-----GGTEEEEEESSHHHHHHHHHTTTTTCEET
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHH-HhCCCEeEEEEEC-----CCCEEEEEECCHHHHHHHHHHhcCCeeEC
Confidence            456899999999999999999999 9999999999987     5899999999999999999975 3 4444

>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=99.27  E-value=1.2e-11  Score=108.87  Aligned_cols=70  Identities=13%  Similarity=0.081  Sum_probs=58.3

Q ss_pred             CCccCeEEEeCCCCC-CCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh---cCCCCccccc
Q psy3698          21 EILSNKIFIGGVPWD-TPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW---ATEGNLCGRV   94 (534)
Q Consensus        21 p~~SrKVFVGNLP~d-iTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~---ssr~i~~k~V   94 (534)
                      ...+++|||||||++ +||++|+++|++||+|..+++++       +||||||+| ++ +|++|++.   ....+.++.+
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~-------~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l   94 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-------MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCV   94 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-------TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCC
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec-------CCCEEEEEECCHHHHHHHHHHhccCCceECCEEE
Confidence            445789999999998 99999999999999999999864       479999999 55 88888874   3345777777


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        95 ~V~   97 (112)
T 1x4f_A           95 KVD   97 (112)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            775

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

Probab=99.27  E-value=2.1e-12  Score=107.04  Aligned_cols=73  Identities=12%  Similarity=0.009  Sum_probs=59.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ......++|||+|||+++|+++|+++|++||.|..+     ..++ +++|||||+| ++ +|++|++. .+..+.++.+.
T Consensus        11 ~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-----~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~   84 (96)
T 1fjc_A           11 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDG-KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVS   84 (96)
T ss_dssp             STTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-----EETT-EEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-----CCCC-CcceEEEEEECCHHHHHHHHHHhCCCEECCeEEE
Confidence            455567999999999999999999999999998765     2345 7899999999 55 88888884 66667777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      +.
T Consensus        85 v~   86 (96)
T 1fjc_A           85 LY   86 (96)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>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=99.26  E-value=1.1e-11  Score=117.33  Aligned_cols=68  Identities=15%  Similarity=0.171  Sum_probs=63.3

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      .++|||+|||..+|+++|+++| +.||.|..|.|..|.++.+||||||+|.+.++|.+||+....++..
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F-~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~G  176 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWL-EDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKE  176 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHH-TTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETT
T ss_pred             cCEEEecCCCCcCCHHHHHHHH-hcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECC
Confidence            4889999999999999999999 9999999999999999999999999999999999999887665554

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

Probab=99.26  E-value=1.1e-12  Score=109.84  Aligned_cols=68  Identities=15%  Similarity=0.070  Sum_probs=59.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|.. .++.|+ ++.+||||||+|.+.++|.+||+.....+.
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~   83 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAI-SELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVF   83 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHH-HHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEEC
Confidence            356899999999999999999999 99999988 666775 899999999999999999999983334444

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

Probab=99.25  E-value=2.4e-11  Score=99.81  Aligned_cols=62  Identities=23%  Similarity=0.333  Sum_probs=55.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|.       ||||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~~~-------~g~afV~f~~~~~A~~A~~~l~g~~~~   68 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLF-EQYGKVLECDII-------KNYGFVHIEDKTAAEDAIRNLHHYKLH   68 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHH-HTSSCEEEEEEE-------TTEEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHH-HhCCCEEEEEEE-------CCEEEEEECCHHHHHHHHHHhcCCccC
Confidence            457899999999999999999999 999999999986       6999999999999999998765 3444

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.25  E-value=7.3e-12  Score=109.58  Aligned_cols=67  Identities=18%  Similarity=0.205  Sum_probs=58.0

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCC-CeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeec
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFG-DVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKS  186 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG-~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~  186 (534)
                      ....+|||+|||+++|+++|+++| +.|| .|..+.|..+   .++|||||+|.+.++|.+||+..+ .++..
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F-~~~G~~v~~v~i~~~---~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLA-RENSLETTFSSVNTR---DFDGTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHH-HHHTCCCSEEECSSC---SSSCCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHH-HHhCCeeEEEEEEcC---CCCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            346899999999999999999999 9999 8999988643   489999999999999999998765 44543

>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=99.25  E-value=1.5e-11  Score=102.33  Aligned_cols=65  Identities=20%  Similarity=0.190  Sum_probs=57.5

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..+     ||||||+|.+.++|.+||+..+ ..+.
T Consensus        14 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~v~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~   79 (97)
T 1why_A           14 ANPTTRLWVGGLGPNTSLAALAREF-DRFGSIRTIDHVKG-----DSFAYIQYESLDAAQAACAKMRGFPLG   79 (97)
T ss_dssp             CCCCSCEEEECCCSSCCHHHHHHHH-HTTSCEEEEEECSS-----SCCEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeeEEEEeCC-----CCEEEEEECCHHHHHHHHHHHCCCEeC
Confidence            3456899999999999999999999 99999999999873     8999999999999999999755 3443

>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=99.25  E-value=7.1e-12  Score=118.57  Aligned_cols=73  Identities=15%  Similarity=0.008  Sum_probs=64.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQVr   97 (534)
                      ..++|||+|||+++|+++|+++|++||+|..+.++++.. + ++||||||+| ++ +|++|++.....+.++.+.|.
T Consensus       108 ~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~-~-~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~  182 (193)
T 2voo_A          108 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-K-AFKGSIFVVFDSIESAKKFVETPGQKYKETDLLIL  182 (193)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-C-CEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEE
T ss_pred             ccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC-C-CcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEE
Confidence            468999999999999999999999999999999998765 5 8999999999 66 999999876667777877776

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.24  E-value=1.6e-11  Score=102.75  Aligned_cols=69  Identities=29%  Similarity=0.278  Sum_probs=58.7

Q ss_pred             CCCCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         113 TKLEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       113 ~~~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ....+.++|||+|||..+|+++|+++| +.|+   .+.|+.|+ ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F-~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   80 (102)
T 2fc8_A           10 ARSQPSKTLFVKGLSEDTTEETLKESF-DGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEID   80 (102)
T ss_dssp             SSSCCCSSEEEECCCTTCCHHHHHHTS-TTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCCCEEEEeCCCCccCHHHHHHHh-cCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            344567999999999999999999999 6664   67778886 89999999999999999999999754 4444

>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=99.24  E-value=3.9e-12  Score=104.18  Aligned_cols=58  Identities=21%  Similarity=0.267  Sum_probs=52.6

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      +.++|||+|||..+|+++|+++| +.||.|..+.|..+    +||||||+|.+.++|.+|+..
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~~~~~   61 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFF-SQYGDVMDVFIPKP----FRAFAFVTFADDQIAQSLCGE   61 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHS-TTTSCCCEEECCSS----CCSCCEEECSCHHHHHHTTTC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHH-HHcCCeeEEEEecC----CCCEEEEEECCHHHHHHHhcC
Confidence            46899999999999999999999 99999999999875    799999999999999876543

>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=3.2e-11  Score=100.71  Aligned_cols=70  Identities=10%  Similarity=0.043  Sum_probs=58.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhcc--CCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQF--GPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGR   93 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqF--G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~   93 (534)
                      ......++|||+|||+++|+++|+++|++|  |.|..+.++         ||||||+| +. +|++|++ +....+.++.
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~   80 (99)
T 2cpd_A           10 DTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI---------RDYAFVHFSNREDAVEAMKALNGKVLDGSP   80 (99)
T ss_dssp             SCSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC---------SSEEEEEESSHHHHHHHHHHHSSEEETTEE
T ss_pred             cccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe---------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            445567899999999999999999999999  889877653         57999999 55 8888888 5667777777


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        81 l~v~   84 (99)
T 2cpd_A           81 IEVT   84 (99)
T ss_dssp             EEEE
T ss_pred             EEEE
Confidence            7776

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

Probab=99.24  E-value=3.3e-11  Score=112.64  Aligned_cols=70  Identities=17%  Similarity=0.335  Sum_probs=63.6

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+..+|||+|||..+++++|+++| +.||.|+.|.|..|+++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        85 ~~~~~~l~V~nLp~~~te~~L~~~F-~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~  155 (177)
T 2f3j_A           85 VETGAKLLVSNLDFGVSDADIQELF-AEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLD  155 (177)
T ss_dssp             CTTCEEEEEECCCSCCCHHHHHHHH-HHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 89999999999999999999999999999999999999755 4444

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

Probab=99.24  E-value=1.6e-11  Score=106.35  Aligned_cols=68  Identities=18%  Similarity=0.026  Sum_probs=55.2

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCC--CCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATE--GNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr--~i~~k~VQVr   97 (534)
                      -+++|||+|||+++||++|+++|++||+|..+.+++       .||||||+| ++ +|++|++. ...  .+.++.+.|.
T Consensus        20 ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~-------~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~   92 (100)
T 3r27_A           20 ASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP-------KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVN   92 (100)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET-------TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc-------CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEE
Confidence            357899999999999999999999999999998875       368999999 55 88888875 222  2556666554

>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=99.24  E-value=1.3e-11  Score=106.39  Aligned_cols=69  Identities=12%  Similarity=-0.047  Sum_probs=58.3

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++|+++|+++|++||.|..+.+++       +||||||+| +. +|++|++. .+..+.++.+.|.
T Consensus         8 ~~~~~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            8 RSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-------GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLE   79 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-------SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC-------CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            3468999999999999999999999999999888764       468999999 55 88888874 6777777777765

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

Probab=99.23  E-value=1.7e-11  Score=102.24  Aligned_cols=68  Identities=18%  Similarity=0.211  Sum_probs=57.1

Q ss_pred             CCccCeEEEeCCCC-CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          21 EILSNKIFIGGVPW-DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        21 p~~SrKVFVGNLP~-diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      ....++|||||||+ ++||++|+++|++||+|..+.+.         ||||||+| +. +|++|++. ....+.++.+.|
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~---------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V   77 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK---------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLIL   77 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE---------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe---------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEE
Confidence            34568999999999 99999999999999999998873         58999999 55 88888884 677777787777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        78 ~   78 (96)
T 2kvi_A           78 E   78 (96)
T ss_dssp             E
T ss_pred             E
Confidence            6

>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=99.23  E-value=5.4e-12  Score=104.49  Aligned_cols=71  Identities=11%  Similarity=0.017  Sum_probs=59.7

Q ss_pred             ccCeEEEeCCCCCCCHHHHH----HHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLL----TVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLr----e~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .+++|||+|||+++|+++|+    ++|++||.|..+.+++   ++ +++|||||+| +. +|++|++. .+..+.++.+.
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~---~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   82 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SL-KMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMR   82 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH---HH-HHTTCEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc---CC-CcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEE
Confidence            46899999999999999999    9999999999988874   34 6789999999 55 88888874 66667777776


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      +.
T Consensus        83 v~   84 (97)
T 1nu4_A           83 IQ   84 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.23  E-value=1.2e-11  Score=107.11  Aligned_cols=65  Identities=26%  Similarity=0.320  Sum_probs=56.5

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceeeccc
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVKSGR  188 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk~~k  188 (534)
                      ...+|||+|||.++|+++|+++| +.||.|+.|.|..|      |||||+|.+.++|.+||+..+ .++....
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 SENRVVVSGLPPSGSWQDLKDHM-REAGDVCYADVYRD------GTGVVEFVRKEDMTYAVRKLDNTKFRSHE   80 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHH-GGGSCEEEEEECTT------SEEEEEESSHHHHHHHHHHHTTCBCCCTT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEecC------CEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            45889999999999999999999 99999999999886      999999999999999999765 4454433

>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=99.23  E-value=1.3e-11  Score=105.12  Aligned_cols=69  Identities=14%  Similarity=0.098  Sum_probs=57.6

Q ss_pred             CCCccCeEEEeCCCCC-CCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          20 DEILSNKIFIGGVPWD-TPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~d-iTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      .....++|||+|||++ +||++|+++|++||+|..+.+         +||||||+| ++ +|++|++. ....+.++.+.
T Consensus        23 ~~~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i---------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~   93 (110)
T 1wf1_A           23 PKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV---------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLD   93 (110)
T ss_dssp             CTTCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE---------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECC
T ss_pred             CCCCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE---------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence            4445689999999999 999999999999999999887         368999999 44 88888854 66677777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        94 V~   95 (110)
T 1wf1_A           94 IN   95 (110)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

>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=99.23  E-value=1.7e-11  Score=102.40  Aligned_cols=65  Identities=17%  Similarity=0.218  Sum_probs=57.6

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|..     .||||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~i~~v~~~~-----~kg~afV~f~~~~~a~~a~~~l~g~~~~   77 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLF-EKYGKAGEVFIHK-----DKGFGFIRLETRTLAEIAKVELDNMPLR   77 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHT-STTCCCSEEEEET-----TTTEEEEECSSSHHHHHHHHHHTTCCBT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-hhcCCeEEEEEec-----CCCEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            3456899999999999999999999 9999999999986     48999999999999999998755 4443

>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=99.22  E-value=3.3e-12  Score=109.12  Aligned_cols=69  Identities=20%  Similarity=0.229  Sum_probs=57.6

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.+..+. ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f-~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   93 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLF-ARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLY   93 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHT-HHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            457899999999999999999999 999999544333333 78899999999999999999999754 4443

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

Probab=99.22  E-value=2.2e-11  Score=108.78  Aligned_cols=64  Identities=16%  Similarity=0.258  Sum_probs=56.8

Q ss_pred             CCCCceeEeccccCcCCHHHHH----HHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLTAQALY----NVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLr----eiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+..+|||||||..+++++|+    ++| +.||.|+.|.|.  .++.+||||||+|.+.++|.+||+..+
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F-~~~G~I~~v~i~--~~~~~rG~aFV~F~~~~~A~~Ai~~ln   93 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALA-SSQGDILDIVVD--LSDDNSGKAYIVFATQESAQAFVEAFQ   93 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHH-HHHSCEEEEEEC--CCCSSCCCEEEEESSHHHHHHHHHHST
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHh-ccCCCeEEEEec--cCCCcCCEEEEEECCHHHHHHHHHHHC
Confidence            4567899999999999999876    689 999999988774  467899999999999999999998865

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

Probab=99.22  E-value=7.3e-12  Score=114.09  Aligned_cols=73  Identities=15%  Similarity=0.089  Sum_probs=62.0

