Citrus Sinensis ID: 016532

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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-------39
Protein Sequence
MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREYERGRDRMRYRR
Secondary Structure (PSIPRED)
ccccccEEEEccccccccHHHHHHHHHHcccEEcccccccccEEEEcccccccccccEEEEcccHHHHHHHHHHHccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHccccHHHHHHHHHHHHHHcccccccccccHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHcc
Secondary Structure Prediction (SSPRO)
ccccccEEEEEcccccccHHHHHHHHHccEEEEEcccccccEEEEEEEcccccccccEEEEccccHHHHHHHHHHccccccccEEEEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHcccccccccccccccccEcccccccccccccccEEEEEcccccccccccccHHHHccccHEEcccccccccccccccccccccEHEEcccEccccccccccccccccccccccccccccccccccccHHHcccccccccccccccHHccccccHHHccc
Coil and Loop (DISEMBL)
mtmangsvyvcnlphgtdedMLAEYFGTIgllkkdkrtgrpkvwlyrdkttneykgdatvtyedpHAALAAVEWfnnkdfhgNLIGVFIaesrgkddhaynsaaaagdptvagdvsgldensrdvngfagrgrgrgdavgktwqqdgdwmcpntscsnvnfAFRGVcnrcgtarpvggpgaggraggrgrgragnesgsqgrqigaatglfgpndwscpmcgninwakrtkcnicntnkpghneggvrggrgggykeldeEELEETKRRRREaeaddgelyDEFGNLKKKFRAKTQQVEAAQvlpgagragweveelgvtdrdgrersrdrgreredrgsnkkrggddrerhrsrsrerdrgrdrdreyDYERAREYERGrdrmryrr
Flexible Loop (DISEMBL)
MTMANGSVYVCNLPHGTDEDMLAEYFGTIgllkkdkrtgrpkvwlyrdkttneykgdatvTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVngfagrgrgrgdaVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCgtarpvggpgaggraggrgrGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICntnkpghneggvrggrgggykeldeeeleetkrrrreaeaddgelydeFGNLKKKFRAKTQQVEAaqvlpgagragweveelgvtdrdgrersrdrgreredrgsnkkrggddrerhrsrsrerdrgrdrdreydyerareyergrdrmryrr
Low Complexity Region (SEG)
MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVNGFAgrgrgrgDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCgtarpvggpgaggraggrgrgragNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEggvrggrgggykeldeeeleetkrrrreaeaddgelYDEFGNLKKKFRAKTQQVEAAQVLPGAGRAGWEVEELGVTdrdgrersrdrgreredrgsNKKrggddrerhrsrsrerdrgrdrdreydyerareyergrdrmryrr
Disordered region (IsUnstruct)
******SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE***************************************************WQQDGDWMCPNTSCSNVNFAFRGVCNRCGTAR******************************GAATGLFGPNDWSCPMCGNINWAKRTKCNICNT************************************************************************AGWE***************************************************************************
Disordered Region (DISOPRED)
****NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYN*AA******************************************GDWMCPNTSCSNVNFAFRGVC*************************************************SCPMCGNINWAKRTKC**************************DEEE******************************************************************************************************************************
Disordered Region (DISEMBL)
MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG************************RQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKEL******************DGELYDEFGNLKKKFRAKTQQVEAAQVLPGAGRAGWEVEELGV**************************************************DYERAREYER*********
Disordered Region (DISPRO)
****NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGK**************************************************DGDWMCPNTSCSNVNFAFRGVCNRCG**************************************LFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELEETKRRR*******GELYDEFGNLKKKFR**********************E*************************************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYxxxxxxxxxxxxxxxxxxxxxxxxxxxxFGNLKKKFRAKTQQVEAAQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREYERGRDRMRYRR
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	388	2.2.26 [Sep-21-2011]
Q92804	592	TATA-binding protein-asso	yes	no	0.391	0.256	0.356	9e-26
Q01844	656	RNA-binding protein EWS O	no	no	0.427	0.253	0.369	5e-23
Q61545	655	RNA-binding protein EWS O	no	no	0.427	0.253	0.369	7e-23
P56959	518	RNA-binding protein FUS O	no	no	0.422	0.316	0.355	1e-21
Q28009	513	RNA-binding protein FUS O	no	no	0.422	0.319	0.355	2e-21
P35637	526	RNA-binding protein FUS O	no	no	0.422	0.311	0.355	2e-21
Q5ZLX5	334	Zinc finger Ran-binding d	no	no	0.306	0.356	0.435	5e-20
Q19QU3	328	Zinc finger Ran-binding d	no	no	0.306	0.362	0.428	1e-19
O35986	330	Zinc finger Ran-binding d	no	no	0.306	0.360	0.428	1e-19
Q9R020	330	Zinc finger Ran-binding d	no	no	0.306	0.360	0.428	1e-19

>sp|Q92804|RBP56_HUMAN TATA-binding protein-associated factor 2N OS=Homo sapiens GN=TAF15 PE=1 SV=1

 Score =  118 bits (295), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 61/171 (35%), Positives = 87/171 (50%), Gaps = 19/171 (11%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct: 233 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 292

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           P +A AA++WF+ K+FHGN+I V  A  R               P               
Sbjct: 293 PPSAKAAIDWFDGKEFHGNIIKVSFATRR---------------PEFMRGGGSGGGRRGR 337

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARP 175
                  G        K+    GDW+CPN SC N+NFA R  CN+C   RP
Sbjct: 338 GGYRGRGGFQGRGGDPKS----GDWVCPNPSCGNMNFARRNSCNQCNEPRP 384

RNA and ssDNA-binding protein that may play specific roles during transcription initiation at distinct promoters. Can enter the preinitiation complex together with the RNA polymerase II (Pol II).
Homo sapiens (taxid: 9606)

>sp|Q01844|EWS_HUMAN RNA-binding protein EWS OS=Homo sapiens GN=EWSR1 PE=1 SV=1

 Score =  109 bits (272), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 68/184 (36%), Positives = 91/184 (49%), Gaps = 18/184 (9%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N ++YV  L      D LA++F   G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct: 360 NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 419

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESR--------------GKDDHAYNSAAAAGDPT 110
           P  A AAVEWF+ KDF G+ + V +A  +              G+           G   
Sbjct: 420 PPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSMRGGLPPREGRGMPPPLRGGPGGPGG 479

Query: 111 VAGDVSGLDENSRDVNGFAGRG----RGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGV 166
             G +  +     D  GF  RG    RG     G    + GDW CPN  C N NFA+R  
Sbjct: 480 PGGPMGRMGGRGGDRGGFPPRGPRGSRGNPSGGGNVQHRAGDWQCPNPGCGNQNFAWRTE 539

Query: 167 CNRC 170
           CN+C
Sbjct: 540 CNQC 543

Might normally function as a repressor. EWS-fusion-proteins (EFPS) may play a role in the tumorigenic process. They may disturb gene expression by mimicking, or interfering with the normal function of CTD-POLII within the transcription initiation complex. They may also contribute to an aberrant activation of the fusion protein target genes.

Homo sapiens (taxid: 9606)

>sp|Q61545|EWS_MOUSE RNA-binding protein EWS OS=Mus musculus GN=Ewsr1 PE=1 SV=2

 Score =  108 bits (270), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 68/184 (36%), Positives = 91/184 (49%), Gaps = 18/184 (9%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N ++YV  L      D LA++F   G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct: 359 NSAIYVQGLNDNVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 418

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESR--------------GKDDHAYNSAAAAGDPT 110
           P  A AAVEWF+ KDF G+ + V +A  +              G+           G   
Sbjct: 419 PPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMNSMRGGMPPREGRGMPPPLRGGPGGPGG 478

Query: 111 VAGDVSGLDENSRDVNGFAGRG----RGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGV 166
             G +  +     D  GF  RG    RG     G    + GDW CPN  C N NFA+R  
Sbjct: 479 PGGPMGRMGGRGGDRGGFPPRGPRGSRGNPSGGGNVQHRAGDWQCPNPGCGNQNFAWRTE 538

Query: 167 CNRC 170
           CN+C
Sbjct: 539 CNQC 542

Might function as a repressor.

Mus musculus (taxid: 10090)

>sp|P56959|FUS_MOUSE RNA-binding protein FUS OS=Mus musculus GN=Fus PE=2 SV=1

 Score =  104 bits (259), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 89/166 (53%), Gaps = 2/166 (1%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 277 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 336

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           P +A AA++WF+ K+F GN I V  A  R   D         G     G +         
Sbjct: 337 PPSAKAAIDWFDGKEFSGNPIKVSFATRRA--DFNRGGGNGRGGRGRGGPMGRGGYGGGG 394

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRC 170
             G    G   G   G   Q+ GDW CPN +C N+NF++R  CN+C
Sbjct: 395 SGGGGRGGFPSGGGGGGGQQRAGDWKCPNPTCENMNFSWRNECNQC 440

Binds both single-stranded and double-stranded DNA and promotes ATP-independent annealing of complementary single-stranded DNAs and D-loop formation in superhelical double-stranded DNA. May play a role in maintenance of genomic integrity.

Mus musculus (taxid: 10090)

>sp|Q28009|FUS_BOVIN RNA-binding protein FUS OS=Bos taurus GN=FUS PE=2 SV=2

 Score =  103 bits (258), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 89/166 (53%), Gaps = 2/166 (1%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 271 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 330

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           P +A AA++WF+ K+F GN I V  A  R   D         G     G +         
Sbjct: 331 PPSAKAAIDWFDGKEFSGNPIKVSFATRRA--DFNRGGGNGRGGRGRGGPMGRGGYGGGG 388

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRC 170
             G    G   G   G   Q+ GDW CPN +C N+NF++R  CN+C
Sbjct: 389 SGGGGRGGFPSGGGGGGGQQRAGDWKCPNPTCENMNFSWRNECNQC 434

Binds both single-stranded and double-stranded DNA and promotes ATP-independent annealing of complementary single-stranded DNAs and D-loop formation in superhelical double-stranded DNA. May play a role in maintenance of genomic integrity.

Bos taurus (taxid: 9913)

>sp|P35637|FUS_HUMAN RNA-binding protein FUS OS=Homo sapiens GN=FUS PE=1 SV=1

 Score =  103 bits (258), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 89/166 (53%), Gaps = 2/166 (1%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 284 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 343

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           P +A AA++WF+ K+F GN I V  A  R   D         G     G +         
Sbjct: 344 PPSAKAAIDWFDGKEFSGNPIKVSFATRRA--DFNRGGGNGRGGRGRGGPMGRGGYGGGG 401

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRC 170
             G    G   G   G   Q+ GDW CPN +C N+NF++R  CN+C
Sbjct: 402 SGGGGRGGFPSGGGGGGGQQRAGDWKCPNPTCENMNFSWRNECNQC 447

Binds both single-stranded and double-stranded DNA and promotes ATP-independent annealing of complementary single-stranded DNAs and D-loop formation in superhelical double-stranded DNA. May play a role in maintenance of genomic integrity.

Homo sapiens (taxid: 9606)

>sp|Q5ZLX5|ZRAB2_CHICK Zinc finger Ran-binding domain-containing protein 2 OS=Gallus gallus GN=ZRANB2 PE=2 SV=1

 Score = 99.0 bits (245), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 61/140 (43%), Positives = 76/140 (54%), Gaps = 21/140 (15%)

Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQI 204
            DGDW+CP+  C NVNFA R  CNRCG  R         +AGG   G+   E        
Sbjct: 9   SDGDWICPDKKCGNVNFARRTSCNRCG--REKTTEAKMMKAGGTEIGKTLAEK------- 59

Query: 205 GAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELE 264
             + GLF  NDW C  CGN+NWA+R++CN+CNT  P + +   R G GGG+ E   E +E
Sbjct: 60  --SRGLFSANDWQCKTCGNVNWARRSECNMCNT--PKYAKLEERTGYGGGFNE--RENVE 113

Query: 265 ETKRRRREAEADDGELYDEF 284
             +R     E  DGE YDEF
Sbjct: 114 YIER-----EESDGE-YDEF 127

May regulate alternative splicing by interfering with constitutive 5'-splice site selection.

Gallus gallus (taxid: 9031)

>sp|Q19QU3|ZRAB2_PIG Zinc finger Ran-binding domain-containing protein 2 OS=Sus scrofa GN=ZRANB2 PE=2 SV=1

 Score = 98.2 bits (243), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/140 (42%), Positives = 75/140 (53%), Gaps = 21/140 (15%)

Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQI 204
            DGDW+CP+  C NVNFA R  CNRCG  R         +AGG   G+   E        
Sbjct: 9   SDGDWICPDKKCGNVNFARRTSCNRCG--REKTTEAKMMKAGGTEIGKTLAEK------- 59

Query: 205 GAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELE 264
             + GLF  NDW C  C N+NWA+R++CN+CNT  P + +   R G GGG+ E   E +E
Sbjct: 60  --SRGLFSANDWQCKTCSNVNWARRSECNMCNT--PKYAKLEERTGYGGGFNE--RENVE 113

Query: 265 ETKRRRREAEADDGELYDEF 284
             +R     E  DGE YDEF
Sbjct: 114 YIER-----EESDGE-YDEF 127

Splice factor required for alternative splicing of TRA2B/SFRS10 transcripts. May interfere with constitutive 5'-splice site selection.

Sus scrofa (taxid: 9823)

>sp|O35986|ZRAB2_RAT Zinc finger Ran-binding domain-containing protein 2 OS=Rattus norvegicus GN=Zranb2 PE=2 SV=2

 Score = 97.8 bits (242), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/140 (42%), Positives = 75/140 (53%), Gaps = 21/140 (15%)

Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQI 204
            DGDW+CP+  C NVNFA R  CNRCG  R         +AGG   G+   E        
Sbjct: 9   SDGDWICPDKKCGNVNFARRTSCNRCG--REKTTEAKMMKAGGTEIGKTLAEK------- 59

Query: 205 GAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELE 264
             + GLF  NDW C  C N+NWA+R++CN+CNT  P + +   R G GGG+ E   E +E
Sbjct: 60  --SRGLFSANDWQCKTCSNVNWARRSECNMCNT--PKYAKLEERTGYGGGFNE--RENVE 113

Query: 265 ETKRRRREAEADDGELYDEF 284
             +R     E  DGE YDEF
Sbjct: 114 YIER-----EESDGE-YDEF 127

Splice factor required for alternative splicing of TRA2B/SFRS10 transcripts. May interfere with constitutive 5'-splice site selection.

Rattus norvegicus (taxid: 10116)

>sp|Q9R020|ZRAB2_MOUSE Zinc finger Ran-binding domain-containing protein 2 OS=Mus musculus GN=Zranb2 PE=1 SV=2

 Score = 97.8 bits (242), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 60/140 (42%), Positives = 75/140 (53%), Gaps = 21/140 (15%)

Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQI 204
            DGDW+CP+  C NVNFA R  CNRCG  R         +AGG   G+   E        
Sbjct: 9   SDGDWICPDKKCGNVNFARRTSCNRCG--REKTTEAKMMKAGGTEIGKTLAEK------- 59

Query: 205 GAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELE 264
             + GLF  NDW C  C N+NWA+R++CN+CNT  P + +   R G GGG+ E   E +E
Sbjct: 60  --SRGLFSANDWQCKTCSNVNWARRSECNMCNT--PKYAKLEERTGYGGGFNE--RENVE 113

Query: 265 ETKRRRREAEADDGELYDEF 284
             +R     E  DGE YDEF
Sbjct: 114 YIER-----EESDGE-YDEF 127

Splice factor required for alternative splicing of TRA2B/SFRS10 transcripts. May interfere with constitutive 5'-splice site selection.

Mus musculus (taxid: 10090)

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	388
225425084	414	PREDICTED: uncharacterized protein LOC10	0.871	0.816	0.829	1e-136
224109048	387	predicted protein [Populus trichocarpa]	0.971	0.974	0.751	1e-129
255559159	483	RNA binding protein, putative [Ricinus c	0.868	0.697	0.785	1e-122
363808018	365	uncharacterized protein LOC100780819 [Gl	0.891	0.947	0.727	1e-122
449494688	396	PREDICTED: uncharacterized LOC101219150	0.981	0.962	0.757	1e-122
224098862	380	predicted protein [Populus trichocarpa]	0.804	0.821	0.777	1e-120
297852730	314	hypothetical protein ARALYDRAFT_891960 [	0.775	0.958	0.727	1e-111
115471625	394	Os07g0296200 [Oryza sativa Japonica Grou	0.963	0.949	0.681	1e-110
218201876	471	hypothetical protein OsI_30792 [Oryza sa	0.778	0.641	0.744	1e-110
50725051	414	RNA-binding protein-like [Oryza sativa J	0.778	0.729	0.744	1e-109

>gi|225425084|ref|XP_002273586.1| PREDICTED: uncharacterized protein LOC100249627 [Vitis vinifera] gi|297738257|emb|CBI27458.3| unnamed protein product [Vitis vinifera]

 Score =  491 bits (1263), Expect = e-136,   Method: Compositional matrix adjust.
 Identities = 283/341 (82%), Positives = 302/341 (88%), Gaps = 3/341 (0%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +NGSVYVCNLPHGTDE MLAEYFGTIGL+KKDKRTGRPK+WLYRDK TNE KGDATVTYE
Sbjct: 11  SNGSVYVCNLPHGTDETMLAEYFGTIGLIKKDKRTGRPKIWLYRDKVTNEPKGDATVTYE 70

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNS---AAAAGDPTVAGDVSGLDE 120
           DPHAALAAVEWFNNKDFHG++IGVFIAES+ KDDH+YNS       GDP  A D+ GL+E
Sbjct: 71  DPHAALAAVEWFNNKDFHGSIIGVFIAESKNKDDHSYNSGNQVNDVGDPGAASDLRGLEE 130

Query: 121 NSRDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPG 180
           +  D+NG AGRGRGRGDA GK WQQDGDW+CPNTSCSNVNFAFRGVCNRCG+ARP G  G
Sbjct: 131 DPLDMNGSAGRGRGRGDAAGKAWQQDGDWLCPNTSCSNVNFAFRGVCNRCGSARPSGVSG 190

Query: 181 AGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKP 240
           +G  AGGRGRGR G +S   GR +GA TGLFGPNDW CPMCGNINWAKRTKCNICNTNKP
Sbjct: 191 SGAGAGGRGRGRGGPDSAGHGRSVGAPTGLFGPNDWPCPMCGNINWAKRTKCNICNTNKP 250

Query: 241 GHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEA 300
           GHNEGGVRGGRGGGYKELDEEELEETKRRRREAE DDGELYDEFGNLKKKFRAKTQQ EA
Sbjct: 251 GHNEGGVRGGRGGGYKELDEEELEETKRRRREAEEDDGELYDEFGNLKKKFRAKTQQAEA 310

Query: 301 AQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSN 341
            QVLPGAGRAGWEVEELG+ DRDGRERS+DRGRER+DR  N
Sbjct: 311 GQVLPGAGRAGWEVEELGMADRDGRERSKDRGRERDDREKN 351

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224109048|ref|XP_002315063.1| predicted protein [Populus trichocarpa] gi|222864103|gb|EEF01234.1| predicted protein [Populus trichocarpa]

 Score =  467 bits (1201), Expect = e-129,   Method: Compositional matrix adjust.
 Identities = 288/383 (75%), Positives = 319/383 (83%), Gaps = 6/383 (1%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +NG++YV NLP GTD+ MLAE+FGTIGLLKKDKRTGRPK+WLYRDK TNE KGDATVTYE
Sbjct: 11  SNGTIYVSNLPEGTDDSMLAEHFGTIGLLKKDKRTGRPKIWLYRDKMTNEPKGDATVTYE 70

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSR 123
           DPHAALAAVEWFNNKDFHGN IGVFIA+S+ KDD A+N      D  V      L+EN++
Sbjct: 71  DPHAALAAVEWFNNKDFHGNTIGVFIAQSKSKDDQAFNPVDDPNDSGV------LEENAK 124