Q ss_pred             cCeEEEeCC----CCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-h-----H-H---HHHHHhh---cC
Q psy3698          24 SNKIFIGGV----PWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-S-----E-L---VLILGQW---AT   86 (534)
Q Consensus        24 SrKVFVGNL----P~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-s-----E-s---AeaALq~---ss   86 (534)
                      +.+||||||    |+.++|++|+++|++||+|..+.++.|+.|| ++||||||+| .     + +   |.+|+..   ..
T Consensus         2 p~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg-~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng   80 (136)
T 2j8a_A            2 SCEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSA-LPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSG   80 (136)
T ss_dssp             CCEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTC-CEEEEEEEECC------CCHHHHHHHHHHHTTTTC
T ss_pred             CcEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCC-ceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcC
Confidence            378999999    9999999999999999999999999999999 9999999999 4     3 3   6777662   55


Q ss_pred             CCCccccceec
Q psy3698          87 EGNLCGRVEVV   97 (534)
Q Consensus        87 r~i~~k~VQVr   97 (534)
                      ..+.++.+.|.
T Consensus        81 ~~I~Gr~irV~   91 (136)
T 2j8a_A           81 CFIMGFKFEVI   91 (136)
T ss_dssp             EEETTEEEEEE
T ss_pred             CeecCcEEEEE
Confidence            56666666664

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

Probab=99.21  E-value=1.2e-11  Score=105.45  Aligned_cols=66  Identities=14%  Similarity=-0.030  Sum_probs=53.5

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      +.-||||||++.+||++|+++|.+||+|..+.+..       +||||||+| ++ +|++|++. +...+.++.+.|
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V   75 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-------NQGIALCKYTTREEANKAQMALNNCVLANTTIFA   75 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-------TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-------CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEE
Confidence            57899999999999999999999999999988854       689999999 66 88888875 444444444443

>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=99.21  E-value=3e-11  Score=103.37  Aligned_cols=63  Identities=13%  Similarity=0.310  Sum_probs=57.3

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ++.++|||+|||..+|+++|+++| +.||.|..+.|..|.  .++|||||+|.+.++|.+||+..+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~v~i~~~~--~~~g~afV~f~~~~~A~~A~~~l~   68 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIF-GKYGPIRQIRVGNTP--ETRGTAYVVYEDIFDAKNAVDHLS   68 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHH-HTTSCEEEEEEECST--TTTTCEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEeeCC--CCCcEEEEEECCHHHHHHHHHHcC
Confidence            456899999999999999999999 999999999998764  459999999999999999999754

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

Probab=98.85  E-value=1.2e-12  Score=112.69  Aligned_cols=65  Identities=20%  Similarity=0.230  Sum_probs=60.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEE--------EEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVY--------AGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~--------V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..        +.|..|+ ++.++|||||+|.+.++|.+||+..+
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~   78 (116)
T 2lcw_A            5 SDNNTIFVQGLGENVTIESVADYF-KQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFD   78 (116)
Confidence            456889999999999999999999 99999999        8999996 89999999999999999999998644

>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=99.21  E-value=3.1e-11  Score=102.69  Aligned_cols=64  Identities=17%  Similarity=0.310  Sum_probs=57.2

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..|.|..+     +|||||+|.+.++|.+||+..+ ..+.
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F-~~~G~i~~v~i~~~-----~g~afV~f~~~~~a~~A~~~l~g~~~~   87 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTF-SPFGQIMEIRVFPE-----KGYSFVRFSTHESAAHAIVSVNGTTIE   87 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHH-HHHSCEEEEEEETT-----TTEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEeCC-----CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            346899999999999999999999 99999999999985     8999999999999999998754 4444

>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=99.21  E-value=9.8e-12  Score=102.57  Aligned_cols=69  Identities=12%  Similarity=-0.042  Sum_probs=55.7

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCC-eeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cC-CCCccccce
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGP-VKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-AT-EGNLCGRVE   95 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~-V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ss-r~i~~k~VQ   95 (534)
                      ....++|||||||+++||++|+++|++||. |..+.+        .++|||||+| ++ +|++|++. .. ..+.++.+.
T Consensus         5 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~--------~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~   76 (93)
T 2cqh_A            5 SSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVL--------LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIME   76 (93)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEE--------EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEE--------cCCCEEEEEECCHHHHHHHHHHccCCeeECCEEEE
Confidence            345689999999999999999999999999 554444        2478999999 55 88888874 55 677788877


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        77 v~   78 (93)
T 2cqh_A           77 VD   78 (93)
T ss_dssp             EE
T ss_pred             EE
Confidence            76

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

Probab=99.21  E-value=3.6e-11  Score=98.80  Aligned_cols=69  Identities=17%  Similarity=0.019  Sum_probs=58.8

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .+...++|||+|||+++|+++|+++|++||+|..+.+++         |||||+| +. +|++|++. ....+.++.+.|
T Consensus         5 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~---------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   75 (90)
T 2dnp_A            5 SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK---------DYAFVHMEKEADAKAAIAQLNGKEVKGKRINV   75 (90)
T ss_dssp             SSCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS---------SCEEEEESCHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC---------CEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            345578999999999999999999999999999998874         4999999 55 88888874 667777787777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        76 ~   76 (90)
T 2dnp_A           76 E   76 (90)
T ss_dssp             E
T ss_pred             E
Confidence            6

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

Probab=99.21  E-value=2.6e-11  Score=101.47  Aligned_cols=63  Identities=16%  Similarity=0.138  Sum_probs=56.3

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..++|||+|||..+|+++|+++| +.||.|..+.|..     +||||||+|.+.++|.+||+..+ ..+.
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f-~~~G~i~~~~~~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~   89 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLF-QNFGFILDFKHYP-----EKGCCFIKYDTHEQAAVCIVALANFPFQ   89 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHH-HTTSCCSEEEEET-----TTTEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCEEEEcCCCcccCHHHHHHHH-HhCCCEEEEEEec-----CCCEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            35899999999999999999999 9999999999884     78999999999999999998755 4443

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

Probab=99.21  E-value=3.3e-11  Score=110.14  Aligned_cols=76  Identities=16%  Similarity=0.069  Sum_probs=66.6

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      +...++|||+|||+++|+++|+++|++||.|..+.+++++.++ +++|||||+| +. +|++|++. .+..+.++.+.+.
T Consensus       111 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~-~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  189 (198)
T 2yh0_A          111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATG-LSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQ  189 (198)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTC-SEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCC-CcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3567899999999999999999999999999999999998777 8999999999 55 88888874 7777777777776

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

Probab=99.20  E-value=1.6e-11  Score=102.73  Aligned_cols=58  Identities=22%  Similarity=0.323  Sum_probs=54.3

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+|||+|||..+|+++|+++| +.||.|..+.|..|    ++|||||+|.+.++|.+||+..+
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F-~~~G~i~~v~i~~~----~~g~afV~f~~~~~a~~A~~~l~   58 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAF-SYYGPLRTVWIARN----PPGFAFVEFEDPRDAEDAVRGLD   58 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHH-HHHCCCSEEEEESS----SSSEEEEECSSHHHHHHHHHHHH
T ss_pred             CEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEeeC----CCCEEEEEECCHHHHHHHHHHHC
Confidence            379999999999999999999 99999999999987    79999999999999999999743

>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=99.20  E-value=2.9e-11  Score=101.87  Aligned_cols=67  Identities=16%  Similarity=0.119  Sum_probs=57.1

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ...++|||+|||+++||++|+++|++||+|..+.++         ||||||+| ++ +|++|++. ....+.++.+.|.
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~---------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   78 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL---------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIV   78 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC---------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE---------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEE
Confidence            346899999999999999999999999999998876         36999999 55 88888884 6667777777776

>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=99.20  E-value=2.2e-11  Score=129.00  Aligned_cols=76  Identities=21%  Similarity=0.141  Sum_probs=65.9

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceec
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVV   97 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVr   97 (534)
                      ....++|||||||+++|+++|+++|++||+|..+.|+.+..++ .++|||||+| +. +|++||+. ++..|.++.|.|.
T Consensus        99 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~  177 (437)
T 3pgw_S           99 GDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSG-KPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVD  177 (437)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCC-CccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3445899999999999999999999999999999999998888 9999999999 55 88888865 6667777777665

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

Probab=99.20  E-value=1.7e-11  Score=101.54  Aligned_cols=66  Identities=15%  Similarity=0.190  Sum_probs=56.9

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+    +.++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F-~~~g~v~~~----~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   79 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVF-EDALEIRLV----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEID   79 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHH-CSEEEECCE----EETTEEEEEEEEEESSHHHHHHHHHHTTEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-hhCCcEEEe----CCCCCcceEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 899988665    4578899999999999999999999765 3443

>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=99.20  E-value=1.9e-11  Score=108.20  Aligned_cols=60  Identities=15%  Similarity=0.094  Sum_probs=55.1

Q ss_pred             CCCceeEe--ccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFV--GALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFV--GNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+.++|||  |||+..+|+++|+++| ++||.|..|.|..     .||||||+|.+.++|.+||++++
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F-~~fG~v~~v~i~~-----~rgfaFV~f~~~~~A~~Ai~~ln   84 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVL-EKCGLVDALLMPP-----NKPYSFARYRTTEESKRAYVTLN   84 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHH-HHHSCEEEEECCT-----TCSCEEEEESSHHHHHHHHHHTT
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHH-HhcCCeEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhC
Confidence            46789999  8899999999999999 9999999998865     48999999999999999999876

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

Probab=99.20  E-value=2e-11  Score=104.13  Aligned_cols=58  Identities=12%  Similarity=0.062  Sum_probs=54.9

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..-||||||++.+|+++|+++| .+||+|..+.+..     +||||||+|.+.++|.+||+..+
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF-~q~G~V~~~~l~~-----~kGfaFVey~~~~eA~~Ai~~Ln   64 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLC-MQHGPLVSFHPYL-----NQGIALCKYTTREEANKAQMALN   64 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHH-HHHSCEEEEEEET-----TTTEEEEEESSHHHHHHHHHHHT
T ss_pred             cceEEEeCCCccCCHHHHHHHH-HhhCCEEEEEEcC-----CCcEEEEEECCHHHHHHHHHHhc
Confidence            4579999999999999999999 9999999999977     89999999999999999999976

>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=99.20  E-value=4.3e-12  Score=113.00  Aligned_cols=78  Identities=10%  Similarity=-0.060  Sum_probs=61.2

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEE--eecCC---CCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVE--WPQGT---PESPTAPKAISLDVI-SE-LVLILGQ-WATEGNL   90 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v--~~~rD---~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~   90 (534)
                      .....+++|||||||+++|+++|+++|++||.|..+  .++.+   ..++ +++|||||+| +. +|++||+ +.+..+.
T Consensus        40 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g-~~~g~afV~f~~~~~A~~Ai~~lng~~~~  118 (143)
T 3egn_A           40 EPGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEG-RMKGQAFIGLPNEKAAAKALKEANGYVLF  118 (143)
T ss_dssp             CCCSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEET-TTEEEEEEECSSHHHHHHHHHHHTTBEET
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCC-CcccEEEEEeCCHHHHHHHHHHhCCCEeC
Confidence            344556899999999999999999999999998764  12222   2345 8899999999 55 8888888 4677777


Q ss_pred             cccceec
Q psy3698          91 CGRVEVV   97 (534)
Q Consensus        91 ~k~VQVr   97 (534)
                      ++.+.|.
T Consensus       119 g~~l~V~  125 (143)
T 3egn_A          119 GKPMVVQ  125 (143)
T ss_dssp             TEECEEE
T ss_pred             CcEEEEE
Confidence            7777776

>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=99.20  E-value=5.5e-11  Score=100.02  Aligned_cols=59  Identities=20%  Similarity=0.381  Sum_probs=54.1

Q ss_pred             CCCCceeEeccccC-cCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHG-RLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~-~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||. .+++++|+++| +.||.|..+.|       +||||||+|.+.++|.+||+..+
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F-~~~G~v~~v~i-------~~g~afV~f~~~~~A~~Ai~~l~   78 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIF-SPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIEXES   78 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHH-GGGSCEEEEEE-------CSSEEEEEESSHHHHHHHHHHHT
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHH-HhcCCEEEEEE-------eCCEEEEEECCHHHHHHHHHHcC
Confidence            34578999999998 99999999999 99999999988       38999999999999999999755

>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=99.19  E-value=5.2e-11  Score=100.34  Aligned_cols=63  Identities=17%  Similarity=0.199  Sum_probs=55.7

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..|.|.       +|||||+|.+.++|.+||+..+ .++.
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F-~~~G~i~~v~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~   71 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAF-SQFGKLERVKKL-------KDYAFIHFDERDGAVKAMEEMNGKDLE   71 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHH-HHHSCEEEEEEC-------SSCEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEE-------CCEEEEEeCCHHHHHHHHHHHCCCccC
Confidence            3567899999999999999999999 999999999886       5799999999999999999754 4444

>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=99.19  E-value=1e-11  Score=102.77  Aligned_cols=67  Identities=16%  Similarity=0.329  Sum_probs=58.8

Q ss_pred             CCCceeEeccccCcCCHHHHH----HHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALY----NVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLr----eiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+    ++| +.||.|..+.|..  ++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~l~~~f-~~~G~i~~v~i~~--~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~   77 (97)
T 1nu4_A            6 RPNHTIYINNLNEKIKKDELKKSLHAIF-SRFGQILDILVSR--SLKMRGQAFVIFKEVSSATNALRSMQGFPFY   77 (97)
T ss_dssp             CCCSEEEEESCCTTSCHHHHHHHHHHHH-GGGSCEEEEECCH--HHHHTTCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHH-HhCCCEEEEEEEc--CCCcCcEEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            457899999999999999999    999 9999999998863  56789999999999999999999754 4443

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.19  E-value=3.3e-11  Score=100.53  Aligned_cols=65  Identities=14%  Similarity=0.200  Sum_probs=55.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|. +.|..   +.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F-~~~G~v~-~~~~~---~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   82 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRAL-RELGSVP-LRLTW---QGPRRRAFLHYPDSAAAQQAVSCLQGLRLG   82 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHH-HHTTCCC-SEEEE---ETTTTEEEEECSSHHHHHHHHHHHTTCCSS
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHH-HhcCCEE-EEEEc---CCCCcEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            446899999999999999999999 9999996 56665   3689999999999999999998754 4443

>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=99.19  E-value=2.8e-11  Score=99.41  Aligned_cols=62  Identities=16%  Similarity=0.203  Sum_probs=55.2

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..++|||+|||..+|+++|+++| +.| .|..+.|+     .+||||||+|.+.++|.+||+..+ .++.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F-~~~-~v~~~~i~-----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   66 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLL-KDY-DLKYCYVD-----RNKRTAFVTLLNGEQAQNAIQMFHQYSFR   66 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHT-CSS-CCCCEEEE-----GGGTEEEECCSCHHHHHHHHHHHTTEEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-hhC-CeEEEEEe-----CCCcEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            35789999999999999999999 899 99999986     489999999999999999999765 4443

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

Probab=99.18  E-value=4.1e-11  Score=99.93  Aligned_cols=63  Identities=21%  Similarity=0.383  Sum_probs=54.8

Q ss_pred             CCCCceeEeccccC-cCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHG-RLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~-~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||. .+|+++|+++| +.||.|..+.|       +||||||+|.+.++|.+||+..+ ..+.
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F-~~~G~v~~v~i-------~~g~afV~f~~~~~A~~A~~~l~g~~~~   71 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIF-SPYGHIMQINI-------KNAFGFIQFDNPQSVRDAIECESQEMNF   71 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHH-TTTCCCCEEEE-------ETTEEEEEESCHHHHHHHHHHHTCSSCB
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHH-HhcCCEEEEEE-------eCCEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            35678999999998 99999999999 99999999988       37999999999999999999754 3443

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

Probab=99.18  E-value=3.7e-11  Score=99.09  Aligned_cols=69  Identities=14%  Similarity=0.056  Sum_probs=58.2

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccccee
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEV   96 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQV   96 (534)
                      .+...++|||+|||+++|+++|+++|++||+|..+.+++         +||||+| +. +|++|++. ....+.++.+.|
T Consensus         6 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~---------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   76 (92)
T 2dgt_A            6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK---------DYAFVHMERAEDAVEAIRGLDNTEFQGKRMHV   76 (92)
T ss_dssp             CCCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS---------SEEEEEESCHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC---------CEEEEEECCHHHHHHHHHHhCCCeeCCcEEEE
Confidence            345568999999999999999999999999999988874         4999999 55 88888864 666777777777


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        77 ~   77 (92)
T 2dgt_A           77 Q   77 (92)
T ss_dssp             E
T ss_pred             E
Confidence            6

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

Probab=99.18  E-value=6.5e-11  Score=97.95  Aligned_cols=71  Identities=14%  Similarity=-0.025  Sum_probs=59.8

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhccCCeeEE-eecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVE-WPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v-~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      ...++|||||||+++|+++|+++|++||+|..+ .+++++.++     .|||+| ++ +|++|++ +.+..+.++.+.|.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~-----~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~   87 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETA-----VVNVTYSSKDQARQALDKLNGFQLENFTLKVA   87 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSE-----EEEEEESSHHHHHHHHHHHTTCBCSSCBCEEE
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCC-----EEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            346899999999999999999999999999999 588876644     499999 55 8888887 47777778877776

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

Probab=99.17  E-value=9e-11  Score=97.32  Aligned_cols=64  Identities=16%  Similarity=0.190  Sum_probs=53.7

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCCHHHHHHHHHhcCceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d~EsA~kAIea~~veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..|  ..|+ ++.   ||||+|.+.++|.+||+.....+.
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F-~~~G~v~~v--~~~~~~g~---~afV~f~~~~~a~~ai~l~g~~~~   70 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYF-LAFGPVASV--VMDKDKGV---FAIVEMGDVGAREAVLSQSQHSLG   70 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHG-GGTSCEEEE--EECSSSCC---EEEEEESSHHHHHHHHTCSCCEET
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHH-HhcCCeEEE--EEcCCCCc---EEEEEECCHHHHHHHHhcCCeEEC
Confidence            345799999999999999999999 999999987  4444 554   999999999999999993334444

>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=99.17  E-value=4.9e-11  Score=96.60  Aligned_cols=63  Identities=19%  Similarity=0.270  Sum_probs=55.4

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcC----C-------CeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ce
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLF----G-------DVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IE  183 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~F----G-------~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-ve  183 (534)
                      .+.++|||+|||..+|+++|+++| +.|    |       .|..+.+..     .||||||+|.+.++|.+|| ..+ ..
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~~~~~g~~~~~~~~v~~~~~~~-----~kg~afV~f~~~~~a~~A~-~l~g~~   76 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFF-NAQMRLGGLTQAPGNPVLAVQINQ-----DKNFAFLEFRSVDETTQAM-AFDGII   76 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHH-HHHHHHTTCCSSSSCSEEEEEECS-----SSSEEEEEESSHHHHHHHG-GGTTCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHHhhhcccccCCCCcceEEEecC-----CCcEEEEEcCCHHHHHHHH-hcCCCE
Confidence            356899999999999999999999 899    8       999999987     4899999999999999999 544 44


Q ss_pred             ee
Q psy3698         184 VK  185 (534)
Q Consensus       184 Ik  185 (534)
                      +.
T Consensus        77 ~~   78 (87)
T 2hzc_A           77 FQ   78 (87)
T ss_dssp             ET
T ss_pred             EC
Confidence            44

>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=99.17  E-value=2e-11  Score=100.31  Aligned_cols=67  Identities=12%  Similarity=0.058  Sum_probs=56.3

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCccccceec
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEVV   97 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQVr   97 (534)
                      ..++|||||||+++||++|+++|++| +|..+.+.       ++||||||+| ++ +|++|++ +.+..+.++.+.+.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~-------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~   73 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD-------RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQ   73 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE-------GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe-------CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEE
Confidence            35899999999999999999999999 89887773       4689999999 55 8888887 46666777777765

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

Probab=99.16  E-value=1.3e-10  Score=97.00  Aligned_cols=63  Identities=13%  Similarity=0.112  Sum_probs=55.2

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcC--CCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLF--GDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~F--G~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.|  |.|..+.+       +||||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~g~g~v~~~~~-------~~g~afV~f~~~~~A~~A~~~l~g~~~~   77 (99)
T 2cpd_A           12 MSSVKILYVRNLMLSTSEEMIEKEF-NNIKPGAVERVKK-------IRDYAFVHFSNREDAVEAMKALNGKVLD   77 (99)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHH-HTTSTTCEEEEEE-------CSSEEEEEESSHHHHHHHHHHHSSEEET
T ss_pred             cCCcCEEEEeCCCCCCCHHHHHHHH-HhcCCcceEEEEE-------eCCeEEEEeCCHHHHHHHHHHhCCCEeC
Confidence            4567899999999999999999999 999  99999876       47899999999999999999765 4443

>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=99.16  E-value=4.2e-11  Score=103.23  Aligned_cols=59  Identities=14%  Similarity=0.065  Sum_probs=54.5

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..++|||+|||..+|+++|+++| +.||.|..|.|..     +||||||+|.+.++|.+||+..+
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F-~~~G~i~~v~i~~-----~~g~afV~f~~~~~A~~Ai~~l~   67 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETF-SRFGSLGRVLLPE-----GGITAIVEFLEPLEARKAFRHLA   67 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHH-HTTSCEEEEECCS-----SSSCEEEEESCHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHH-HhcCCEEEEEEeC-----CCCEEEEEeCCHHHHHHHHHHhC
Confidence            35789999999999999999999 9999999998875     78999999999999999999865

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

Probab=99.16  E-value=1.2e-10  Score=96.02  Aligned_cols=63  Identities=19%  Similarity=0.213  Sum_probs=55.6

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|.       ++||||+|.+.++|.+||+..+ .++.
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~v~~v~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~   70 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKF-EEYGPVIECDIV-------KDYAFVHMERAEDAVEAIRGLDNTEFQ   70 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHH-HTTSCCCEEEEC-------SSEEEEEESCHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HhcCCeEEEEEE-------CCEEEEEECCHHHHHHHHHHhCCCeeC
Confidence            3567899999999999999999999 999999999986       4599999999999999998755 4444

>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=99.15  E-value=2.9e-11  Score=99.75  Aligned_cols=63  Identities=14%  Similarity=0.128  Sum_probs=53.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCC-eEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC--ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGD-VVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF--IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~-Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~--veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||. |..+.+ .     ++|||||+|.+.++|.+||+..+  .++.
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F-~~~G~vv~~~~~-~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~   71 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLF-GDRKLPLAGQVL-L-----KSGYAFVDYPDQNWAIRAIETLSGKVELH   71 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHH-HHTTCCCSSCEE-E-----ETTEEEECCSCHHHHHHHHHHHTTTCEET
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHH-HHcCCceEEEEE-c-----CCCEEEEEECCHHHHHHHHHHccCCeeEC
Confidence            456899999999999999999999 99999 555544 2     58999999999999999999765  4554

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

Probab=99.15  E-value=8.1e-11  Score=101.15  Aligned_cols=62  Identities=16%  Similarity=0.203  Sum_probs=55.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+.++|||+|||..+|+++|+++| +.||.|..+.|.       ||||||+|.+.++|.+||+..+ ..+.
T Consensus        29 ~~~~~l~V~nLp~~~t~~~L~~~F-~~~G~i~~v~i~-------kg~afV~f~~~~~A~~Ai~~l~g~~~~   91 (108)
T 2jvo_A           29 LSNTRLFVRPFPLDVQESELNEIF-GPFGPMKEVKIL-------NGFAFVEFEEAESAAKAIEEVHGKSFA   91 (108)
T ss_dssp             CSCSEEEECSSCTTCCHHHHHHHH-TTTSCCCEEEEE-------TTEEEEECSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHH-HhcCCEEEEEEE-------CCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            456899999999999999999999 999999999987       7999999999999999999754 4443

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

Probab=99.14  E-value=1.3e-10  Score=95.51  Aligned_cols=63  Identities=22%  Similarity=0.195  Sum_probs=55.4

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+|||..+|+++|+++| +.||.|..+.|.       +|||||+|.+.++|.+||+..+ ..+.
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~~~~~-------~~~afV~f~~~~~a~~A~~~l~g~~~~   69 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLF-ERRGRVIECDVV-------KDYAFVHMEKEADAKAAIAQLNGKEVK   69 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHH-HHHSCEEEEEEC-------SSCEEEEESCHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHH-HcCCCEEEEEEE-------CCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            3456899999999999999999999 999999999986       4599999999999999999755 4444

>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=99.14  E-value=7.2e-11  Score=100.58  Aligned_cols=62  Identities=13%  Similarity=0.255  Sum_probs=55.1

Q ss_pred             CCCceeEeccccCc-CCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGR-LTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~-~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||+|||.. +|+++|+++| +.||.|..+.|       ++|||||+|.+.++|.+||+..+ ..+.
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F-~~~G~v~~v~i-------~~g~afV~f~~~~~A~~A~~~l~g~~~~   88 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIF-SKYGRVAGCSV-------HKGYAFVQYSNERHARAAVLGENGRVLA   88 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHH-GGGSCCSEEEE-------ETTEEEEECSSSHHHHHHHHHHTTCEET
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHH-HhCCCeEEEEE-------eCCEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            34589999999999 9999999999 99999999988       68999999999999999998755 4444

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

Probab=99.14  E-value=1.3e-10  Score=96.96  Aligned_cols=70  Identities=16%  Similarity=0.070  Sum_probs=57.3

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ..+...++|||+||  ++||++|+++|++||+|..+.+.       ++||||||+| +. +|++||+. ....+.++.+.
T Consensus        10 ~~~~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~-------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~   80 (97)
T 1x5p_A           10 RAPRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD-------PPRNCAFVTYEKMESADQAVAELNGTQVESVQLK   80 (97)
T ss_dssp             CCCCCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE-------TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEE
T ss_pred             CCCCCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec-------CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            34556789999996  99999999999999999998873       5679999999 55 88888864 66666777777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus        81 v~   82 (97)
T 1x5p_A           81 VN   82 (97)
T ss_dssp             EE
T ss_pred             EE
Confidence            65

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

Probab=99.13  E-value=4.3e-11  Score=109.02  Aligned_cols=76  Identities=14%  Similarity=0.121  Sum_probs=60.2

Q ss_pred             ceeEeccc----cCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCCceEEEEEeCC----H-HH---HHHHHH--h-cCc
Q psy3698         119 KTIFVGAL----HGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYPIGSGRITFGS----T-RA---YSDAIR--A-AFI  182 (534)
Q Consensus       119 ktIFVGNL----P~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~pKGfGFVtF~d----~-Es---A~kAIe--a-~~v  182 (534)
                      .+||||||    |+.+++++|+++| +.||+|..+.+..|+ ||.|+|||||+|.+    . ++   |.+||.  + ...
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~F-s~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~   81 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYF-KKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGC   81 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHH-HTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHH-HhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCC
Confidence            57999999    9999999999999 899999999999999 99999999999996    3 22   788877  3 234


Q ss_pred             eeeccceeeeeeecc
Q psy3698         183 EVKSGRICKKLQIDP  197 (534)
Q Consensus       183 eIk~~k~~KrVeIkP  197 (534)
                      .|.+..  -+|++++
T Consensus        82 ~I~Gr~--irV~ln~   94 (136)
T 2j8a_A           82 FIMGFK--FEVILNK   94 (136)
T ss_dssp             EETTEE--EEEEECC
T ss_pred             eecCcE--EEEEECc
Confidence            444433  2455543

>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=99.13  E-value=3.2e-11  Score=107.29  Aligned_cols=69  Identities=20%  Similarity=0.208  Sum_probs=57.9

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEE--E----EecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYA--G----IDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V--~----I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .+..+|||+|||..+|+++|+++| +.||.|..+  .    |....++.++|||||+|.+.++|.+||+..+ ..+.
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F-~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~  118 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIF-GRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLF  118 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHH-GGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHH-HHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeC
Confidence            456899999999999999999999 999999875  1    2222488999999999999999999999765 4443

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

Probab=99.12  E-value=2.4e-10  Score=95.28  Aligned_cols=63  Identities=19%  Similarity=0.324  Sum_probs=54.9

Q ss_pred             CCCCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         115 LEPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ..+.++|||+||  .+|+++|+++| +.||.|..|.|.     .+||||||+|.+.++|.+||+..+ ..+.
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F-~~~G~i~~v~i~-----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   75 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAF-SPFGNIIDLSMD-----PPRNCAFVTYEKMESADQAVAELNGTQVE   75 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHH-TTTSCEEEEEEE-----TTTTEEEEEESSHHHHHHHHHHTTTEEET
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHH-hhCCCEEEEEec-----CCCCEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            345689999996  89999999999 999999999985     489999999999999999998755 4443

>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=99.09  E-value=9.6e-11  Score=103.66  Aligned_cols=58  Identities=16%  Similarity=0.094  Sum_probs=48.8

Q ss_pred             cCeEEE--eCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC
Q psy3698          24 SNKIFI--GGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG   88 (534)
Q Consensus        24 SrKVFV--GNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~   88 (534)
                      +++|||  |||++++||++|+++|++||+|..++++.       .||||||+| ++ +|++|++. +++.
T Consensus        25 t~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~-------~rgfaFV~f~~~~~A~~Ai~~lnG~~   87 (114)
T 2cq2_A           25 TQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-------NKPYSFARYRTTEESKRAYVTLNGKE   87 (114)
T ss_dssp             CSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT-------TCSCEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-------CCCEEEEEECCHHHHHHHHHHhCCCE
Confidence            578999  88999999999999999999999887754       268999999 55 88888874 4443