Query: 124 DVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGG 183
           D+N   GRGRGRGDA GK WQQ+GDW+CPNTSCSNVNFAFRGVCN CG+ARP G  G   
Sbjct: 125 DLNEGGGRGRGRGDASGKAWQQEGDWLCPNTSCSNVNFAFRGVCNLCGSARPSGPSGGAA 184

Query: 184 RAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243
             GGRGRGR  N+SG+ GR +GA TGLFGPNDW CPMCGNINWAKR KCNICNTNKPGHN
Sbjct: 185 GGGGRGRGRGANDSGAHGRSVGAPTGLFGPNDWPCPMCGNINWAKRMKCNICNTNKPGHN 244

Query: 244 EGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQV 303
           E GVRGGR GGYKELDEEELEETKRRR+EAE DDGELYDEFGNLKKKFRAKTQQ EA +V
Sbjct: 245 EAGVRGGRAGGYKELDEEELEETKRRRKEAEEDDGELYDEFGNLKKKFRAKTQQAEAGRV 304

Query: 304 LPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGR 363
           L GAGRAGWEVEELG  D+ GRERSR+RGR+++DR S+K R  D+R+R  SRSRERDRGR
Sbjct: 305 LLGAGRAGWEVEELGAVDKHGRERSRERGRDQDDRESSKTREHDERDRRLSRSRERDRGR 364

Query: 364 DRDREYDYERAREYERGRDRMRY 386
           DRDR+Y+Y R REY R R R RY
Sbjct: 365 DRDRDYEYGRDREYGRDRHRHRY 387

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255559159|ref|XP_002520601.1| RNA binding protein, putative [Ricinus communis] gi|223540200|gb|EEF41774.1| RNA binding protein, putative [Ricinus communis]

 Score =  444 bits (1141), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 268/341 (78%), Positives = 289/341 (84%), Gaps = 4/341 (1%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           ANGSVYVCNLP GTDEDMLAEYFGTIGLLKKDKRTGRPK+WLYRDK TNE KGDATVTYE
Sbjct: 12  ANGSVYVCNLPQGTDEDMLAEYFGTIGLLKKDKRTGRPKIWLYRDKLTNEPKGDATVTYE 71

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSR 123
           DPHAA AA+EWFNNKDFHGNLIGVF+AES+ KD+HAYNS     DP   GD  GL+E + 
Sbjct: 72  DPHAAQAAIEWFNNKDFHGNLIGVFMAESKNKDEHAYNSEV---DPNAVGDFGGLEETAG 128

Query: 124 DVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGG 183
           D+N   GRGRG+GDA GK WQQ+GDW+CPNTSCSNVNFAFRGVCNRCG+ARP G  G   
Sbjct: 129 DMNDDGGRGRGKGDASGKAWQQEGDWLCPNTSCSNVNFAFRGVCNRCGSARPSGASGGSA 188

Query: 184 RAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243
            AG        N SG  GR    +TGLFGPNDW CPMCGNINWAKRTKCNICNTNKPGHN
Sbjct: 189 GAGRGRGRGGQN-SGGLGRAATGSTGLFGPNDWPCPMCGNINWAKRTKCNICNTNKPGHN 247

Query: 244 EGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQV 303
           EGGVRGGRGGGYKELDEEE+EET+RRR+EAE DDGELYDEFGNLKKKFRAKTQQ E+ +V
Sbjct: 248 EGGVRGGRGGGYKELDEEEIEETRRRRKEAEEDDGELYDEFGNLKKKFRAKTQQAESGRV 307

Query: 304 LPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKR 344
           LPGAGRAGWEVEELGV DRDGRERSR+R RER+DR S+K R
Sbjct: 308 LPGAGRAGWEVEELGVIDRDGRERSRERVRERDDRESSKNR 348

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363808018|ref|NP_001241952.1| uncharacterized protein LOC100780819 [Glycine max] gi|255646988|gb|ACU23963.1| unknown [Glycine max]

 Score =  443 bits (1139), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 259/356 (72%), Positives = 287/356 (80%), Gaps = 10/356 (2%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +NGS YVCNLP+GTD++MLAEYFGTIGL+KKDKRTGRPK+WLYRDK TNE KGDATVTYE
Sbjct: 11  SNGSAYVCNLPYGTDDNMLAEYFGTIGLIKKDKRTGRPKIWLYRDKETNEPKGDATVTYE 70

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSR 123
           DPHAA+AAVEWFNNKDFHGN IGVFIAES+ KDD AYN+A    +P V  +V GL+E ++
Sbjct: 71  DPHAAVAAVEWFNNKDFHGNTIGVFIAESKNKDDQAYNAAV---EPGVTDNVGGLEETTK 127

Query: 124 DVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGG 183
           DVNG +GRGRG+ D  GK WQQDGDW+C NTSCSNVNFAFRG CNRCGTARP    GA G
Sbjct: 128 DVNGGSGRGRGQNDTSGKAWQQDGDWLCLNTSCSNVNFAFRGACNRCGTARPA---GASG 184

Query: 184 RAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243
            +G  GRG+      S G    A  GLFGPNDW CPMCGNINWAKRTKCNICNTNKPGHN
Sbjct: 185 ISGAGGRGKGRAAQESGGIGRPAGGGLFGPNDWPCPMCGNINWAKRTKCNICNTNKPGHN 244

Query: 244 EGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQV 303
           EGGVRGGRGGGYKE  +EE  E  RRRR    DDGELYDEFGNLKKKFRAKTQQ EAA+ 
Sbjct: 245 EGGVRGGRGGGYKE-LDEEEIEETRRRRREAEDDGELYDEFGNLKKKFRAKTQQAEAARG 303

Query: 304 LPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRER 359
           LPG+GRAGWEVEELG+ DRD RE SRDRGRER D G ++ R   ++ER  S +RER
Sbjct: 304 LPGSGRAGWEVEELGI-DRDARE-SRDRGRERND-GESRNRERSEKERPSSWNRER 356

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449494688|ref|XP_004159619.1| PREDICTED: uncharacterized LOC101219150 [Cucumis sativus]

 Score =  442 bits (1138), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 294/388 (75%), Positives = 334/388 (86%), Gaps = 7/388 (1%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +NGS+Y+CNLP+GTDE+MLAEYFGTIG+LKKDKRTGRPK+WLYRDK+TNE KGDATVTYE
Sbjct: 11  SNGSIYICNLPYGTDENMLAEYFGTIGVLKKDKRTGRPKIWLYRDKSTNEPKGDATVTYE 70

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVA-GDVSGLDENS 122
           DPHAALAAVEWFNNKDFHG++I V IAES+ KDD ++N      DP VA GD  G +E +
Sbjct: 71  DPHAALAAVEWFNNKDFHGSIIEVHIAESKSKDDLSFNVVV---DPIVAAGDDIGSEETA 127

Query: 123 RDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAG 182
             +NG  GRGRGRGDA GK WQQ+GDW+CPNTSCSNVNFAFRGVCNRCG+ARP G  G+G
Sbjct: 128 VGMNGGGGRGRGRGDAPGKAWQQEGDWLCPNTSCSNVNFAFRGVCNRCGSARPSGAAGSG 187

Query: 183 GRAGGRGRGR--AGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKP 240
             + GRGRGR  +  +SG   RQ+GA TGLFGPNDW CPMCGNINWAKRTKCNICNTNKP
Sbjct: 188 AGSIGRGRGRGTSNQDSGGNSRQVGAPTGLFGPNDWPCPMCGNINWAKRTKCNICNTNKP 247

Query: 241 GHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEA 300
           GHNEGGVRGGRGGGYKELDEEELEETKRRRREAE DDGE+YDEFGNLKKKFRAK+QQ+EA
Sbjct: 248 GHNEGGVRGGRGGGYKELDEEELEETKRRRREAEEDDGEMYDEFGNLKKKFRAKSQQMEA 307

Query: 301 AQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERD 360
            ++LPGAGRAGWEVEELGV ++D RERSRDRGR+ +DR S++ R  + RERHRSRSRERD
Sbjct: 308 GRILPGAGRAGWEVEELGVVEKDRRERSRDRGRDWDDRDSSRNRERESRERHRSRSRERD 367

Query: 361 RGRDRDREYDYERAREYERGRD-RMRYR 387
           RGRDRD +Y+YER REY R +D R R+R
Sbjct: 368 RGRDRDLDYEYERDREYGRDKDHRNRHR 395

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224098862|ref|XP_002311296.1| predicted protein [Populus trichocarpa] gi|222851116|gb|EEE88663.1| predicted protein [Populus trichocarpa]

 Score =  436 bits (1122), Expect = e-120,   Method: Compositional matrix adjust.
 Identities = 248/319 (77%), Positives = 273/319 (85%), Gaps = 7/319 (2%)

Query: 4   ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +NG++Y+ NLP GTD+ MLA YFGTIGLLKKDKRTGRPK+WLYRDK TNE KGDATVTYE
Sbjct: 11  SNGTIYISNLPEGTDDIMLAGYFGTIGLLKKDKRTGRPKIWLYRDKMTNEPKGDATVTYE 70

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSR 123
           DPHAALAAVEWFNNKDFHGN+IGVFIA+S+ KDD  YNS     DP    D  G +EN++
Sbjct: 71  DPHAALAAVEWFNNKDFHGNIIGVFIAQSKSKDDTVYNSV---DDPN---DFGGFEENAK 124

Query: 124 DVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGG 183
           D+N   GRGRG+ DA GK WQQDGDW+CPNTSCSNVNFAFRGVCNRC +ARP G  G G 
Sbjct: 125 DLNEGGGRGRGQDDASGKAWQQDGDWLCPNTSCSNVNFAFRGVCNRCASARPSGPSGGGA 184

Query: 184 RAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243
            AGG GRGR  N+ G  GR +GA TGLFGPNDW+CPMCGNINWAKR+KCN+CNTNKPGHN
Sbjct: 185 GAGGHGRGRGANDIGVPGRSVGAPTGLFGPNDWTCPMCGNINWAKRSKCNVCNTNKPGHN 244

Query: 244 EGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQV 303
           EGGVRGGRGGGYKELDEEELEETKRRR+EAE DDGELYDEFGNLKKKFRAKTQQ EA +V
Sbjct: 245 EGGVRGGRGGGYKELDEEELEETKRRRKEAE-DDGELYDEFGNLKKKFRAKTQQAEAGKV 303

Query: 304 LPGAGRAGWEVEELGVTDR 322
           LPGAGRAGWEVEE+GV D+
Sbjct: 304 LPGAGRAGWEVEEIGVGDK 322

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297852730|ref|XP_002894246.1| hypothetical protein ARALYDRAFT_891960 [Arabidopsis lyrata subsp. lyrata] gi|297340088|gb|EFH70505.1| hypothetical protein ARALYDRAFT_891960 [Arabidopsis lyrata subsp. lyrata]

 Score =  407 bits (1045), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 230/316 (72%), Positives = 250/316 (79%), Gaps = 15/316 (4%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           NGSVYV NLP GTDE+MLAEYFGTIGLLK+DKRTG PKVWLYRDK T+E KGDATVTYED
Sbjct: 12  NGSVYVSNLPLGTDENMLAEYFGTIGLLKRDKRTGTPKVWLYRDKETDEPKGDATVTYED 71

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           PHAALAAVEWFNNKDFHGN IGVF+AESR K         +AGD   A +    D  +++
Sbjct: 72  PHAALAAVEWFNNKDFHGNTIGVFMAESRHK---------SAGD---AVEFVEFDGGAQE 119

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR 184
            N  AGRGRG+ D   K WQQDGDWMCPNTSC+NVNFAFRGVCNRCGTARP G  G    
Sbjct: 120 TNEGAGRGRGQADPSAKPWQQDGDWMCPNTSCTNVNFAFRGVCNRCGTARPAGASGGSMG 179

Query: 185 AGGRGRGRAGNESGSQG--RQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGH 242
           AGGRGRGR G   G     +  GA TGLFGPNDW+CPMCGN+NWAKR KCNICNTN+PG 
Sbjct: 180 AGGRGRGRGGGADGGAPGKQPSGAPTGLFGPNDWACPMCGNVNWAKRLKCNICNTNRPGQ 239

Query: 243 NEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQ 302
           NEGGVRGGRGGGYKELDE+ELEETKRRRREAE DDGE+YDEFGNLKKK+R K  Q +   
Sbjct: 240 NEGGVRGGRGGGYKELDEQELEETKRRRREAEEDDGEMYDEFGNLKKKYRVKASQADTRP 299

Query: 303 VLPGAGRAGWEVEELG 318
            +  AGRAGWEVEELG
Sbjct: 300 AV-AAGRAGWEVEELG 314

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|115471625|ref|NP_001059411.1| Os07g0296200 [Oryza sativa Japonica Group] gi|34394336|dbj|BAC84891.1| RRM-containing RNA-binding protein-like [Oryza sativa Japonica Group] gi|113610947|dbj|BAF21325.1| Os07g0296200 [Oryza sativa Japonica Group] gi|215693885|dbj|BAG89084.1| unnamed protein product [Oryza sativa Japonica Group] gi|222636864|gb|EEE66996.1| hypothetical protein OsJ_23906 [Oryza sativa Japonica Group]

 Score =  405 bits (1042), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 268/393 (68%), Positives = 298/393 (75%), Gaps = 19/393 (4%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           NGSVYVCNLP GTDE MLAEYFGTIGLLKKDKRTGRPK+W+YRDK TNE KGDATVTYED
Sbjct: 11  NGSVYVCNLPPGTDETMLAEYFGTIGLLKKDKRTGRPKIWIYRDKVTNEPKGDATVTYED 70

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           PHAA AAVEWFNNKDFHG+ I V IAES+ KD    N ++A      + ++ G DE    
Sbjct: 71  PHAASAAVEWFNNKDFHGSTIQVHIAESKNKD---MNDSSATASLNNSAELGGQDE---- 123

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR 184
           ++   GRGRGRGD  GK WQQDGDW+CPNTSC NVNFAFRGVCN CG ARP G  G+   
Sbjct: 124 LDNGEGRGRGRGDGPGKAWQQDGDWLCPNTSCGNVNFAFRGVCNLCGAARPAGVSGSSAG 183

Query: 185 AGGRGRGRAGNESGSQGRQIGAATG-----LFGPNDWSCPMCGNINWAKRTKCNICNTNK 239
            GGRGRGR  +++    R   AA       LFGPNDW CPMCGNINWAKR KCNICNT K
Sbjct: 184 GGGRGRGRGSDDARGGSRAAAAAAVGGPPGLFGPNDWPCPMCGNINWAKRMKCNICNTTK 243

Query: 240 PGHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVE 299
           PGHNEGGVRGGRGGGYKELDEEELEE KRRR+EAE DDGE+YDEFGNLKKKFRAKTQQ E
Sbjct: 244 PGHNEGGVRGGRGGGYKELDEEELEEVKRRRKEAEEDDGEMYDEFGNLKKKFRAKTQQTE 303

Query: 300 AAQVLPGAGRAGWEVEELGVTDRDGRERSRDRGR-----EREDRGSNKKRGGDDRERHRS 354
            A  LPG+GRAGWEVE+ G T R+G+ERSRD+GR     ER+ R  N+ RG   RER RS
Sbjct: 304 NAPTLPGSGRAGWEVEQRGSTGREGKERSRDQGRDHDYDERDSR--NRDRGSHGRERRRS 361

Query: 355 RSRERDRGRDRDREYDYERAREYERGRDRMRYR 387
           R RE++RGRD  R++ YER+ E    RD  RYR
Sbjct: 362 RDREKERGRDTGRDHSYERSWERGTERDHDRYR 394

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|218201876|gb|EEC84303.1| hypothetical protein OsI_30792 [Oryza sativa Indica Group]

 Score =  405 bits (1041), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 233/313 (74%), Positives = 254/313 (81%), Gaps = 11/313 (3%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           NGSVYVCNLP GTDE MLA+YFGTIGLLKKDKRTGRPK+W+YRDK TNE KGDATVTYED
Sbjct: 68  NGSVYVCNLPPGTDETMLADYFGTIGLLKKDKRTGRPKIWIYRDKVTNEPKGDATVTYED 127

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           PHAA AAVEWFNNKDFHG+ I V IAES+ KD   Y+++A+  +    G    LD     
Sbjct: 128 PHAASAAVEWFNNKDFHGSTIQVHIAESKNKD--TYDNSASLNNSAGLGGQDELD----- 180

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR 184
            NG AGRGRG GD  GK WQQDGDW+CPNTSC NVNFAFRGVCNRCG ARP G  G+G  
Sbjct: 181 -NG-AGRGRGHGDGPGKAWQQDGDWLCPNTSCGNVNFAFRGVCNRCGAARPAGVSGSGAG 238

Query: 185 AGGRGRGRAGNES--GSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGH 242
            GGRGRGR  +++  GS+   +G   GLFGPNDWSCPMCGNINWAKR KCNICNT KPGH
Sbjct: 239 GGGRGRGRGSDDAKGGSRAAAVGGPPGLFGPNDWSCPMCGNINWAKRMKCNICNTTKPGH 298

Query: 243 NEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQ 302
           NEGGVRGGRGGGYKELDEEELEE KRRR+EAE DDGE+YDEFGNLKKKFRAKTQQ E A 
Sbjct: 299 NEGGVRGGRGGGYKELDEEELEEVKRRRKEAEEDDGEMYDEFGNLKKKFRAKTQQTENAP 358

Query: 303 VLPGAGRAGWEVE 315
            LPG+GRAGWEV+
Sbjct: 359 TLPGSGRAGWEVQ 371

Source: Oryza sativa Indica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|50725051|dbj|BAD33184.1| RNA-binding protein-like [Oryza sativa Japonica Group] gi|222641273|gb|EEE69405.1| hypothetical protein OsJ_28765 [Oryza sativa Japonica Group]

 Score =  402 bits (1034), Expect = e-109,   Method: Compositional matrix adjust.
 Identities = 233/313 (74%), Positives = 254/313 (81%), Gaps = 11/313 (3%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           NGSVYVCNLP GTDE MLA+YFGTIGLLKKDKRTGRPK+W+YRDK TNE KGDATVTYED
Sbjct: 11  NGSVYVCNLPPGTDETMLADYFGTIGLLKKDKRTGRPKIWIYRDKVTNEPKGDATVTYED 70

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
           PHAA AAVEWFNNKDFHG+ I V IAES+ KD   Y+++A+  +    G    LD     
Sbjct: 71  PHAASAAVEWFNNKDFHGSTIQVHIAESKNKD--TYDNSASLNNSAGLGGQDELD----- 123

Query: 125 VNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR 184
            NG AGRGRG GD  GK WQQDGDW+CPNTSC NVNFAFRGVCNRCG ARP G  G+G  
Sbjct: 124 -NG-AGRGRGHGDGPGKAWQQDGDWLCPNTSCGNVNFAFRGVCNRCGAARPAGVSGSGAG 181

Query: 185 AGGRGRGRAGNES--GSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGH 242
            GGRGRGR  +++  GS+   +G   GLFGPNDWSCPMCGNINWAKR KCNICNT KPGH
Sbjct: 182 GGGRGRGRGSDDAKGGSRAAAVGGPPGLFGPNDWSCPMCGNINWAKRMKCNICNTTKPGH 241

Query: 243 NEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQ 302
           NEGGVRGGRGGGYKELDEEELEE KRRR+EAE DDGE+YDEFGNLKKKFRAKTQQ E A 
Sbjct: 242 NEGGVRGGRGGGYKELDEEELEEVKRRRKEAEEDDGEMYDEFGNLKKKFRAKTQQTENAP 301