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

Probab=99.08  E-value=2.8e-10  Score=94.11  Aligned_cols=66  Identities=14%  Similarity=0.205  Sum_probs=55.8

Q ss_pred             CCCceeEeccccCcCCHHHHHHHhhhcCCCeEEE-EEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYA-GIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       116 d~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V-~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      ...++|||+|||..+|+++|+++| +.||.|..+ .|..|+.   .|.|||+|.+.++|.+||+..+ ..+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F-~~~G~v~~~~~i~~~~~---~~~afV~f~~~~~a~~Ai~~l~g~~~~   80 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLL-VQYGVVESCEQVNTDSE---TAVVNVTYSSKDQARQALDKLNGFQLE   80 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHH-HHHSCEEEEEEECCSSS---SEEEEEEESSHHHHHHHHHHHTTCBCS
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHH-HhcCCeEEEEEeecCCC---CCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            346889999999999999999999 999999999 4888762   2339999999999999998755 4443

>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=99.06  E-value=2.3e-10  Score=107.30  Aligned_cols=72  Identities=11%  Similarity=0.008  Sum_probs=57.6

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc--ccce
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC--GRVE   95 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~--k~VQ   95 (534)
                      +....+|||+||++++||++|+++|++||+|..+++..+     +++|||||+| ++ +|++|++. .+..+.+  +.+.
T Consensus        43 ps~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k-----~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~  117 (164)
T 1sjr_A           43 QSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK-----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLR  117 (164)
T ss_dssp             CCCEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEES-----SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEE
T ss_pred             CCceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeC-----CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEE
Confidence            334578999999999999999999999999999988643     3579999999 55 78878775 6666643  6666


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      |.
T Consensus       118 V~  119 (164)
T 1sjr_A          118 ID  119 (164)
T ss_dssp             EE
T ss_pred             EE
Confidence            64

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

Probab=99.03  E-value=8.2e-10  Score=99.82  Aligned_cols=64  Identities=17%  Similarity=0.096  Sum_probs=56.0

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceE-EEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGS-GRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGf-GFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      +.-.|||+||++.+|+++|+++| ++||.|..|.|..+    .||| |||+|.+.++|.+||+..+ .++.
T Consensus        27 ~VL~I~V~NL~~~vte~~L~~lF-s~yG~V~~V~i~~~----~~gfqAFVef~~~~~A~~Ai~~LnG~~i~   92 (130)
T 3zzy_A           27 PVLRIIVENLFYPVTLDVLHQIF-SKFGTVLKIITFTK----NNQFQALLQYADPVSAQHAKLSLDGQNIY   92 (130)
T ss_dssp             SEEEEEEESCCSCCCHHHHHHHH-TTSSCEEEEEEEEE----TTEEEEEEEESCHHHHHHHHHHHTTCEEE
T ss_pred             ceEEEEECCCCCCCCHHHHHHHH-hCcCCEEEEEEEcC----CCCcEEEEEECCHHHHHHHHHHcCCCeec
Confidence            34678999999999999999999 99999999988763    4788 9999999999999999876 4443

>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=99.03  E-value=5.4e-10  Score=104.77  Aligned_cols=61  Identities=18%  Similarity=0.092  Sum_probs=55.1

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...+|||+||++.+|+++|+++| ++||.|..|.|..+   .++|||||+|.+.++|.+||+..+
T Consensus        45 ~vl~l~VgNL~~~vted~L~~~F-s~fG~V~~V~i~~k---~~rgfAFVeF~d~~~A~~Ai~~Ln  105 (164)
T 1sjr_A           45 PVLRIIVENLFYPVTLDVLHQIF-SKFGTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLD  105 (164)
T ss_dssp             CEEEEEECSCCSCCCHHHHHHHH-HHHSCEEEEEEEES---SSCEEEEEEESCHHHHHHHHHHST
T ss_pred             ceEEEEEeCcCCCCCHHHHHHHH-HhcCCEEEEEEEeC---CCCCEEEEEECCHHHHHHHHHHhC
Confidence            34679999999999999999999 99999999998653   368999999999999999999866

>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=99.02  E-value=4.1e-10  Score=107.17  Aligned_cols=60  Identities=18%  Similarity=0.285  Sum_probs=55.3

Q ss_pred             CCceeEecccc-CcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALH-GRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP-~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      +..+|||+||| ..+|+++|+++| +.||.|..|+|+.|    .||||||+|.+.++|.+||+..+
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F-~~~G~v~~v~i~~~----~~g~afV~f~~~~~A~~Ai~~ln   63 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVF-CLYGNVEKVKFMKS----KPGAAMVEMADGYAVDRAITHLN   63 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHH-TTTSCEEEEEECTT----STTCEEEEESSHHHHHHHHHHHT
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHH-HhcCCeEEEEEecC----CCCEEEEEECCHHHHHHHHHHhC
Confidence            35789999999 899999999999 99999999999875    37999999999999999999765

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

Probab=98.99  E-value=4.9e-10  Score=110.71  Aligned_cols=74  Identities=16%  Similarity=0.144  Sum_probs=59.0

Q ss_pred             CccCeEEEeCCCCCC---------CHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCC
Q psy3698          22 ILSNKIFIGGVPWDT---------PEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGN   89 (534)
Q Consensus        22 ~~SrKVFVGNLP~di---------TEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i   89 (534)
                      ...++|||||||.++         ||++|+++|++||+|..+.++.       +||||||+| .+ +|++|++. .+..+
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~-------~kG~AFV~F~~~~~Ae~A~~am~g~~l  204 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE-------SKNCGFVKFKYQANAEFAKEAMSNQTL  204 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG-------GGTEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC-------CCCEEEEEeCCHHHHHHHHHHhCCCEE
Confidence            356899999999998         7999999999999999998875       379999999 55 88888764 66666


Q ss_pred             ------------ccccceecccccCC
Q psy3698          90 ------------LCGRVEVVPWAISD  103 (534)
Q Consensus        90 ------------~~k~VQVrPw~lsd  103 (534)
                                  .++.+.|+ |...+
T Consensus       205 ~~~~~~e~~~~~~gr~L~V~-wA~~~  229 (240)
T 3u1l_A          205 LLPSDKEWDDRREGTGLLVK-WANED  229 (240)
T ss_dssp             CCTTSTTGGGGGGSCCCEEE-ECC--
T ss_pred             eccccccccccCCCCEEEEE-EccCC
Confidence                        56677776 55443

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

Probab=98.98  E-value=8.8e-10  Score=95.11  Aligned_cols=74  Identities=8%  Similarity=-0.093  Sum_probs=60.1

Q ss_pred             cCeEEEeCCCC-----CCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccce
Q psy3698          24 SNKIFIGGVPW-----DTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVE   95 (534)
Q Consensus        24 SrKVFVGNLP~-----diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQ   95 (534)
                      ++.|+|.||..     +-++++|++.|++||+|..++|++++.+..++||||||+| +. +|++|++. +++.+.+|.+.
T Consensus         8 s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~   87 (105)
T 2pe8_A            8 TKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVK   87 (105)
T ss_dssp             CSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECE
T ss_pred             CCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEE
Confidence            68899999973     3479999999999999999999988654337899999999 55 77777764 77777888777


Q ss_pred             ec
Q psy3698          96 VV   97 (534)
Q Consensus        96 Vr   97 (534)
                      +.
T Consensus        88 v~   89 (105)
T 2pe8_A           88 AC   89 (105)
T ss_dssp             EE
T ss_pred             EE
Confidence            75

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

Probab=98.97  E-value=1.6e-09  Score=96.89  Aligned_cols=57  Identities=21%  Similarity=0.135  Sum_probs=51.5

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceE-EEEEeCCHHHHHHHHHhcC
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGS-GRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGf-GFVtF~d~EsA~kAIea~~  181 (534)
                      ..|||+||++.+|+++|+++| ++||.|..|.|.. +    .|| |||+|.+.++|.+||++++
T Consensus        26 l~l~V~NL~~~vt~~~L~~~F-s~yG~V~~v~i~~-~----~Gf~aFVef~~~~~A~~A~~~Ln   83 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVC-NPVGKVQRIVIFK-R----NGIQAMVEFESVLCAQKAKAALN   83 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHH-TTTSCEEEEEEEE-S----SSEEEEEEESSHHHHHHHHHHHT
T ss_pred             EEEEEcCcCCCCCHHHHHHHH-HhcCCEEEEEEEe-C----CCCEEEEEECCHHHHHHHHHHhC
Confidence            457899999999999999999 9999999999865 2    386 9999999999999999866

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

Probab=98.97  E-value=6.8e-10  Score=100.34  Aligned_cols=71  Identities=11%  Similarity=0.044  Sum_probs=54.4

Q ss_pred             CCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcE-EEEEe-hH-HHHHHHhh-cCCCCcc--cc
Q psy3698          20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAI-SLDVI-SE-LVLILGQW-ATEGNLC--GR   93 (534)
Q Consensus        20 ~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGY-AFVtF-sE-sAeaALq~-ssr~i~~--k~   93 (534)
                      .+..--+|||+||++.+||++|+++|++||+|..+++.++      .||| |||+| +. +|++|++. .+..+.+  +.
T Consensus        24 ~ps~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~------~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~   97 (130)
T 3zzy_A           24 GQSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTK------NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCT   97 (130)
T ss_dssp             -CCSEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEE------TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEE
T ss_pred             CCCceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcC------CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcE
Confidence            3344568999999999999999999999999999988752      3688 99999 55 77777775 5555543  44


Q ss_pred             cee
Q psy3698          94 VEV   96 (534)
Q Consensus        94 VQV   96 (534)
                      +.+
T Consensus        98 LrI  100 (130)
T 3zzy_A           98 LRI  100 (130)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            444

>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=98.96  E-value=8.1e-10  Score=105.38  Aligned_cols=62  Identities=19%  Similarity=0.240  Sum_probs=56.8

Q ss_pred             CCCCceeEeccccC-cCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHG-RLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~-~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||+|||. .+|+++|+++| +.||.|..|.|..|+    +|||||+|.+.++|.+||+..+
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F-~~~G~i~~v~i~~~~----~g~afV~F~~~~~A~~Ai~~l~   93 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILF-GVYGDVQRVKILFNK----KENALVQMADGNQAQLAMSHLN   93 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHH-HHHTCEEEEEECCTT----SCCEEEEESCHHHHHHHHHHHT
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHH-HhCCCeEEEEEEECC----CCEEEEEECCHHHHHHHHHHhC
Confidence            35678999999999 99999999999 999999999999875    8999999999999999998644

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

Probab=98.96  E-value=1.6e-09  Score=96.84  Aligned_cols=70  Identities=11%  Similarity=-0.057  Sum_probs=54.1

Q ss_pred             CCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcE-EEEEe-hH-HHHHHHhh-cCCCCcc--ccc
Q psy3698          21 EILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAI-SLDVI-SE-LVLILGQW-ATEGNLC--GRV   94 (534)
Q Consensus        21 p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGY-AFVtF-sE-sAeaALq~-ssr~i~~--k~V   94 (534)
                      +....+||||||++.+||++|+++|++||+|..+++.+.       +|| |||+| ++ +|++|++. .+..+.+  +.+
T Consensus        22 ps~vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~-------~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l   94 (124)
T 2e5i_A           22 GNKVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR-------NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTL   94 (124)
T ss_dssp             CCSEEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES-------SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEE
T ss_pred             CCcEEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC-------CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEE
Confidence            334457899999999999999999999999999988642       276 99999 55 77777764 6666654  344


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        95 ~V~   97 (124)
T 2e5i_A           95 KIE   97 (124)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            443

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

Probab=98.95  E-value=8.6e-10  Score=108.95  Aligned_cols=60  Identities=22%  Similarity=0.259  Sum_probs=55.7

Q ss_pred             CCCceeEeccccCcC---------CHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKTIFVGALHGRL---------TAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~ktIFVGNLP~~~---------TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ...++||||||+..+         ++++|+++| ++||.|+.|.|+.     +||||||+|.+.++|.+||++++
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F-~~fG~I~~v~v~~-----~kG~AFV~F~~~~~Ae~A~~am~  200 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVF-SRLGDIDRIRYVE-----SKNCGFVKFKYQANAEFAKEAMS  200 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHH-HTTSCEEEEEEEG-----GGTEEEEEESSHHHHHHHHHHHT
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHH-HccCCEEEEEEEC-----CCCEEEEEeCCHHHHHHHHHHhC
Confidence            456899999999998         799999999 9999999999987     69999999999999999998866

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

Probab=98.94  E-value=2.4e-09  Score=92.32  Aligned_cols=66  Identities=12%  Similarity=-0.017  Sum_probs=57.3

Q ss_pred             CCCceeEeccccC-----cCCHHHHHHHhhhcCCCeEEEEEecCC--CCCCceEEEEEeCCHHHHHHHHHhcCc
Q psy3698         116 EPGKTIFVGALHG-----RLTAQALYNVMNDLFGDVVYAGIDTDK--HKYPIGSGRITFGSTRAYSDAIRAAFI  182 (534)
Q Consensus       116 d~~ktIFVGNLP~-----~~TeedLreiF~s~FG~Vv~V~I~~Dk--TG~pKGfGFVtF~d~EsA~kAIea~~v  182 (534)
                      .+.++|+|.||-.     +-++++|++.| ++||.|..|.|..|+  ++.++|||||+|.+.++|.+||++.+.
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f-~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG   78 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEEC-EKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNG   78 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHG-GGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHH-HhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCC
Confidence            4578999999963     23789999999 999999999999986  478999999999999999999998763

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.91  E-value=3.3e-09  Score=91.63  Aligned_cols=62  Identities=11%  Similarity=0.077  Sum_probs=51.0

Q ss_pred             CeEEEeCCCCCCCHHH----HHHHhhcc-CCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHh-hcCCCCcccccee
Q psy3698          25 NKIFIGGVPWDTPEYL----LLTVFSQF-GPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQ-WATEGNLCGRVEV   96 (534)
Q Consensus        25 rKVFVGNLP~diTEee----Lre~FsqF-G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq-~ssr~i~~k~VQV   96 (534)
                      ..|||+|||+++++++    |+++|++| |+|..+       ++    |+|||+| .. +|++|++ +.+..+.+|++.+
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            3499999999999998    55899999 599886       33    8999999 44 8888886 4777888888877


Q ss_pred             c
Q psy3698          97 V   97 (534)
Q Consensus        97 r   97 (534)
                      .
T Consensus        79 ~   79 (96)
T 2diu_A           79 S   79 (96)
T ss_dssp             E
T ss_pred             E
Confidence            5