Query: 303 VLPGAGRAGWEVE 315
            LPG+GRAGWEV+
Sbjct: 302 TLPGSGRAGWEVQ 314

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	388
TAIR|locus:2011967	372	TAF15 "TBP-associated factor 1	0.587	0.612	0.634	1.3e-92
UNIPROTKB|F1S187	406	LOC100518332 "Uncharacterized	0.229	0.219	0.449	6e-28
UNIPROTKB|K7EPT6	449	TAF15 "TATA-binding protein-as	0.229	0.198	0.449	1.3e-27
UNIPROTKB|E1BGX1	470	E1BGX1 "Uncharacterized protei	0.229	0.189	0.449	1.7e-27
RGD|1307258	317	Ewsr1 "Ewing sarcoma breakpoin	0.229	0.280	0.483	2.2e-27
RGD|1309595	554	Taf15 "TAF15 RNA polymerase II	0.229	0.160	0.449	3e-27
UNIPROTKB|D3ZZM1	558	Taf15 "Protein Taf15" [Rattus	0.229	0.159	0.449	3.1e-27
UNIPROTKB|F1PB61	571	TAF15 "Uncharacterized protein	0.229	0.155	0.449	4.4e-27
UNIPROTKB|Q92804	592	TAF15 "TATA-binding protein-as	0.229	0.150	0.449	5.1e-27
UNIPROTKB|F1LWL0	441	F1LWL0 "Uncharacterized protei	0.229	0.201	0.449	1.2e-26

TAIR|locus:2011967 TAF15 "TBP-associated factor 15" [Arabidopsis thaliana (taxid:3702)]

 Score = 804 (288.1 bits), Expect = 1.3e-92, Sum P(2) = 1.3e-92
 Identities = 153/241 (63%), Positives = 170/241 (70%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             NGSVYV NLP GTDE+MLA+YFGTIGLLK+DKRTG PKVWLYRDK T+E KGDATVTYED
Sbjct:     7 NGSVYVSNLPLGTDENMLADYFGTIGLLKRDKRTGTPKVWLYRDKETDEPKGDATVTYED 66

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRD 124
             PHAALAAVEWFNNKDFHGN IGVF+AES+ K+         AGD   A +    D  + +
Sbjct:    67 PHAALAAVEWFNNKDFHGNTIGVFMAESKNKN---------AGD---AVEFVEFDGGAEE 114

Query:   125 VNGFAXXXXXXXDAVGKTWQQDGDWMCPNTSCSNVNFAFRGVCNRCXXXXXXXXXXXXXX 184
              NG A       D+  K WQQDGDWMCPNTSC+NVNFAFRGVCNRC              
Sbjct:   115 TNGGAGRGRGQADSSAKPWQQDGDWMCPNTSCTNVNFAFRGVCNRCGTARPAGASGGSMG 174

Query:   185 XXXXXXXXXXNESGSQGRQ-IGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN 243
                        + G+ G+Q  GA TGLFGPNDW+CPMCGN+NWAKR KCNICNTNKPG N
Sbjct:   175 AGRGRGRGGGADGGAPGKQPSGAPTGLFGPNDWACPMCGNVNWAKRLKCNICNTNKPGQN 234

Query:   244 E 244
             E
Sbjct:   235 E 235

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005622 "intracellular" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1S187 LOC100518332 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 229 (85.7 bits), Expect = 6.0e-28, Sum P(2) = 6.0e-28
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:    36 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 95

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:    96 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 124

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|K7EPT6 TAF15 "TATA-binding protein-associated factor 2N" [Homo sapiens (taxid:9606)]

 Score = 229 (85.7 bits), Expect = 1.3e-27, Sum P(2) = 1.3e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   142 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 201

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   202 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 230

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|E1BGX1 E1BGX1 "Uncharacterized protein" [Bos taurus (taxid:9913)]

 Score = 229 (85.7 bits), Expect = 1.7e-27, Sum P(2) = 1.7e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   269 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 328

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   329 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 357

GO:0005737 "cytoplasm" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

RGD|1307258 Ewsr1 "Ewing sarcoma breakpoint region 1" [Rattus norvegicus (taxid:10116)]

 Score = 219 (82.2 bits), Expect = 2.2e-27, Sum P(2) = 2.2e-27
 Identities = 43/89 (48%), Positives = 59/89 (66%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +VYV  L      D LA++F   G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct:    21 NSAVYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 80

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P  A AAVEWF+ KDF G+ + V +A  +
Sbjct:    81 PPTAKAAVEWFDGKDFQGSKLKVSLARKK 109

GO:0003674 "molecular_function" evidence=ND

GO:0005634 "nucleus" evidence=ISO

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0008150 "biological_process" evidence=ND

GO:0015030 "Cajal body" evidence=IDA

RGD|1309595 Taf15 "TAF15 RNA polymerase II, TATA box binding protein (TBP)-associated factor" [Rattus norvegicus (taxid:10116)]

 Score = 229 (85.7 bits), Expect = 3.0e-27, Sum P(2) = 3.0e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   231 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 290

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   291 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 319

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003674 "molecular_function" evidence=ND

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

GO:0005622 "intracellular" evidence=IEA

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|D3ZZM1 Taf15 "Protein Taf15" [Rattus norvegicus (taxid:10116)]

 Score = 229 (85.7 bits), Expect = 3.1e-27, Sum P(2) = 3.1e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   231 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 290

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   291 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 319

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

UNIPROTKB|F1PB61 TAF15 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 229 (85.7 bits), Expect = 4.4e-27, Sum P(2) = 4.4e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   232 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 291

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   292 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 320

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q92804 TAF15 "TATA-binding protein-associated factor 2N" [Homo sapiens (taxid:9606)]

 Score = 229 (85.7 bits), Expect = 5.1e-27, Sum P(2) = 5.1e-27
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   233 NNTIFVQGLGEGVSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKPKGEATVSFDD 292

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   293 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 321

GO:0000166 "nucleotide binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=TAS

UNIPROTKB|F1LWL0 F1LWL0 "Uncharacterized protein" [Rattus norvegicus (taxid:10116)]

 Score = 230 (86.0 bits), Expect = 1.2e-26, Sum P(2) = 1.2e-26
 Identities = 40/89 (44%), Positives = 62/89 (69%)

Query:     5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
             N +++V  L  G   D + E+F  IG++K +K+TG+P + LY DK T + KG+ATV+++D
Sbjct:   200 NNTIFVQGLGEGLSTDQVGEFFKQIGIIKTNKKTGKPMINLYTDKDTGKLKGEATVSFDD 259

Query:    65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             P +A AA++WF+ K+FHGN+I V  A  R
Sbjct:   260 PPSAKAAIDWFDGKEFHGNIIKVSFATRR 288

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00021239001	SubName- Full=Chromosome chr1 scaffold_22, whole genome shotgun sequence; (405 aa)
		(Vitis vinifera)
Predicted Functional Partners:
	GSVIVG00014940001	SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (712 aa)					•				0.464

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	388
cd12534	83	cd12534, RRM_SARFH, RNA recognition motif in Droso	2e-48
cd12280	81	cd12280, RRM_FET, RNA recognition motif in the FET	4e-30
cd12535	86	cd12535, RRM_FUS_TAF15, RNA recognition motif in v	1e-20
cd12533	84	cd12533, RRM_EWS, RNA recognition motif in vertebr	4e-20
smart00360	73	smart00360, RRM, RNA recognition motif	2e-13
cd12281	92	cd12281, RRM1_TatSF1_like, RNA recognition motif 1	2e-11
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-11
PRK12678	672	PRK12678, PRK12678, transcription termination fact	4e-09
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	6e-09
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	8e-09
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	2e-08
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	2e-08
smart00547	25	smart00547, ZnF_RBZ, Zinc finger domain	4e-08
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	5e-08
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	1e-06
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	3e-06
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	4e-06
cd12307	74	cd12307, RRM_NIFK_like, RNA recognition motif in n	4e-06
cd12552	77	cd12552, RRM_Nop15p, RNA recognition motif in yeas	5e-06
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	8e-06
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	1e-05
cd12651	79	cd12651, RRM2_SXL, RNA recognition motif 2 in Dros	1e-05
cd12393	78	cd12393, RRM_ZCRB1, RNA recognition motif in Zinc	1e-05
smart00547	25	smart00547, ZnF_RBZ, Zinc finger domain	2e-05
PRK12678	672	PRK12678, PRK12678, transcription termination fact	3e-05
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	3e-05
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	3e-05
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	4e-05
pfam00641	29	pfam00641, zf-RanBP, Zn-finger in Ran binding prot	4e-05
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	4e-05
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	5e-05
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	6e-05
pfam08648	158	pfam08648, DUF1777, Protein of unknown function (D	7e-05
PRK12678	672	PRK12678, PRK12678, transcription termination fact	8e-05
pfam00641	29	pfam00641, zf-RanBP, Zn-finger in Ran binding prot	1e-04
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	1e-04
cd12243	71	cd12243, RRM1_MSSP, RNA recognition motif 1 in the	1e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	1e-04
PRK12678	672	PRK12678, PRK12678, transcription termination fact	2e-04
PRK12678	672	PRK12678, PRK12678, transcription termination fact	2e-04
pfam10243	506	pfam10243, MIP-T3, Microtubule-binding protein MIP	3e-04
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	3e-04
cd12567	79	cd12567, RRM3_RBM19, RNA recognition motif 3 in RN	3e-04
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	4e-04
pfam08648	158	pfam08648, DUF1777, Protein of unknown function (D	6e-04
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	6e-04
cd12362	73	cd12362, RRM3_CELF1-6, RNA recognition motif 3 in	8e-04
cd12370	76	cd12370, RRM1_PUF60, RNA recognition motif 1 in (U	8e-04
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	9e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	0.001
cd12279	74	cd12279, RRM_TUT1, RNA recognition motif in speckl	0.001
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	0.001
PRK12678	672	PRK12678, PRK12678, transcription termination fact	0.002
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	0.002
cd12334	74	cd12334, RRM1_SF3B4, RNA recognition motif 1 in sp	0.002
cd12400	74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	0.002
cd12366	81	cd12366, RRM1_RBM45, RNA recognition motif 1 in RN	0.002
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	0.003
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	0.004

>gnl|CDD|240978 cd12534, RRM_SARFH, RNA recognition motif in Drosophila melanogaster RNA-binding protein cabeza and similar proteins

 Score =  158 bits (401), Expect = 2e-48
 Identities = 55/83 (66%), Positives = 68/83 (81%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          V+V NLP  T E  LAE+FG+IG++K DK+TG+PK+WLY+DK T E KG+ATVTY+DPHA
Sbjct: 1  VFVSNLPPNTTEQDLAEHFGSIGIIKIDKKTGKPKIWLYKDKDTGEPKGEATVTYDDPHA 60

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
          A AA+EWFNNKDF GN I V +A
Sbjct: 61 ASAAIEWFNNKDFMGNTIKVSLA 83

This subgroup corresponds to the RRM in cabeza, also termed P19, or sarcoma-associated RNA-binding fly homolog (SARFH). It is a putative homolog of human RNA-binding proteins FUS (also termed TLS or Pigpen or hnRNP P2), EWS (also termed EWSR1), TAF15 (also termed hTAFII68 or TAF2N or RPB56), and belongs to the of the FET (previously TET) (FUS/TLS, EWS, TAF15) family of RNA- and DNA-binding proteins whose expression is altered in cancer. It is a nuclear RNA binding protein that may play an important role in the regulation of RNA metabolism during fly development. Cabeza contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 83

>gnl|CDD|240726 cd12280, RRM_FET, RNA recognition motif in the FET family of RNA-binding proteins

 Score =  110 bits (277), Expect = 4e-30
 Identities = 45/80 (56%), Positives = 56/80 (70%), Gaps = 1/80 (1%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +Y+  LP    ED LAE FG IG++K+DKRT  P + +Y DK T E KG+ATVTY+DP A
Sbjct: 1  IYISGLPDDVTEDSLAELFGGIGIIKRDKRTWPPMIKIYTDKET-EPKGEATVTYDDPSA 59

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A AA+EWFN  +F GN I V
Sbjct: 60 AQAAIEWFNGYEFRGNKIKV 79

This subfamily corresponds to the RRM of FET (previously TET) (FUS/TLS, EWS, TAF15) family of RNA-binding proteins. This ubiquitously expressed family of similarly structured proteins predominantly localizing to the nuclear, includes FUS (also known as TLS or Pigpen or hnRNP P2), EWS (also known as EWSR1), TAF15 (also known as hTAFII68 or TAF2N or RPB56), and Drosophila Cabeza (also known as SARFH). The corresponding coding genes of these proteins are involved in deleterious genomic rearrangements with transcription factor genes in a variety of human sarcomas and acute leukemias. All FET proteins interact with each other and are therefore likely to be part of the very same protein complexes, which suggests a general bridging role for FET proteins coupling RNA transcription, processing, transport, and DNA repair. The FET proteins contain multiple copies of a degenerate hexapeptide repeat motif at the N-terminus. The C-terminal region consists of a conserved nuclear import and retention signal (C-NLS), a putative zinc-finger domain, and a conserved RNA recognition motif (RRM), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is flanked by 3 arginine-glycine-glycine (RGG) boxes. FUS and EWS might have similar sequence specificity; both bind preferentially to GGUG-containing RNAs. FUS has also been shown to bind strongly to human telomeric RNA and to small low-copy-number RNAs tethered to the promoter of cyclin D1. To date, nothing is known about the RNA binding specificity of TAF15. . Length = 81

>gnl|CDD|240979 cd12535, RRM_FUS_TAF15, RNA recognition motif in vertebrate fused in Ewing's sarcoma protein (FUS), TATA-binding protein-associated factor 15 (TAF15) and similar proteins

 Score = 85.0 bits (210), Expect = 1e-20
 Identities = 35/83 (42%), Positives = 58/83 (69%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 2  NNTIFVQGLGEDVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 61

Query: 65 PHAALAAVEWFNNKDFHGNLIGV 87
          P +A AA++WF+ K+F GN I V
Sbjct: 62 PPSAKAAIDWFDGKEFSGNPIKV 84

This subgroup corresponds to the RRM of FUS and TAF15. FUS (TLS or Pigpen or hnRNP P2), also termed 75 kDa DNA-pairing protein (POMp75), or oncoprotein TLS (Translocated in liposarcoma), is a member of the FET (previously TET) (FUS/TLS, EWS, TAF15) family of RNA- and DNA-binding proteins whose expression is altered in cancer. It is a multi-functional protein and has been implicated in pre-mRNA splicing, chromosome stability, cell spreading, and transcription. FUS was originally identified in human myxoid and round cell liposarcomas as an oncogenic fusion with the stress-induced DNA-binding transcription factor CHOP (CCAAT enhancer-binding homologous protein) and later as hnRNP P2, a component of hnRNP H complex assembled on pre-mRNA. It can form ternary complexes with hnRNP A1 and hnRNP C1/C2. Additional research indicates that FUS binds preferentially to GGUG-containing RNAs. In the presence of Mg2+, it can bind both single- and double-stranded DNA (ssDNA/dsDNA) and promote ATP-independent annealing of complementary ssDNA and D-loop formation in superhelical dsDNA. FUS has been shown to be recruited by single stranded noncoding RNAs to the regulatory regions of target genes such as cyclin D1, where it represses transcription by disrupting complex formation. TAF15 (TAFII68), also termed TATA-binding protein-associated factor 2N (TAF2N), or RNA-binding protein 56 (RBP56), originally identified as a TAF in the general transcription initiation TFIID complex, is a novel RNA/ssDNA-binding protein with homology to the proto-oncoproteins FUS and EWS (also termed EWSR1), belonging to the FET family as well. TAF15 likely functions in RNA polymerase II (RNAP II) transcription by interacting with TFIID and subunits of RNAP II itself. TAF15 is also associated with U1 snRNA, chromatin and RNA, in a complex distinct from the Sm-containing U1 snRNP that functions in splicing. Like other members in the FET family, both FUS and TAF15 contain an N-terminal Ser, Gly, Gln and Tyr-rich region composed of multiple copies of a degenerate hexapeptide repeat motif. The C-terminal region consists of a conserved nuclear import and retention signal (C-NLS), a C2/C2 zinc-finger motif, a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and at least 1 arginine-glycine-glycine (RGG)-repeat region. . Length = 86

>gnl|CDD|240977 cd12533, RRM_EWS, RNA recognition motif in vertebrate Ewing Sarcoma Protein (EWS)

 Score = 83.8 bits (207), Expect = 4e-20
 Identities = 40/81 (49%), Positives = 56/81 (69%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++YV  L      + LA++F   G++K +KRTG+P V +Y DK T + KGDATV+YEDP 
Sbjct: 2  TIYVQGLNDNVTLEELADFFKHCGVVKINKRTGQPMVNIYTDKETGKPKGDATVSYEDPP 61

Query: 67 AALAAVEWFNNKDFHGNLIGV 87
          +A AAVEWF+ KDF G+ + V
Sbjct: 62 SAKAAVEWFDGKDFQGSKLKV 82

This subgroup corresponds to the RRM of EWS, also termed Ewing sarcoma breakpoint region 1 protein, a member of the FET (previously TET) (FUS/TLS, EWS, TAF15) family of RNA- and DNA-binding proteins whose expression is altered in cancer. It is a multifunctional protein and may play roles in transcription and RNA processing. EWS is involved in transcriptional regulation by interacting with the preinitiation complex TFIID and the RNA polymerase II (RNAPII) complexes. It is also associated with splicing factors, such as the U1 snRNP protein U1C, suggesting its implication in pre-mRNA splicing. Additionally, EWS has been shown to regulate DNA damage-induced alternative splicing (AS). Like other members in the FET family, EWS contains an N-terminal Ser, Gly, Gln and Tyr-rich region composed of multiple copies of a degenerate hexapeptide repeat motif. The C-terminal region consists of a conserved nuclear import and retention signal (C-NLS), a C2/C2 zinc-finger motif, a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and at least 1 arginine-glycine-glycine (RGG)-repeat region. EWS specifically binds to poly G and poly U RNA. It also binds to the proximal-element DNA of the macrophage-specific promoter of the CSF-1 receptor gene. . Length = 84

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

 Score = 64.5 bits (158), Expect = 2e-13
 Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 8/81 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +++V NLP  T E+ L E F   G ++         V L RDK T + KG A V +E   
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKVES--------VRLVRDKETGKSKGFAFVEFESEE 52

Query: 67 AALAAVEWFNNKDFHGNLIGV 87
           A  A+E  N K+  G  + V
Sbjct: 53 DAEKALEALNGKELDGRPLKV 73

Length = 73

>gnl|CDD|240727 cd12281, RRM1_TatSF1_like, RNA recognition motif 1 in HIV Tat-specific factor 1 (Tat-SF1) and similar proteins

 Score = 59.9 bits (146), Expect = 2e-11
 Identities = 25/58 (43%), Positives = 33/58 (56%), Gaps = 1/58 (1%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTY 62
          N +VYV  LP     +   E F   G++K+D  TG+PK+ LYRD+  N  KGDA   Y
Sbjct: 1  NTNVYVSGLPLDITVEEFVEVFSKCGIIKEDPETGKPKIKLYRDENGN-LKGDALCCY 57

This subfamily corresponds to the RRM1 of Tat-SF1 and CUS2. Tat-SF1 is the cofactor for stimulation of transcriptional elongation by human immunodeficiency virus-type 1 (HIV-1) Tat. It is a substrate of an associated cellular kinase. Tat-SF1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a highly acidic carboxyl-terminal half. The family also includes CUS2, a yeast homolog of human Tat-SF1. CUS2 interacts with U2 RNA in splicing extracts and functions as a splicing factor that aids assembly of the splicing-competent U2 snRNP in vivo. CUS2 also associates with PRP11 that is a subunit of the conserved splicing factor SF3a. Like Tat-SF1, CUS2 contains two RRMs as well. . Length = 92

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

 Score = 57.3 bits (139), Expect = 7e-11
 Identities = 27/80 (33%), Positives = 38/80 (47%), Gaps = 9/80 (11%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V NLP  T E+ L E F   G ++         V + RDK   + KG A V +E P  
Sbjct: 1  LFVGNLPPDTTEEDLRELFSKFGEIES--------VRIVRDKD-GKSKGFAFVEFESPED 51

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A  A+E  N K+  G  + V
Sbjct: 52 AEKALEALNGKELDGRKLKV 71