>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=98.90  E-value=1.8e-09  Score=111.75  Aligned_cols=61  Identities=13%  Similarity=0.043  Sum_probs=55.5

Q ss_pred             CCCCceeEecc--ccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGA--LHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGN--LP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|||||  |+..+|+++|+++| ++||.|..|.|+.     .||||||+|.+.++|.+||++.+
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F-~~~G~V~~v~~~~-----~kgfaFV~f~~~~~A~~Ai~~ln   77 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVL-EKCGLVDALLMPP-----NKPYSFARYRTTEESKRAYVTLN   77 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHH-HTTSCEEEEECCT-----TCSEEEEEESSHHHHHHHHHHTT
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHH-HhcCCeEEEEEeC-----CCCEEEEEECCHHHHHHHHHHhC
Confidence            45678999999  68999999999999 9999999987765     68999999999999999999977

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.90  E-value=3.4e-09  Score=91.51  Aligned_cols=56  Identities=18%  Similarity=0.146  Sum_probs=48.7

Q ss_pred             CCCce-eEeccccCcCCHHH----HHHHhhhcC-CCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         116 EPGKT-IFVGALHGRLTAQA----LYNVMNDLF-GDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       116 d~~kt-IFVGNLP~~~Teed----LreiF~s~F-G~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .+..| |||+|||..+++++    |+++| +.| |+|..|      ++   |+|||.|.+.++|.+||+.+.
T Consensus         6 ~p~~T~lYV~NL~~~~~~~~lk~~L~~lF-~~yGG~Vl~V------tg---G~AfV~F~~~esA~~A~~~l~   67 (96)
T 2diu_A            6 SGCHTLLYVYNLPANKDGKSVSNRLRRLS-DNCGGKVLSI------TG---CSAILRFINQDSAERAQKRME   67 (96)
T ss_dssp             CCSSEEEEEESCCTTSCHHHHHHHHHHHH-HTTTCCEEEC------CT---TCEEEEESSHHHHHHHHHHHT
T ss_pred             CCcceEEEEeCCCCcCCHHHHHHHHHHHH-HHcCCeeEEE------ec---CEEEEEECCHHHHHHHHHHhc
Confidence            45666 99999999999988    55899 999 599988      33   999999999999999998865

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

Probab=98.89  E-value=1e-09  Score=101.00  Aligned_cols=59  Identities=20%  Similarity=0.286  Sum_probs=54.7

Q ss_pred             CceeEeccccC-cCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         118 GKTIFVGALHG-RLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       118 ~ktIFVGNLP~-~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++|||+|||. .+|+++|+++| +.||.|..+.|..|+    +|||||+|.+.++|.+||+..+
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F-~~~G~i~~v~i~~~~----~g~afV~f~~~~~a~~A~~~l~   62 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILF-GVYGDVQRVKILFNK----KENALVQMADGNQAQLAMSHLN   62 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHH-HTTCCCSEEECSTTC----SSCCEEECTTTHHHHHHHHHHT
T ss_pred             CcEEEEeCCCcccCCHHHHHHHH-HhcCCEEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhC
Confidence            47899999999 99999999999 999999999998875    8899999999999999998644

>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=98.79  E-value=6.6e-09  Score=89.22  Aligned_cols=60  Identities=10%  Similarity=0.143  Sum_probs=52.9

Q ss_pred             EeccccCcCCHHHHHHHhh-----------hcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         122 FVGALHGRLTAQALYNVMN-----------DLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       122 FVGNLP~~~TeedLreiF~-----------s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      .++||+..+++++|++.|+           ++||.|..|.|..|+.+++||||||+|.+.++|.+||++.+
T Consensus        19 ~~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~ln   89 (104)
T 1jmt_A           19 SADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLN   89 (104)
T ss_dssp             --CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHT
T ss_pred             ccCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHC
Confidence            3788999999998887762           68999999999998888999999999999999999999866

>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=98.75  E-value=2e-08  Score=86.20  Aligned_cols=63  Identities=14%  Similarity=0.261  Sum_probs=52.7

Q ss_pred             CCCCceeEeccccCcCC-----------HHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         115 LEPGKTIFVGALHGRLT-----------AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       115 ~d~~ktIFVGNLP~~~T-----------eedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..+.++|+|.||....+           +++|+++| ++||.|..|.| .|+.  ++|||||+|.+.++|.+||+..+
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f-~~~G~v~~v~i-~~~~--~~G~afV~f~~~~~A~~Ai~~ln   85 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVEC-SKFGQIRKLLL-FDRH--PDGVASVSFRDPEEADYCIQTLD   85 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHG-GGTSCCSEEEE-ETTC--TTCEEEEECSCHHHHHHHHHHST
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHH-HccCCEeEEEE-ecCC--CCEEEEEEECCHHHHHHHHHHcC
Confidence            35678999999944332           58999999 99999999966 5543  89999999999999999998866

>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=98.72  E-value=2.6e-09  Score=91.82  Aligned_cols=67  Identities=6%  Similarity=-0.152  Sum_probs=54.5

Q ss_pred             EeCCCCCCCHHHHHHHh------------hccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcccc
Q psy3698          29 IGGVPWDTPEYLLLTVF------------SQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGR   93 (534)
Q Consensus        29 VGNLP~diTEeeLre~F------------sqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~   93 (534)
                      ++|||+++|+++|++.|            ++||+|..++++++.. + ++||||||+| ++ +|++|++. +++.+.+|.
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-D-HLVGNVYVKFRREEDAEKAVIDLNNRWFNGQP   97 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS-S-SSEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC-C-CccEEEEEEECCHHHHHHHHHHHCCCEECCEE
Confidence            67899999999888777            9999999999998865 5 8999999999 55 88888874 667777776


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.+.
T Consensus        98 i~v~  101 (104)
T 1jmt_A           98 IHAE  101 (104)
T ss_dssp             CCEE
T ss_pred             EEEE
Confidence            6553

>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=98.72  E-value=3.4e-08  Score=84.81  Aligned_cols=75  Identities=11%  Similarity=-0.088  Sum_probs=58.5

Q ss_pred             CCCCccCeEEEeCCCCCCC-----------HHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-
Q psy3698          19 SDEILSNKIFIGGVPWDTP-----------EYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-   84 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diT-----------EeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-   84 (534)
                      ..+..++.|+|.||....+           |++|+++|++||+|..+.| .++    .+||||||+| ++ +|++|++. 
T Consensus        10 ~~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~----~~~G~afV~f~~~~~A~~Ai~~l   84 (112)
T 2dit_A           10 SRMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDR----HPDGVASVSFRDPEEADYCIQTL   84 (112)
T ss_dssp             CCCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETT----CTTCEEEEECSCHHHHHHHHHHS
T ss_pred             CCCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecC----CCCEEEEEEECCHHHHHHHHHHc
Confidence            4566789999999944432           6899999999999999866 443    4689999999 55 88888864 


Q ss_pred             cCCCCccccceecc
Q psy3698          85 ATEGNLCGRVEVVP   98 (534)
Q Consensus        85 ssr~i~~k~VQVrP   98 (534)
                      .+..+.++.+.+..
T Consensus        85 ng~~~~gr~l~v~~   98 (112)
T 2dit_A           85 DGRWFGGRQITAQA   98 (112)
T ss_dssp             TTCEETTEECEEEE
T ss_pred             CCCEECCcEEEEEE
Confidence            66777778877763

>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=98.70  E-value=1.5e-08  Score=104.91  Aligned_cols=55  Identities=13%  Similarity=0.024  Sum_probs=47.1

Q ss_pred             ccCeEEEeC--CCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          23 LSNKIFIGG--VPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        23 ~SrKVFVGN--LP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      -+++|||||  |++.+||++|+++|++||+|..+++..       +||||||+| ++ +|++|++.
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            457899999  689999999999999999998876643       479999999 55 88888875

>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=98.67  E-value=3.5e-08  Score=84.94  Aligned_cols=66  Identities=14%  Similarity=0.087  Sum_probs=55.2

Q ss_pred             CCceeEeccc--cCcCC--------HHHHHHHhhhcCCCeEEEEEecCCC---CCCceEEEEEeCCHHHHHHHHHhcCce
Q psy3698         117 PGKTIFVGAL--HGRLT--------AQALYNVMNDLFGDVVYAGIDTDKH---KYPIGSGRITFGSTRAYSDAIRAAFIE  183 (534)
Q Consensus       117 ~~ktIFVGNL--P~~~T--------eedLreiF~s~FG~Vv~V~I~~DkT---G~pKGfGFVtF~d~EsA~kAIea~~ve  183 (534)
                      +.+.|.+.|+  |..+.        +++|++.| ++||.|..|.|++|+.   +.++|+|||+|.+.++|.+||++.+..
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f-~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~   82 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDEC-SKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   82 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHH-HTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHH-HccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCC
Confidence            5677888887  44443        46899999 9999999999999872   478999999999999999999987733

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

Probab=98.66  E-value=5.9e-08  Score=83.43  Aligned_cols=48  Identities=17%  Similarity=0.360  Sum_probs=44.3

Q ss_pred             CcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhc
Q psy3698         128 GRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAA  180 (534)
Q Consensus       128 ~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~  180 (534)
                      ..+|+++|+++| ++||.|..|.|.    +++||||||+|.++++|.+||+..
T Consensus        27 ~~~te~~L~~~F-~~~G~V~~v~i~----~~~rGfaFVeF~~~~~A~~Ai~~~   74 (100)
T 2d9o_A           27 GGYSKDVLLRLL-QKYGEVLNLVLS----SKKPGTAVVEFATVKAAELAVQNE   74 (100)
T ss_dssp             CSCCHHHHHHHH-HTTSCEEEEEEE----SSSSSEEEEEESCHHHHHHHHHTC
T ss_pred             CCCCHHHHHHHH-HhcCCEEEEEEc----cCCCCEEEEEECCHHHHHHHHHhc
Confidence            568999999999 999999999987    468999999999999999999983

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

Probab=98.64  E-value=8.7e-08  Score=82.37  Aligned_cols=67  Identities=10%  Similarity=0.016  Sum_probs=51.4

Q ss_pred             cCeEEEeCCC-------CCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccc
Q psy3698          24 SNKIFIGGVP-------WDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        24 SrKVFVGNLP-------~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~V   94 (534)
                      .++|-|.-..       .++||++|+++|++||+|..+.+++      ++||||||+| .+ +|++|++. ...+.++.+
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~------~~rGfaFVeF~~~~~A~~Ai~~-~~~~~g~~l   82 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS------KKPGTAVVEFATVKAAELAVQN-EVGLVDNPL   82 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES------SSSSEEEEEESCHHHHHHHHHT-CCBCSSSBC
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc------CCCCEEEEEECCHHHHHHHHHh-cCCCCCCeE
Confidence            4566666554       4589999999999999999998873      6789999999 55 88889886 233445666


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      .|.
T Consensus        83 ~V~   85 (100)
T 2d9o_A           83 KIS   85 (100)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            664

>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=98.62  E-value=5.6e-08  Score=83.66  Aligned_cols=74  Identities=11%  Similarity=-0.137  Sum_probs=58.5

Q ss_pred             cCeEEEeCC--CCCCC--------HHHHHHHhhccCCeeEEeecCCCCCC-CCCCcEEEEEe-hH-HHHHHHhh-cCCCC
Q psy3698          24 SNKIFIGGV--PWDTP--------EYLLLTVFSQFGPVKVEWPQGTPESP-TAPKAISLDVI-SE-LVLILGQW-ATEGN   89 (534)
Q Consensus        24 SrKVFVGNL--P~diT--------EeeLre~FsqFG~V~~v~~~rD~~Tg-~rsRGYAFVtF-sE-sAeaALq~-ssr~i   89 (534)
                      ++-|.|.|+  |.++.        +++|++.|++||+|..+.|++++.+. .+++|||||+| +. +|++|++. +++.+
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~f   84 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRKF   84 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCEe
Confidence            466899998  55554        47999999999999999999987542 16799999999 55 77777764 77777


Q ss_pred             ccccceec
Q psy3698          90 LCGRVEVV   97 (534)
Q Consensus        90 ~~k~VQVr   97 (534)
                      .+|.+.+.
T Consensus        85 ~GR~i~v~   92 (105)
T 3v4m_A           85 ANRVVVTK   92 (105)
T ss_dssp             TTEECEEE
T ss_pred             CCCEEEEE
Confidence            88877775

>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=98.61  E-value=6.4e-08  Score=85.47  Aligned_cols=66  Identities=15%  Similarity=0.065  Sum_probs=54.8

Q ss_pred             CCceeEeccc--cCcC---CHHHHHHHhhhcCCCeEEEEEecCC-----CCCCceEEEEEeCCHHHHHHHHHhcCce
Q psy3698         117 PGKTIFVGAL--HGRL---TAQALYNVMNDLFGDVVYAGIDTDK-----HKYPIGSGRITFGSTRAYSDAIRAAFIE  183 (534)
Q Consensus       117 ~~ktIFVGNL--P~~~---TeedLreiF~s~FG~Vv~V~I~~Dk-----TG~pKGfGFVtF~d~EsA~kAIea~~ve  183 (534)
                      +.++|++.|+  |.++   -+++|++.| ++||.|..|.|..|+     ++.++|+|||+|.+.++|.+||++.+..
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef-~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr   94 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEEC-GKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGR   94 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHH-TTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHH-hccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCC
Confidence            5678888888  3222   368999999 899999999999885     3567899999999999999999987733

>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=98.53  E-value=5.4e-08  Score=85.91  Aligned_cols=74  Identities=11%  Similarity=-0.120  Sum_probs=58.3

Q ss_pred             cCeEEEeCCC--CC---CCHHHHHHHhhccCCeeEEeecCCCC----CCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCcc
Q psy3698          24 SNKIFIGGVP--WD---TPEYLLLTVFSQFGPVKVEWPQGTPE----SPTAPKAISLDVI-SE-LVLILGQW-ATEGNLC   91 (534)
Q Consensus        24 SrKVFVGNLP--~d---iTEeeLre~FsqFG~V~~v~~~rD~~----Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~   91 (534)
                      ++.|+|.|+-  .+   --+++|++.|++||+|..++|++++.    ++ +++|||||+| +. +|++|++. +++.+.+
T Consensus        20 s~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~-~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~G   98 (118)
T 3ue2_A           20 STVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDA-EIIVKIFVEFSIASETHKAIQALNGRWFAG   98 (118)
T ss_dssp             CCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTC-EEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCC-cceEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            5789999983  22   23789999999999999999998764    34 6789999999 55 77777765 7777777


Q ss_pred             ccceecc
Q psy3698          92 GRVEVVP   98 (534)
Q Consensus        92 k~VQVrP   98 (534)
                      |.+.+.-
T Consensus        99 R~i~v~~  105 (118)
T 3ue2_A           99 RKVVAEV  105 (118)
T ss_dssp             EECEEEE
T ss_pred             cEEEEEE
Confidence            8777753

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.46  E-value=5.9e-07  Score=80.36  Aligned_cols=70  Identities=11%  Similarity=0.132  Sum_probs=60.0

Q ss_pred             CCCCCCCCceeEeccccCc-CCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCC-HHHHHHHHHhc---Cceee
Q psy3698         111 HSTKLEPGKTIFVGALHGR-LTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGS-TRAYSDAIRAA---FIEVK  185 (534)
Q Consensus       111 ~s~~~d~~ktIFVGNLP~~-~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d-~EsA~kAIea~---~veIk  185 (534)
                      .+....+...|||+||+.. +++++|+++| +.||.|.+|.+..|..     .|||.|.+ .++|.+||++.   .++|.
T Consensus        11 ~~~~~~~G~il~v~~l~~~~~sredLke~F-~~~G~V~~Vd~~~g~~-----tgfVrf~~~~~~A~~av~~ln~~~~~i~   84 (121)
T 1owx_A           11 GSLEEKIGCLLKFSGDLDDQTCREDLHILF-SNHGEIKWIDFVRGAK-----EGIILFKEKAKEALGKAKDANNGNLQLR   84 (121)
T ss_dssp             CCCSCCCCCEEEEEESCCSSCCHHHHHHHT-CSSCCEEEEECCTTCS-----EEEEEESSCHHHHHHHHHHTTTSCBCTT
T ss_pred             CcccccCCeEEEEecCCCCcCCHHHHHHHH-HhcCCEEEEEEecCCC-----EEEEEECCChHHHHHHHHHhhcCCcEEe
Confidence            4455667889999999999 9999999999 8999999999998764     59999999 89999999986   35555


Q ss_pred             c
Q psy3698         186 S  186 (534)
Q Consensus       186 ~  186 (534)
                      .
T Consensus        85 g   85 (121)
T 1owx_A           85 N   85 (121)
T ss_dssp             S
T ss_pred             C
Confidence            4

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.33  E-value=1.3e-06  Score=78.24  Aligned_cols=55  Identities=16%  Similarity=-0.031  Sum_probs=48.1

Q ss_pred             ccCeEEEeCCCCC-CCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-h-H-HHHHHHhh
Q psy3698          23 LSNKIFIGGVPWD-TPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-S-E-LVLILGQW   84 (534)
Q Consensus        23 ~SrKVFVGNLP~d-iTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-s-E-sAeaALq~   84 (534)
                      ..+-|||+||+++ +++++|+++|++||+|..++++++..       .|||.| . + +|.+|+..
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~-------tgfVrf~~~~~~A~~av~~   75 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK-------EGIILFKEKAKEALGKAKD   75 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS-------EEEEEESSCHHHHHHHHHH
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC-------EEEEEECCChHHHHHHHHH
Confidence            3478999999999 99999999999999999999998765       489999 7 6 77777764

>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=98.14  E-value=5.4e-06  Score=72.72  Aligned_cols=71  Identities=4%  Similarity=-0.119  Sum_probs=53.8

Q ss_pred             CccCeEEEeCCCCCCC----------HHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh-cCCC
Q psy3698          22 ILSNKIFIGGVPWDTP----------EYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW-ATEG   88 (534)
Q Consensus        22 ~~SrKVFVGNLP~diT----------EeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~   88 (534)
                      +-++-|.+.|+=-.-.          +++|++.|++||+|..+.+.++.     ++|||||+| +. +|++|++. +++.
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            3456788888743222          36889999999999999987752     489999999 55 78888764 7777


Q ss_pred             Cccccceec
Q psy3698          89 NLCGRVEVV   97 (534)
Q Consensus        89 i~~k~VQVr   97 (534)
                      +.+|.+.+.
T Consensus        80 f~GR~i~v~   88 (114)
T 3s6e_A           80 FAGKMITAA   88 (114)
T ss_dssp             ETTEECEEE
T ss_pred             ECCEEEEEE
Confidence            777777765

>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=98.12  E-value=2.7e-06  Score=74.64  Aligned_cols=48  Identities=17%  Similarity=0.136  Sum_probs=42.0

Q ss_pred             HHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCce
Q psy3698         132 AQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIE  183 (534)
Q Consensus       132 eedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~ve  183 (534)
                      +++|++.| ++||.|..|.|+.+.   ++|||||+|.+.++|.+||+.++..
T Consensus        31 ~edl~~~f-~kfG~V~~v~i~~~~---~~G~~fV~f~~~e~A~~Ai~~lnG~   78 (114)
T 3s6e_A           31 KDDVIEEC-NKHGGVIHIYVDKNS---AQGNVYVKCPSIAAAIAAVNALHGR   78 (114)
T ss_dssp             HHHHHHHH-TTTTCCSEEEECTTC---TTCCEEEECSSHHHHHHHHHHHTTC
T ss_pred             HHHHHHHH-hccCCEEEEEEecCC---CcEEEEEEECCHHHHHHHHHHhCCC
Confidence            45789999 999999999997764   6999999999999999999987733

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

Probab=97.83  E-value=4e-05  Score=65.55  Aligned_cols=62  Identities=19%  Similarity=0.237  Sum_probs=50.1

Q ss_pred             CCceeEecccc----CcCCH----HHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         117 PGKTIFVGALH----GRLTA----QALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       117 ~~ktIFVGNLP----~~~Te----edLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      +..||+|.-++    ...-+    .+|.+.| ..||.|+.++|..|+       +||+|.+.++|.+||+....++.+
T Consensus         6 pd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F-~~~G~Vi~vr~~~d~-------~fVtF~d~~sAlaAi~mnG~~v~G   75 (91)
T 2dnr_A            6 SGGTVLVSIKSSLPENNFFDDALIDELLQQF-ASFGEVILIRFVEDK-------MWVTFLEGSSALNVLSLNGKELLN   75 (91)
T ss_dssp             SSCEEEEEEECSSTTTCSCCHHHHHHHHHHH-HTTCCEEEEEECSSS-------EEEEESSHHHHHHGGGGTTCEETT
T ss_pred             CCCeEEEEeccCccccccCCHHHHHHHHHHH-HhCCCeEEEEEecCC-------EEEEECChHHHHHHHhcCCeEeCC
Confidence            45788888776    23334    5788999 899999999999965       899999999999999855566654

>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=97.67  E-value=6.7e-05  Score=70.92  Aligned_cols=51  Identities=20%  Similarity=0.044  Sum_probs=45.1

Q ss_pred             CCHHHHHHHhhhcCCCeEEEEEecCC-----CCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         130 LTAQALYNVMNDLFGDVVYAGIDTDK-----HKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       130 ~TeedLreiF~s~FG~Vv~V~I~~Dk-----TG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      -.+++|++.| ++||.|..+.|..+.     ++.++|++||+|.+.++|.+||+..+
T Consensus       141 e~~~dl~~e~-~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~  196 (222)
T 3dxb_A          141 DLEGEVTEEC-GKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALN  196 (222)
T ss_dssp             THHHHHHHHH-TTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHH-HccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhc
Confidence            4568899999 899999999997553     55899999999999999999999876

>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=97.66  E-value=6.2e-05  Score=71.16  Aligned_cols=63  Identities=13%  Similarity=-0.143  Sum_probs=50.1

Q ss_pred             CCCHHHHHHHhhccCCeeEEeecCCC----CCCCCCCcEEEEEe-hH-HHHHHHhh-cCCCCccccceecc
Q psy3698          35 DTPEYLLLTVFSQFGPVKVEWPQGTP----ESPTAPKAISLDVI-SE-LVLILGQW-ATEGNLCGRVEVVP   98 (534)
Q Consensus        35 diTEeeLre~FsqFG~V~~v~~~rD~----~Tg~rsRGYAFVtF-sE-sAeaALq~-ssr~i~~k~VQVrP   98 (534)
                      +-.+++|++.|++||+|..+.|.++.    .++ +++|++||+| ++ +|++|++. +++.+.+|.+.+.-
T Consensus       140 ~e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~-~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~  209 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDA-EIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV  209 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEEECCSSTTC-CEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             HHHHHHHHHHHHccCCeEEEEEecCCCCcccCc-CceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEE
Confidence            44678999999999999999887443    344 7899999999 65 77777775 78888888887753

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.57  E-value=4.9e-05  Score=65.52  Aligned_cols=64  Identities=16%  Similarity=0.218  Sum_probs=51.4

Q ss_pred             CCCceeEeccccCc-----CCH----HHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeec
Q psy3698         116 EPGKTIFVGALHGR-----LTA----QALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKS  186 (534)
Q Consensus       116 d~~ktIFVGNLP~~-----~Te----edLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~  186 (534)
                      .+..||+|.-++..     .-+    .+|.+.| ..||.|+.++|..|+       +||+|.+.++|.+||+....++.+
T Consensus        13 PpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F-~~~G~Vilvr~v~d~-------~fVtF~d~~sAl~AI~ldG~~v~G   84 (95)
T 1ufw_A           13 PLDATVVVNLQSPTLEEKNEFPEDLRTELMQTL-GSYGTIVLVRINQGQ-------MLVTFADSHSALSVLDVDGMKVKG   84 (95)
T ss_dssp             CTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHH-HHHSCCSEEEEETTE-------EEEECSCSHHHHHHHHGGGSEETT
T ss_pred             CCCCeEEEEecCCcccccccCCHHHHHHHHHHH-HHCCCEEEEEEecCc-------EEEEEcChHHHHHHHhcCCeeeCC
Confidence            35678999888632     322    5688999 889999999999976       999999999999999955566664


Q ss_pred             c
Q psy3698         187 G  187 (534)
Q Consensus       187 ~  187 (534)
                      .
T Consensus        85 r   85 (95)
T 1ufw_A           85 R   85 (95)
T ss_dssp             E
T ss_pred             e
Confidence            3

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

Probab=97.50  E-value=0.00014  Score=62.25  Aligned_cols=64  Identities=13%  Similarity=0.043  Sum_probs=52.4

Q ss_pred             CeEEEeCCC----CCCCH----HHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccc
Q psy3698          25 NKIFIGGVP----WDTPE----YLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRV   94 (534)
Q Consensus        25 rKVFVGNLP----~diTE----eeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~V   94 (534)
                      .+|+|.-++    ..+-.    .+|.+.|++||+|..++++.|+         +||+| .. +|.+||++.+..+.+|.+
T Consensus         8 ~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~---------~fVtF~d~~sAlaAi~mnG~~v~Gr~L   78 (91)
T 2dnr_A            8 GTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK---------MWVTFLEGSSALNVLSLNGKELLNRTI   78 (91)
T ss_dssp             CEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS---------EEEEESSHHHHHHGGGGTTCEETTEEE
T ss_pred             CeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC---------EEEEECChHHHHHHHhcCCeEeCCeEE
Confidence            478888777    23333    6789999999999999998863         79999 55 999999998888888888


Q ss_pred             eec
Q psy3698          95 EVV   97 (534)
Q Consensus        95 QVr   97 (534)
                      +|.
T Consensus        79 kV~   81 (91)
T 2dnr_A           79 TIA   81 (91)
T ss_dssp             EEE
T ss_pred             EEE
Confidence            876

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.14  E-value=0.00026  Score=61.03  Aligned_cols=64  Identities=8%  Similarity=-0.022  Sum_probs=52.6

Q ss_pred             CeEEEeCCCCC-----CCH----HHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCcccc
Q psy3698          25 NKIFIGGVPWD-----TPE----YLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGR   93 (534)
Q Consensus        25 rKVFVGNLP~d-----iTE----eeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~   93 (534)
                      -+|+|.-++.+     +-.    .+|.+.|++||+|..+++..|+         +||+| .+ +|.+||++....+.+|.
T Consensus        16 ~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~---------~fVtF~d~~sAl~AI~ldG~~v~Gr~   86 (95)
T 1ufw_A           16 ATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ---------MLVTFADSHSALSVLDVDGMKVKGRA   86 (95)
T ss_dssp             CEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE---------EEEECSCSHHHHHHHHGGGSEETTEE
T ss_pred             CeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc---------EEEEEcChHHHHHHHhcCCeeeCCeE
Confidence            47999988754     222    5689999999999999998874         89999 44 99999999888888888


Q ss_pred             ceec
Q psy3698          94 VEVV   97 (534)
Q Consensus        94 VQVr   97 (534)
                      +.|.
T Consensus        87 L~V~   90 (95)
T 1ufw_A           87 VKIS   90 (95)
T ss_dssp             EEEE
T ss_pred             EEEe
Confidence            8876

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.75  E-value=0.0063  Score=53.24  Aligned_cols=86  Identities=15%  Similarity=0.074  Sum_probs=66.0

Q ss_pred             ccCeEEEeCCCCCCCHHHHHHHhhcc-----CCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCccccce
Q psy3698          23 LSNKIFIGGVPWDTPEYLLLTVFSQF-----GPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNLCGRVE   95 (534)
Q Consensus        23 ~SrKVFVGNLP~diTEeeLre~FsqF-----G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~~k~VQ   95 (534)
                      ..++|.|-|||.++.++.|.-+|+.=     |+|..+....         +=|+|+| .. .|+++|+.....+.+.++.
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            35789999999999999999999982     5777665433         2589999 44 8999999877788888888


Q ss_pred             ecccccCCCCCCCCCCCCCCCCCceeEeccccCcCC
Q psy3698          96 VVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLT  131 (534)
Q Consensus        96 VrPw~lsds~~~~~~~s~~~d~~ktIFVGNLP~~~T  131 (534)
                      |.|+...+              ..+|++-+|+..++
T Consensus        78 V~P~~~~~--------------~~r~ll~gl~~~t~   99 (104)
T 2dhx_A           78 LRPAPPRA--------------PARLLLQGLPPGTS   99 (104)
T ss_dssp             EEECCCCC--------------CCCCCCCSCCCCCC
T ss_pred             EEcCCCCC--------------cceEeeecCCCCCC
Confidence            88754322              24578888887764

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.24  E-value=0.019  Score=50.16  Aligned_cols=72  Identities=18%  Similarity=0.130  Sum_probs=56.4

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhc----CCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeee
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDL----FGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKK  192 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~----FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~Kr  192 (534)
                      ..++|.|-|||..+.++.|.-+|+..    =|.|..+....       +-|.|+|.+.+.|++.|++....+..    -+
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~-------~~AvItF~d~~va~rVL~k~~H~L~~----~~   75 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG-------CGGVLTFREPADAERVLAQADHELHG----AQ   75 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET-------TEEEEEESSHHHHHHHHTCSCCBSSS----SB
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC-------CcEEEEEcChHHHHHHhcCCcceecC----eE
Confidence            46889999999999999999999653    25677765532       67899999999999999886656664    35