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|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 58.0 bits (141), Expect = 4e-09
 Identities = 31/147 (21%), Positives = 42/147 (28%), Gaps = 2/147 (1%)

Query: 244 EGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQV 303
               R  R  G         +  +   + A     +  +     ++  R +    E  Q 
Sbjct: 124 AAQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQA 183

Query: 304 LPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGR 363
               G  G   E     D   R   R++G  RE+RG         R R R R   R    
Sbjct: 184 EAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRRGRRRRRDRRDARGDDN 243

Query: 364 DRDREYDYERAREYERGR--DRMRYRR 388
             DR        E   GR   R R R 
Sbjct: 244 REDRGDRDGDDGEGRGGRRGRRFRDRD 270

Length = 672

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

 Score = 51.8 bits (125), Expect = 6e-09
 Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 9/78 (11%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V NLP  T E+ L + F   G ++         + + RD+ T   KG A V +ED   
Sbjct: 1  LFVGNLPPDTTEEDLKDLFSKFGPIE--------SIRIVRDE-TGRSKGFAFVEFEDEED 51

Query: 68 ALAAVEWFNNKDFHGNLI 85
          A  A+E  N K+  G  +
Sbjct: 52 AEKALEALNGKELGGREL 69

(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|233503 TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, large subunit, splicing factor

 Score = 56.8 bits (137), Expect = 8e-09
 Identities = 25/59 (42%), Positives = 28/59 (47%)

Query: 329 RDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREYERGRDRMRYR 387
           RD   +RE   S  +      ER R RSR+R R RDR R       RE  R RDR RY 
Sbjct: 1   RDEEPDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYD 59

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

>gnl|CDD|240859 cd12413, RRM1_RBM28_like, RNA recognition motif 1 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 50.7 bits (122), Expect = 2e-08
 Identities = 23/87 (26%), Positives = 43/87 (49%), Gaps = 8/87 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +++V NLP+ T ++ L E+F  +G +K+         ++ +DK + + +G   VT+    
Sbjct: 1  TLFVRNLPYDTTDEQLEEFFSEVGPIKR--------CFVVKDKGSKKCRGFGYVTFALEE 52

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESR 93
           A  A+E      F G  I V  A+ +
Sbjct: 53 DAKRALEEKKKTKFGGRKIHVEFAKKK 79

This subfamily corresponds to the RRM1 of RBM28 and Nop4p. RBM28 is a specific nucleolar component of the spliceosomal small nuclear ribonucleoproteins (snRNPs), possibly coordinating their transition through the nucleolus. It specifically associates with U1, U2, U4, U5, and U6 small nuclear RNAs (snRNAs), and may play a role in the maturation of both small nuclear and ribosomal RNAs. RBM28 has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an extremely acidic region between RRM2 and RRM3. The family also includes nucleolar protein 4 (Nop4p or Nop77p) encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p also contains four RRMs. . Length = 79

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

 Score = 50.7 bits (122), Expect = 2e-08
 Identities = 25/85 (29%), Positives = 36/85 (42%), Gaps = 8/85 (9%)

Query: 6  GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
            ++V  L   T E  L   F   G +++        V L +D  T E +G   VT+E  
Sbjct: 2  NKLFVSGLSTRTTEKELEALFSKFGRVEE--------VLLMKDPETGESRGFGFVTFESV 53

Query: 66 HAALAAVEWFNNKDFHGNLIGVFIA 90
            A AA+   N K+  G +I V  A
Sbjct: 54 EDADAAIRDLNGKELEGRVIKVEKA 78

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

>gnl|CDD|197784 smart00547, ZnF_RBZ, Zinc finger domain

 Score = 48.5 bits (116), Expect = 4e-08
 Identities = 11/24 (45%), Positives = 14/24 (58%)

Query: 214 NDWSCPMCGNINWAKRTKCNICNT 237
            DW CP C  +N+A R+KC  C  
Sbjct: 1   GDWECPACTFLNFASRSKCFACGA 24

Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP. Length = 25

>gnl|CDD|240762 cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and RNA recognition motif 2 found in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 49.6 bits (119), Expect = 5e-08
 Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 8/80 (10%)

Query: 9  YVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAA 68
          +V NLP  T E+ L E F   G + +        V L  DK T   KG A V++  P  A
Sbjct: 3  FVRNLPFTTTEEELRELFEAFGEISE--------VHLPLDKETKRSKGFAFVSFMFPEHA 54

Query: 69 LAAVEWFNNKDFHGNLIGVF 88
          + A    +   F G L+ V 
Sbjct: 55 VKAYSELDGSIFQGRLLHVL 74

This subfamily corresponds to the RRM3 of RBM19 and RRM2 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 74

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

 Score = 45.2 bits (108), Expect = 1e-06
 Identities = 26/79 (32%), Positives = 37/79 (46%), Gaps = 9/79 (11%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++ V NL    DED L E F   G +         +V+L +DK T + +G A VT+    
Sbjct: 1  TIRVTNLSEDADEDDLRELFRPFGPI--------SRVYLAKDKETGQSRGFAFVTFHTRE 52

Query: 67 AALAAVEWFNNKDFHGNLI 85
           A  A+E  N   +  NLI
Sbjct: 53 DAERAIEKLNGFGYD-NLI 70

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

>gnl|CDD|240798 cd12352, RRM1_TIA1_like, RNA recognition motif 1 in granule-associated RNA binding proteins p40-TIA-1 and TIAR

 Score = 44.6 bits (106), Expect = 3e-06
 Identities = 28/80 (35%), Positives = 37/80 (46%), Gaps = 11/80 (13%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV NL     ED+LAE F  IG +K  K        L R+   + Y   A V Y D  +
Sbjct: 1  LYVGNLDRTVTEDLLAELFSQIGPIKSCK--------LIREHGNDPY---AFVEYYDHRS 49

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A AA++  N +   G  I V
Sbjct: 50 AAAALQTMNGRLILGQEIKV 69

This subfamily corresponds to the RRM1 of nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR), both of which are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. TIA-1 and TIAR share high sequence similarity. They are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis.TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both, TIA-1 and TIAR, bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. Length = 72

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

 Score = 48.4 bits (115), Expect = 4e-06
 Identities = 23/80 (28%), Positives = 26/80 (32%), Gaps = 14/80 (17%)

Query: 321 DRDGRERSRDRGREREDRGSNKKRGGDDRERHRSR------------SRERDRGRDRDRE 368
            R  R R R R R+R  R   +    D R R R R            S  R R R R R 
Sbjct: 24  PRR-RSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRDRPRRRS 82

Query: 369 YDYER-AREYERGRDRMRYR 387
                  +   R RDR    
Sbjct: 83  RSVRSIEQHRRRLRDRSPSN 102

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

>gnl|CDD|240753 cd12307, RRM_NIFK_like, RNA recognition motif in nucleolar protein interacting with the FHA domain of pKI-67 (NIFK) and similar proteins

 Score = 44.1 bits (105), Expect = 4e-06
 Identities = 27/85 (31%), Positives = 36/85 (42%), Gaps = 18/85 (21%)

Query: 8  VYVCNLPHGTDEDMLAEYF---GTI--GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTY 62
          VY+ +LPHG  E  L +YF   GT+    L + K+TG+              KG A V +
Sbjct: 2  VYIGHLPHGFYEPELRKYFSQFGTVTRLRLSRSKKTGKS-------------KGYAFVEF 48

Query: 63 EDPHAALAAVEWFNNKDFHGNLIGV 87
          E P  A    E  NN      L+  
Sbjct: 49 ESPEVAKIVAETMNNYLLFERLLKC 73

This subgroup corresponds to the RRM of NIFK and Nop15p. NIFK, also termed MKI67 FHA domain-interacting nucleolar phosphoprotein, or nucleolar phosphoprotein Nopp34, is a putative RNA-binding protein interacting with the forkhead associated (FHA) domain of pKi-67 antigen in a mitosis-specific and phosphorylation-dependent manner. It is nucleolar in interphase but associates with condensed mitotic chromosomes. This family also includes Saccharomyces cerevisiae YNL110C gene encoding ribosome biogenesis protein 15 (Nop15p), also termed nucleolar protein 15. Both, NIFK and Nop15p, contain an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 74

>gnl|CDD|240996 cd12552, RRM_Nop15p, RNA recognition motif in yeast ribosome biogenesis protein 15 (Nop15p) and similar proteins

 Score = 44.0 bits (104), Expect = 5e-06
 Identities = 23/80 (28%), Positives = 35/80 (43%), Gaps = 8/80 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +Y+ +LPHG  E  L +YF   G +K         V + R K T   K    + + +P  
Sbjct: 2  IYIGHLPHGFLEKELKKYFSQFGTVK--------NVRVARSKKTGNSKHYGFIQFLNPEV 53

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A  A +  NN    G ++ V
Sbjct: 54 AAIAAKSMNNYLLMGKVLQV 73

This subgroup corresponds to the RRM of Nop15p, also termed nucleolar protein 15, which is encoded by YNL110C from Saccharomyces cerevisiae, and localizes to the nucleoplasm and nucleolus. Nop15p has been identified as a component of a pre-60S particle. It interacts with RNA components of the early pre-60S particles. Furthermore, Nop15p binds directly to a pre-rRNA transcript in vitro and is required for pre-rRNA processing. It functions as a ribosome synthesis factor required for the 5' to 3' exonuclease digestion that generates the 5' end of the major, short form of the 5.8S rRNA as well as for processing of 27SB to 7S pre-rRNA. Nop15p also play a specific role in cell cycle progression. Nop15p contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 77

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

 Score = 42.9 bits (102), Expect = 8e-06
 Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 10/75 (13%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV NLP    E+ L E+F   G ++         V L R+K  +  +G A V +  P  
Sbjct: 1  LYVRNLPPSVTEEDLREFFSPYGKVEG--------VRLVRNK--DRPRGFAFVEFASPED 50

Query: 68 ALAAVEWFNNKDFHG 82
          A AA++  N     G
Sbjct: 51 AEAALKKLNGLVLDG 65

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

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

 Score = 46.8 bits (111), Expect = 1e-05
 Identities = 20/74 (27%), Positives = 25/74 (33%), Gaps = 7/74 (9%)