Q ss_pred             eeecccc
Q psy3698         193 LQIDPYL  199 (534)
Q Consensus       193 VeIkPyL  199 (534)
                      +.|.||.
T Consensus        76 LsV~P~~   82 (104)
T 2dhx_A           76 LSLRPAP   82 (104)
T ss_dssp             CEEEECC
T ss_pred             EEEEcCC
Confidence            5577774

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=94.96  E-value=0.046  Score=48.54  Aligned_cols=67  Identities=6%  Similarity=-0.088  Sum_probs=54.2

Q ss_pred             CccCeEEEeCCCCCCCHHHHHHHhhcc-----CCeeEEeecCCCCCCCCCCcEEEEEe-hH--HHHHHHhhcCCCCcccc
Q psy3698          22 ILSNKIFIGGVPWDTPEYLLLTVFSQF-----GPVKVEWPQGTPESPTAPKAISLDVI-SE--LVLILGQWATEGNLCGR   93 (534)
Q Consensus        22 ~~SrKVFVGNLP~diTEeeLre~FsqF-----G~V~~v~~~rD~~Tg~rsRGYAFVtF-sE--sAeaALq~ssr~i~~k~   93 (534)
                      ...++|=+=+||-.++.+.|+.+.+++     |.|+.+.+.-|..       =|+|+| ++  +++++|+..+..+.++.
T Consensus        19 ~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~-------GAivef~d~~~AgKasLaL~G~ef~gr~   91 (117)
T 2l9w_A           19 ELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFN-------GAIIIFRDSKFAAKMLMILNGSQFQGKV   91 (117)
T ss_dssp             TTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTT-------EEEEECSCHHHHHHHHHHHSSEEETTEE
T ss_pred             cCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCC-------ceEEEEccchhhHHHHhhcCCeeecCeE
Confidence            456889999999999999999999999     9998888877643       599999 55  88888887666555544


Q ss_pred             ce
Q psy3698          94 VE   95 (534)
Q Consensus        94 VQ   95 (534)
                      +.
T Consensus        92 Lr   93 (117)
T 2l9w_A           92 IR   93 (117)
T ss_dssp             EE
T ss_pred             EE
Confidence            43

>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=94.81  E-value=0.092  Score=45.60  Aligned_cols=51  Identities=18%  Similarity=0.292  Sum_probs=42.1

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      ..||+=+.|.++.-.+|.++|+.||-|.+-||--   |      -|||.| .. .|..|++.
T Consensus        16 ~HVf~l~FP~ewKt~DI~~lFs~fggv~I~WidD---T------sAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           16 DHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDD---T------SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             CSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEET---T------EEEEECSCHHHHHHHHHH
T ss_pred             CeEEEEeCChhhhhHHHHHHhhccCCEEEEEEcC---C------eEEEEecCHHHHHHHHHh
Confidence            3577669999999999999999999999888853   2      599999 44 77777774

>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=94.74  E-value=0.13  Score=43.70  Aligned_cols=79  Identities=14%  Similarity=0.171  Sum_probs=55.8

Q ss_pred             ceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC-CCCC--ceEEEEEeCCHHHHHHHHHhcC----ceeeccceee
Q psy3698         119 KTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK-HKYP--IGSGRITFGSTRAYSDAIRAAF----IEVKSGRICK  191 (534)
Q Consensus       119 ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk-TG~p--KGfGFVtF~d~EsA~kAIea~~----veIk~~k~~K  191 (534)
                      .+|-|.+||+.+|++++.+.+ +....+........+ +.++  -.-|+|.|.+.+++..-.+.-.    +.-++....-
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l-~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~kg~~~~a   80 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHL-QPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDNKGQEYPA   80 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHH-CSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECTTCCEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHh-cCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcCCCCEeee
Confidence            368999999999999999999 778888777765544 2222  2568999999988877776643    3222233233


Q ss_pred             eeeeccc
Q psy3698         192 KLQIDPY  198 (534)
Q Consensus       192 rVeIkPy  198 (534)
                      .||..||
T Consensus        81 ~VE~AP~   87 (91)
T 1uw4_A           81 IVEFAPF   87 (91)
T ss_dssp             EEEECSS
T ss_pred             EEEEcCC
Confidence            6777776

>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=93.40  E-value=0.091  Score=45.71  Aligned_cols=51  Identities=18%  Similarity=0.289  Sum_probs=42.5

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      ..||+=+.|.++.-.+|.++|+.||-|.+-||--   |      -|||.| .. .|..|++.
T Consensus         6 ~HV~~l~FP~ewKt~Di~~lFs~fggv~I~WidD---T------sAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A            6 DHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDD---T------SAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             EEEEEEECCTTCCHHHHHHHTTTSEEEEEEEEET---T------EEEEEEEEECHHHHHHHH
T ss_pred             CeEEEEeCChhhhhHHHHHHHhccCCEEEEEEcC---C------eEEEEecCHHHHHHHHHh
Confidence            3577779999999999999999999999888853   2      599999 44 77777775

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=92.64  E-value=0.048  Score=58.60  Aligned_cols=54  Identities=19%  Similarity=0.215  Sum_probs=40.4

Q ss_pred             cCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhh
Q psy3698          24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQW   84 (534)
Q Consensus        24 SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~   84 (534)
                      .|.|||. .|.++++.+|.++|++||+|..+..-++..      -||.|+| .+ ++++++..
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g------~~~~vef~~~~~~~~~~~~  108 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFG------LYAVVEFCQKESIGSLQNG  108 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSS------EEEEEECC---CCHHHHSS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCC------eEEEEEeCCHHHHHHHHhc
Confidence            3689998 799999999999999999998876655432      4999999 44 78877765

>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=92.37  E-value=0.32  Score=42.21  Aligned_cols=52  Identities=13%  Similarity=0.252  Sum_probs=42.1

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      .||+=+.|..+.-.||.++| +.||.|. |.++-|      -.|||.|.+++.|..|+..
T Consensus        17 HVf~l~FP~ewKt~DI~~lF-s~fggv~-I~WidD------TsAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           17 HVLHVTFPKEWKTSDLYQLF-SAFGNIQ-ISWIDD------TSAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             SEEEEECCTTCCHHHHHHHH-TTTCSCC-CEEEET------TEEEEECSCHHHHHHHHHH
T ss_pred             eEEEEeCChhhhhHHHHHHh-hccCCEE-EEEEcC------CeEEEEecCHHHHHHHHHh
Confidence            34444999999999999999 9999543 444443      3799999999999999885

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=92.16  E-value=0.3  Score=43.37  Aligned_cols=62  Identities=10%  Similarity=0.080  Sum_probs=52.0

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcC-----CCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC-ceee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLF-----GDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF-IEVK  185 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~F-----G~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~-veIk  185 (534)
                      .++|=+-|||..+++..++.++ +.+     |.++.+.+..|-     |-|+|.|.+...|-||.-+.. .++.
T Consensus        21 ~rtiaL~~ipDtvndarIr~lv-e~~~~i~~g~i~KI~L~pDH-----~GAivef~d~~~AgKasLaL~G~ef~   88 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFL-QEEIHINEKDIRKILLVSDF-----NGAIIIFRDSKFAAKMLMILNGSQFQ   88 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHH-HHHTCCCTTTCSEEEEETTT-----TEEEEECSCHHHHHHHHHHHSSEEET
T ss_pred             CcEEEEecCCCCCCHHHHHHHH-hhhhccCccceeEEEEecCC-----CceEEEEccchhhHHHHhhcCCeeec
Confidence            4678888999999999999999 899     999999888854     559999999999998875543 4444

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=91.44  E-value=0.28  Score=42.31  Aligned_cols=80  Identities=11%  Similarity=0.050  Sum_probs=52.1

Q ss_pred             CceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCC--CCCCc-eEEEEEeCCHHHHHHHHHhcC----ceeecccee
Q psy3698         118 GKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDK--HKYPI-GSGRITFGSTRAYSDAIRAAF----IEVKSGRIC  190 (534)
Q Consensus       118 ~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~Dk--TG~pK-GfGFVtF~d~EsA~kAIea~~----veIk~~k~~  190 (534)
                      .-+|-|..||+.+||+++.+.+ +..=.+........+  .+.++ .-|+|.|.+.+++..-.+.-.    +.-++....
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l-~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D~kg~~~~   87 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQL-RPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLDSKGLEYP   87 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTT-SCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEECTTCCEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHh-CCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEeCCCCEee
Confidence            3579999999999999999988 444444433322222  22111 357999999999887776633    333334444


Q ss_pred             eeeeeccc
Q psy3698         191 KKLQIDPY  198 (534)
Q Consensus       191 KrVeIkPy  198 (534)
                      ..||..||
T Consensus        88 a~VE~APy   95 (97)
T 2l08_A           88 AVVEFAPF   95 (97)
T ss_dssp             EEEEECCC
T ss_pred             eEEEecCC
Confidence            46777776

>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=89.81  E-value=0.73  Score=39.07  Aligned_cols=60  Identities=10%  Similarity=-0.053  Sum_probs=40.6

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeec-CCCCCCCCCCcEEEEEe-h-HHHHHHHhh
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQ-GTPESPTAPKAISLDVI-S-ELVLILGQW   84 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~-rD~~Tg~rsRGYAFVtF-s-EsAeaALq~   84 (534)
                      .||-|..||+.+||+++.+.++...++....-. -+...+...-.-|||.| + |++....+.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~   64 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDR   64 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHH
Confidence            689999999999999999999998876432222 22111212226799999 3 366555553

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=89.75  E-value=0.14  Score=54.96  Aligned_cols=59  Identities=7%  Similarity=0.094  Sum_probs=44.8

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcC
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAF  181 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~  181 (534)
                      ..++|||. .|..+++.+|.++| ++||.|..+....++    .-||.|+|.+.+++.+++....
T Consensus        52 a~rsv~v~-~~~~~~~~~l~~y~-~~~g~i~~~~~~~~~----g~~~~vef~~~~~~~~~~~~~~  110 (464)
T 3pq1_A           52 AQRTVLIH-CPEKISENKFLKYL-SQFGPINNHFFYESF----GLYAVVEFCQKESIGSLQNGTH  110 (464)
T ss_dssp             HHTEEEEE-ECCC---CHHHHHH-GGGSCCCCEEEECSS----SEEEEEECC---CCHHHHSSCC
T ss_pred             hcceEEEE-cCCCCCHHHHHHHH-HhcCCcceEEEEccC----CeEEEEEeCCHHHHHHHHhccC
Confidence            35889996 89999999999999 999999999887643    2699999999999998876654

>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=89.64  E-value=0.33  Score=42.17  Aligned_cols=52  Identities=13%  Similarity=0.258  Sum_probs=42.6

Q ss_pred             eeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHh
Q psy3698         120 TIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRA  179 (534)
Q Consensus       120 tIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea  179 (534)
                      .||+=+.|..+.-.||.++| +.||. +.|.++-|.      .|||.|.+++.|..|+..
T Consensus         7 HV~~l~FP~ewKt~Di~~lF-s~fgg-v~I~WidDT------sAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A            7 HVLHVTFPKEWKTSDLYQLF-SAFGN-IQISWIDDT------SAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             EEEEEECCTTCCHHHHHHHT-TTSEE-EEEEEEETT------EEEEEEEEECHHHHHHHH
T ss_pred             eEEEEeCChhhhhHHHHHHH-hccCC-EEEEEEcCC------eEEEEecCHHHHHHHHHh
Confidence            35544999999999999999 99994 445555543      799999999999999886

>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=89.26  E-value=0.84  Score=40.68  Aligned_cols=64  Identities=13%  Similarity=-0.020  Sum_probs=48.9

Q ss_pred             CCCCccCeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCCCCCCCCcEEEEEe-hH-HHHHHHhhcCCCCc
Q psy3698          19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVI-SE-LVLILGQWATEGNL   90 (534)
Q Consensus        19 ~~p~~SrKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~Tg~rsRGYAFVtF-sE-sAeaALq~ssr~i~   90 (534)
                      .+....+-|-|-|.|... ...+...|++||+|+....  .     ....+-.|.| +. +|++||+.++..+.
T Consensus        19 ~~~~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~--~-----~~~NWihI~Y~s~~~A~rAL~kNG~ii~   84 (119)
T 1wwh_A           19 EDHLDDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVM--S-----NTGNWMHIRYQSKLQARKALSKDGRIFG   84 (119)
T ss_dssp             --CGGGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEE--C-----SSSSEEEEEESSHHHHHHHHTTTTCEET
T ss_pred             CCCCCCCEEEEECCCHHH-HHHHHHHHHhhCcEEEecc--C-----CCCCeEEEEeCCHHHHHHHHHhCCeEec
Confidence            345567889999999985 6678889999999987665  1     1235999999 77 99999998665554

>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=87.56  E-value=1.7  Score=38.75  Aligned_cols=73  Identities=10%  Similarity=0.038  Sum_probs=54.2

Q ss_pred             CCceeEeccccCcCCHHHHHHHhhhcCCCeEEEEEecCCCCCCceEEEEEeCCHHHHHHHHHhcCceeeccceeeeeeec
Q psy3698         117 PGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICKKLQID  196 (534)
Q Consensus       117 ~~ktIFVGNLP~~~TeedLreiF~s~FG~Vv~V~I~~DkTG~pKGfGFVtF~d~EsA~kAIea~~veIk~~k~~KrVeIk  196 (534)
                      ...-|-|-+.|... ...+...| ++||.|++.....     ...+-.|.|.++.+|++||......+.. .  -.|-++
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F-~~~G~Iv~~~~~~-----~~NWihI~Y~s~~~A~rAL~kNG~ii~g-~--~mIGV~   92 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQF-AQYGNILKHVMSN-----TGNWMHIRYQSKLQARKALSKDGRIFGE-S--IMIGVK   92 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHH-HTTSCEEEEEECS-----SSSEEEEEESSHHHHHHHHTTTTCEETT-T--EECEEE
T ss_pred             CCCEEEEECCCHHH-HHHHHHHH-HhhCcEEEeccCC-----CCCeEEEEeCCHHHHHHHHHhCCeEecC-C--EEEEEE
Confidence            35678888999986 55567778 8999999887632     3578999999999999999987655532 1  235566


Q ss_pred             ccc
Q psy3698         197 PYL  199 (534)
Q Consensus       197 PyL  199 (534)
                      |+.
T Consensus        93 p~~   95 (119)
T 1wwh_A           93 PCI   95 (119)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            664

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=82.31  E-value=1.6  Score=39.52  Aligned_cols=66  Identities=9%  Similarity=-0.032  Sum_probs=44.4

Q ss_pred             CeEEEeCCCCCCCHHHHHHHhhccCCeeEEeecCCCC---------CCCC----CCcEEEEEe-hH-HHHHHHhhcCCCC
Q psy3698          25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPE---------SPTA----PKAISLDVI-SE-LVLILGQWATEGN   89 (534)
Q Consensus        25 rKVFVGNLP~diTEeeLre~FsqFG~V~~v~~~rD~~---------Tg~r----sRGYAFVtF-sE-sAeaALq~ssr~i   89 (534)
                      .-|.|=|-|.+. ...+.+.|++||.|.+...+.+..         ..+.    ......|+| +. +|++||+.++..+
T Consensus         8 ~~VtVFGFp~~~-~~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii   86 (132)
T 3p3d_A            8 LAILVFGYPETM-ANQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVF   86 (132)
T ss_dssp             CEEEEECCCGGG-HHHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEE
T ss_pred             eEEEEEecCHHH-HHHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEe
Confidence            457888887665 456788999999998754332200         0101    246889999 77 9999999776655


Q ss_pred             cc
Q psy3698          90 LC   91 (534)
Q Consensus        90 ~~   91 (534)
                      .+
T Consensus        87 ~G   88 (132)
T 3p3d_A           87 NG   88 (132)
T ss_dssp             TT
T ss_pred             Cc
Confidence            54

---

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	534
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-08
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	1e-04
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	4e-05
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	1e-04
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	5e-05
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	1e-04
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	6e-05
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	3e-04
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	7e-05
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	2e-04
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	9e-05
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	2e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	0.001
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	2e-04
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	6e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	0.002
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	7e-04
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	0.002
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	7e-04
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	0.004
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	0.001
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	0.001
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	0.002
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.001
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	0.001
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	0.002
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	0.003
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	0.002
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	0.002
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	0.003
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	0.002
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	0.004
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	0.004
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	0.002
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	0.002
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	0.003
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	0.004
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	0.003
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.003
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	0.004
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	0.004
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	0.004

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (122), Expect = 3e-08
 Identities = 29/167 (17%), Positives = 52/167 (31%), Gaps = 6/167 (3%)

Query: 26  KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWA 85
           K+FIGG+ ++T +  L + F Q+G +        P +  +     +   +         A
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE---VDAA 64

Query: 86  TEGNLCGRVEVVPWAISDSNYSPQGHSTKLEPGKTIFVGALHGRLTAQALYNVMNDLFGD 145
                      V       +             K IFVG +        L +     +G 
Sbjct: 65  MNARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQ-YGK 123

Query: 146 VVYAGIDTDK-HKYPIGSGRITFGSTRAYSDAIRAAFIEVKSGRICK 191
           +    I TD+      G   +TF    +    +   +  V  G  C+
Sbjct: 124 IEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVN-GHNCE 169

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.1 bits (95), Expect = 1e-04
 Identities = 12/37 (32%), Positives = 22/37 (59%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMS 529
           K+FIGG+ ++T +  L + F Q+G +   V+ R   +
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNT 44

>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 = 39.9 bits (93), Expect = 4e-05
 Identities = 6/43 (13%), Positives = 18/43 (41%)

Query: 20 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES 62
          + I    +++  +P    +  L T+F ++G +  +       +
Sbjct: 2  ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLT 44

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 38.4 bits (89), Expect = 1e-04
 Identities = 6/33 (18%), Positives = 16/33 (48%)

Query: 487 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           + I    +++  +P    +  L T+F ++G + 
Sbjct: 2   ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIV 34

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.6 bits (92), Expect = 5e-05
 Identities = 13/38 (34%), Positives = 19/38 (50%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
          KIF+GG+  DTPE  +   F  FG V+        ++ 
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTN 38

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.4 bits (89), Expect = 1e-04
 Identities = 13/37 (35%), Positives = 21/37 (56%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMS 529
           KIF+GG+  DTPE  +   F  FG V+++ +     +
Sbjct: 1   KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKT 37

>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 = 39.9 bits (93), Expect = 6e-05
 Identities = 9/35 (25%), Positives = 20/35 (57%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           ++KI +  +P+   +  +  +FS FG +K V + +
Sbjct: 8   TSKILVRNIPFQANQREIRELFSTFGELKTVRLPK 42

>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 = 38.0 bits (88), Expect = 3e-04
 Identities = 8/32 (25%), Positives = 17/32 (53%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEW 55
          ++KI +  +P+   +  +  +FS FG +K   
Sbjct: 8  TSKILVRNIPFQANQREIRELFSTFGELKTVR 39

>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 = 39.2 bits (91), Expect = 7e-05
 Identities = 15/37 (40%), Positives = 19/37 (51%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES 62
          K+FIGG+ W T +  L   F QFG VK       P +
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT 38

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 15/37 (40%), Positives = 22/37 (59%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMS 529
           K+FIGG+ W T +  L   F QFG VK  ++ R  ++
Sbjct: 2   KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLT 38

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 9e-05
 Identities = 18/59 (30%), Positives = 29/59 (49%), Gaps = 1/59 (1%)

Query: 5  QKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
          +KT E V PL  +  ++    K+FIGG+ ++T E  L   + Q+G +        P S 
Sbjct: 2  EKTLETV-PLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK 59

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 2e-04
 Identities = 19/58 (32%), Positives = 31/58 (53%), Gaps = 1/58 (1%)

Query: 472 QKTWEGVLPLRTQFSDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMS 529
           +KT E V PL  +  ++    K+FIGG+ ++T E  L   + Q+G +   V+ R   S
Sbjct: 2   EKTLETV-PLERKKREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPAS 58

>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 = 37.6 bits (87), Expect = 2e-04
 Identities = 5/33 (15%), Positives = 17/33 (51%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           K+ +  + +   +  +  +F++FG +K   ++ 
Sbjct: 2   KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHY 34

>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 = 5/27 (18%), Positives = 15/27 (55%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          K+ +  + +   +  +  +F++FG +K
Sbjct: 2  KLLVSNLDFGVSDADIQELFAEFGTLK 28

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.0 bits (88), Expect = 2e-04
 Identities = 8/34 (23%), Positives = 17/34 (50%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQ 57
          S  +++G + + T E  +  +FS+ G +K     
Sbjct: 7  SCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMG 40

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.9 bits (85), Expect = 6e-04
 Identities = 8/29 (27%), Positives = 17/29 (58%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           S  +++G + + T E  +  +FS+ G +K
Sbjct: 7   SCTLYVGNLSFYTTEEQIYELFSKSGDIK 35

>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 = 36.8 bits (85), Expect = 4e-04
 Identities = 9/33 (27%), Positives = 18/33 (54%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
            +++G +  D  E +L   FS  GP+ ++ + R
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCR 34

>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 = 35.3 bits (81), Expect = 0.002
 Identities = 8/26 (30%), Positives = 14/26 (53%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPV 51
           +++G +  D  E +L   FS  GP+
Sbjct: 2  SLYVGDLHPDVTEAMLYEKFSPAGPI 27

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 7e-04
 Identities = 9/43 (20%), Positives = 17/43 (39%)

Query: 19 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPE 61
          S  I    +++ G+P    +  L  +FSQ+G +          
Sbjct: 1  SASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQV 43

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 0.002
 Identities = 9/34 (26%), Positives = 17/34 (50%)

Query: 486 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           S  I    +++ G+P    +  L  +FSQ+G + 
Sbjct: 1   SASIRDANLYVSGLPKTMTQKELEQLFSQYGRII 34

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 36.9 bits (85), Expect = 7e-04
 Identities = 7/38 (18%), Positives = 17/38 (44%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEM 528
           +  ++ GG+     + L+   FS FG +  + +   + 
Sbjct: 18  NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG 55

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 34.6 bits (79), Expect = 0.004
 Identities = 7/29 (24%), Positives = 14/29 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 52
          +  ++ GG+     + L+   FS FG + 
Sbjct: 18 NCTVYCGGIASGLTDQLMRQTFSPFGQIM 46

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.7 bits (82), Expect = 0.001
 Identities = 15/38 (39%), Positives = 21/38 (55%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESP 63
          K+FIGG+ WDT +  L   FS+FG V     +  P + 
Sbjct: 1  KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITG 38

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.8 bits (82), Expect = 0.001
 Identities = 6/31 (19%), Positives = 10/31 (32%)

Query: 25 NKIFIGGVPWDTPEYLLLTVFSQFGPVKVEW 55
          NK++IG +        L  +F          
Sbjct: 2  NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQ 32

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.0 bits (80), Expect = 0.002
 Identities = 6/28 (21%), Positives = 10/28 (35%)

Query: 492 NKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           NK++IG +        L  +F       
Sbjct: 2   NKLYIGNLSPAVTADDLRQLFGDRKLPL 29

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {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: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.3 bits (83), Expect = 0.001
 Identities = 4/39 (10%), Positives = 15/39 (38%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMSSD 531
           ++++G +P+   E  ++  F+    +  +          
Sbjct: 3   RLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLA 41

>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 = 36.2 bits (83), Expect = 0.001
 Identities = 8/39 (20%), Positives = 14/39 (35%)

Query: 487 DEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           +E  +  +F   +        L   FS  G V+ V +  
Sbjct: 14  EERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIIS 52

>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 = 35.4 bits (81), Expect = 0.002
 Identities = 6/33 (18%), Positives = 14/33 (42%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVM 523
           +  + +  +P D  +  L  +F   GP+    +
Sbjct: 2   NTNLIVNYLPQDMTDRELYALFRAIGPINTCRI 34

>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 = 34.6 bits (79), Expect = 0.003
 Identities = 6/28 (21%), Positives = 13/28 (46%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPV 51
          +  + +  +P D  +  L  +F   GP+
Sbjct: 2  NTNLIVNYLPQDMTDRELYALFRAIGPI 29

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.4 bits (81), Expect = 0.002
 Identities = 17/77 (22%), Positives = 32/77 (41%)

Query: 26  KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPESPTAPKAISLDVISELVLILGQWA 85
           K+FIGG+ ++T +  L + F Q+G +        P +  +     +   +   +     A
Sbjct: 8   KLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA 67

Query: 86  TEGNLCGRVEVVPWAIS 102
               + GRV     A+S
Sbjct: 68  RPHKVDGRVVEPKRAVS 84

>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 = 35.4 bits (81), Expect = 0.002
 Identities = 10/35 (28%), Positives = 15/35 (42%)

Query: 27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPE 61
          +FI  + + T E  L  VFS+ G +K         
Sbjct: 1  LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKN 35

>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 = 34.6 bits (79), Expect = 0.003
 Identities = 9/25 (36%), Positives = 14/25 (56%)

Query: 494 IFIGGVPWDTPEYLLLTVFSQFGPV 518
           +FI  + + T E  L  VFS+ G +
Sbjct: 1   LFIKNLNFSTTEETLKGVFSKVGAI 25

>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 = 35.8 bits (82), Expect = 0.002
 Identities = 7/37 (18%), Positives = 18/37 (48%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTP 60
          +  ++I  +P+      +  +F ++GP++      TP
Sbjct: 7  NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP 43

>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 = 35.0 bits (80), Expect = 0.004
 Identities = 5/29 (17%), Positives = 16/29 (55%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVK 519
           +  ++I  +P+      +  +F ++GP++
Sbjct: 7   NRILYIRNLPYKITAEEMYDIFGKYGPIR 35

>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 = 35.0 bits (80), Expect = 0.004
 Identities = 9/64 (14%), Positives = 25/64 (39%), Gaps = 3/64 (4%)

Query: 116 EPGKTIFVGALHGRLTAQALYNVMNDLFGDVVYAGIDTDKHKYPIGSGRITFGSTRAYSD 175
           E  + +++  L  ++TA+ +Y++    +G +    I         G+  + +       +
Sbjct: 5   EVNRILYIRNLPYKITAEEMYDIFGK-YGPIRQ--IRVGNTPETRGTAYVVYEDIFDAKN 61

Query: 176 AIRA 179
           A   
Sbjct: 62  ACDH 65

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

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

 Score = 35.5 bits (81), Expect = 0.002
 Identities = 9/38 (23%), Positives = 14/38 (36%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEM 528
           ++ I++ G+        L   F Q G VK        M
Sbjct: 8   NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPM 45

>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 = 34.9 bits (80), Expect = 0.002
 Identities = 8/38 (21%), Positives = 21/38 (55%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEM 528
            +++F+G +P D  E  +  +F ++G    V +++ + 
Sbjct: 8   RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG 45

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 34.3 bits (78), Expect = 0.003
 Identities = 11/33 (33%), Positives = 17/33 (51%)

Query: 493 KIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNR 525
           KIF+GG+  +T    +   F QFG V   ++  
Sbjct: 1   KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMF 33

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.9 bits (77), Expect = 0.004
 Identities = 11/32 (34%), Positives = 15/32 (46%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQ 57
          KIF+GG+  +T    +   F QFG V      
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLM 32

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.4 bits (78), Expect = 0.003
 Identities = 2/32 (6%), Positives = 9/32 (28%)

Query: 26 KIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQ 57
           +++   P    +  +  +      V +    
Sbjct: 3  TLWMTNFPPSYTQRNIRDLLQDINVVALSIRL 34

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

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

 Score = 34.6 bits (79), Expect = 0.003
 Identities = 11/39 (28%), Positives = 23/39 (58%)

Query: 491 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMNRAEMS 529
           ++K+FIGG+P    +  +  + + FGP+KA  + +   +
Sbjct: 1   AHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSAT 39

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

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

 Score = 34.6 bits (79), Expect = 0.004
 Identities = 13/39 (33%), Positives = 21/39 (53%)

Query: 486 SDEILSNKIFIGGVPWDTPEYLLLTVFSQFGPVKAVVMN 524
            D+     +++G +  D  E L+L +FSQ GP K+  M 
Sbjct: 3   EDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMI 41

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 0.004
 Identities = 10/39 (25%), Positives = 18/39 (46%)

Query: 24 SNKIFIGGVPWDTPEYLLLTVFSQFGPVKVEWPQGTPES 62
          +  + + G+   T E  L  VFS++GP+         +S
Sbjct: 9  NCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQS 47

>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 = 34.3 bits (78), Expect = 0.004
 Identities = 11/29 (37%), Positives = 14/29 (48%)

Query: 27 IFIGGVPWDTPEYLLLTVFSQFGPVKVEW 55
          IFIG +  +  E LL   FS FG +    
Sbjct: 1  IFIGNLDPEIDEKLLYDTFSAFGVILQTP 29