Query: 321 DRDG---RERSRDRGREREDRGSNKKRGGDDR----ERHRSRSRERDRGRDRDREYDYER 373
            RD     ER R R R+R       +R  +       R R R R   R     R     R
Sbjct: 14  GRDRDRSSERPRRRSRDRSRFRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRR 73

Query: 374 AREYERGRDRMRYR 387
           +R+  R R R    
Sbjct: 74  SRDRPRRRSRSVRS 87

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

>gnl|CDD|241095 cd12651, RRM2_SXL, RNA recognition motif 2 in Drosophila sex-lethal (SXL) and similar proteins

 Score = 43.0 bits (101), Expect = 1e-05
 Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 18/88 (20%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIG-----LLKKDKRTGRPKVWLYRDKTTNEYKGDATVT 61
          ++YV NLP    ED L + F   G      L +DK TG P+             G A V 
Sbjct: 2  NLYVTNLPRQLTEDELRKIFEAYGNIVQCNLLRDKSTGLPR-------------GVAFVR 48

Query: 62 YEDPHAALAAVEWFNNKDFHGNLIGVFI 89
          Y+    A AA+   N     G+ + + +
Sbjct: 49 YDKREEAQAAISSLNGTIPPGSTMPLSV 76

This subfamily corresponds to the RRM2 of the sex-lethal protein (SXL) which governs sexual differentiation and X chromosome dosage compensation in Drosophila melanogaster. It induces female-specific alternative splicing of the transformer (tra) pre-mRNA by binding to the tra uridine-rich polypyrimidine tract at the non-sex-specific 3' splice site during the sex-determination process. SXL binds also to its own pre-mRNA and promotes female-specific alternative splicing. SXL contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 79

>gnl|CDD|240839 cd12393, RRM_ZCRB1, RNA recognition motif in Zinc finger CCHC-type and RNA-binding motif-containing protein 1 (ZCRB1) and similar proteins

 Score = 42.7 bits (101), Expect = 1e-05
 Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 8/84 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +VYV NLP     + L + F   G + K        V + +DK T + KG A + + D  
Sbjct: 3  TVYVSNLPFSLTNNDLHKIFSKYGKVVK--------VTIVKDKETRKSKGVAFILFLDRE 54

Query: 67 AALAAVEWFNNKDFHGNLIGVFIA 90
           A   V+  NNK+  G  +   IA
Sbjct: 55 DAHKCVKALNNKELFGRTLKCSIA 78

This subfamily corresponds to the RRM of ZCRB1, also termed MADP-1, or U11/U12 small nuclear ribonucleoprotein 31 kDa protein (U11/U12 snRNP 31 or U11/U12-31K), a novel multi-functional nuclear factor, which may be involved in morphine dependence, cold/heat stress, and hepatocarcinoma. It is located in the nucleoplasm, but outside the nucleolus. ZCRB1 is one of the components of U11/U12 snRNPs that bind to U12-type pre-mRNAs and form a di-snRNP complex, simultaneously recognizing the 5' splice site and branchpoint sequence. ZCRB1 is characterized by an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a CCHC-type Zinc finger motif. In addition, it contains core nucleocapsid motifs, and Lys- and Glu-rich domains. . Length = 78

>gnl|CDD|197784 smart00547, ZnF_RBZ, Zinc finger domain

 Score = 40.8 bits (96), Expect = 2e-05
 Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 2/26 (7%)

Query: 147 GDWMCPNTSCSNVNFAFRGVCNRCGT 172
           GDW CP  +C+ +NFA R  C  CG 
Sbjct: 1   GDWECP--ACTFLNFASRSKCFACGA 24

Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP. Length = 25

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 45.7 bits (109), Expect = 3e-05
 Identities = 33/133 (24%), Positives = 43/133 (32%), Gaps = 10/133 (7%)

Query: 256 KELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQVLPGAGRAGWEVE 315
                E  +  +RR R   A  G             +A     + A           E E
Sbjct: 118 AASAPEAAQARERRERGEAARRGA----------ARKAGEGGEQPATEARADAAERTEEE 167

Query: 316 ELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAR 375
           E     R G    R    ER +RG  ++RG D  +R R   RE+   R+     D    R
Sbjct: 168 ERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRREQGDRREERGRRDGGDRR 227

Query: 376 EYERGRDRMRYRR 388
              R RDR   R 
Sbjct: 228 GRRRRRDRRDARG 240

Length = 672

>gnl|CDD|240752 cd12306, RRM_II_PABPs, RNA recognition motif in type II polyadenylate-binding proteins

 Score = 41.5 bits (98), Expect = 3e-05
 Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 9/82 (10%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          S++V N+ +GT  + L E+F + G +         ++ +  DK T + KG A + + D  
Sbjct: 1  SIFVGNVDYGTTPEELQEHFKSCGTIN--------RITILCDKFTGQPKGFAYIEFLDKS 52

Query: 67 AALAAVEWFNNKDFHGNLIGVF 88
          +   A+   N  +F G  I V 
Sbjct: 53 SVENALL-LNESEFRGRQIKVT 73

This subfamily corresponds to the RRM of type II polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 2 (PABP-2 or PABPN1), embryonic polyadenylate-binding protein 2 (ePABP-2 or PABPN1L) and similar proteins. PABPs are highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. ePABP-2 is predominantly located in the cytoplasm and PABP-2 is located in the nucleus. In contrast to the type I PABPs containing four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), the type II PABPs contains a single highly-conserved RRM. This subfamily also includes Saccharomyces cerevisiae RBP29 (SGN1, YIR001C) gene encoding cytoplasmic mRNA-binding protein Rbp29 that binds preferentially to poly(A). Although not essential for cell viability, Rbp29 plays a role in modulating the expression of cytoplasmic mRNA. Like other type II PABPs, Rbp29 contains one RRM only. . Length = 73

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

 Score = 44.9 bits (105), Expect = 3e-05
 Identities = 28/91 (30%), Positives = 45/91 (49%), Gaps = 8/91 (8%)

Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N +++V NLP+   E+ L E F   G +K+        V L RD+ T + +G A V +E 
Sbjct: 115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKR--------VRLVRDRETGKSRGFAFVEFES 166

Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
             +A  A+E  N K+  G  + V  A+   +
Sbjct: 167 EESAEKAIEELNGKELEGRPLRVQKAQPASQ 197

Length = 306

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

 Score = 41.4 bits (98), Expect = 4e-05
 Identities = 27/88 (30%), Positives = 35/88 (39%), Gaps = 18/88 (20%)

Query: 9  YVCNLPHGTDEDMLAEYFGTIGL-----LKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
          YV NLP+   E+ L + FG  G      +  D+ TGR +             G   V  E
Sbjct: 3  YVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSR-------------GFGFVEME 49

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIAE 91
              A AA+E  N  DF G  + V  A 
Sbjct: 50 TAEEANAAIEKLNGTDFGGRTLTVNEAR 77

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

>gnl|CDD|201366 pfam00641, zf-RanBP, Zn-finger in Ran binding protein and others

 Score = 39.6 bits (93), Expect = 4e-05
 Identities = 13/27 (48%), Positives = 14/27 (51%)

Query: 215 DWSCPMCGNINWAKRTKCNICNTNKPG 241
           DW C  C   N+A  TKC  C   KPG
Sbjct: 3   DWDCSKCLVQNFATSTKCVACQAPKPG 29

Length = 29

>gnl|CDD|241010 cd12566, RRM2_MRD1, RNA recognition motif 2 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 41.2 bits (97), Expect = 4e-05
 Identities = 27/82 (32%), Positives = 40/82 (48%), Gaps = 8/82 (9%)

Query: 6  GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
          G ++V NLP+   ED L + F   G L +        V +  DK + + KG A V + DP
Sbjct: 3  GRLFVRNLPYSCKEDDLEKLFSKFGELSE--------VHVAIDKKSGKSKGFAYVLFLDP 54

Query: 66 HAALAAVEWFNNKDFHGNLIGV 87
            A+ A +  + K F G LI +
Sbjct: 55 EDAVKAYKELDGKVFQGRLIHI 76

This subgroup corresponds to the RRM2 of MRD1 which is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which may play an important structural role in organizing specific rRNA processing events. . Length = 79

>gnl|CDD|241118 cd12674, RRM1_Nop4p, RNA recognition motif 1 in yeast nucleolar protein 4 (Nop4p) and similar proteins

 Score = 41.0 bits (96), Expect = 5e-05
 Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +++V NL     ++ L ++F  +  +K           +  D  T E +G   VT+    
Sbjct: 1  TLFVRNLAFSVTQEDLTDFFSDVAPIKH--------AVVVTDPETGESRGYGFVTFAMLE 52

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESR 93
           A  A+    NK  HG ++ + IAE R
Sbjct: 53 DAQEALAKLKNKKLHGRILRLDIAERR 79

This subgroup corresponds to the RRM1 of Nop4p (also known as Nop77p), encoded by YPL043W from Saccharomyces cerevisiae. It is an essential nucleolar protein involved in processing and maturation of 27S pre-rRNA and biogenesis of 60S ribosomal subunits. Nop4p has four RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|240677 cd12231, RRM2_U2AF65, RNA recognition motif 2 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 40.7 bits (96), Expect = 6e-05
 Identities = 20/80 (25%), Positives = 29/80 (36%), Gaps = 8/80 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  LP+   ED + E   + G LK           L +D  T   KG A   Y DP  
Sbjct: 3  IFIGGLPNYLSEDQVKELLESFGKLKA--------FNLVKDSATGLSKGYAFCEYLDPSV 54

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
             A+   N        + V
Sbjct: 55 TDQAIAGLNGMQLGDKKLTV 74

This subfamily corresponds to the RRM2 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 77

>gnl|CDD|219953 pfam08648, DUF1777, Protein of unknown function (DUF1777)

 Score = 42.6 bits (100), Expect = 7e-05
 Identities = 23/68 (33%), Positives = 29/68 (42%)

Query: 320 TDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREYER 379
             RD RER R+R R RE     + R        RSRS  R R R R      +R RE ++
Sbjct: 19  RSRDRRERRRERSRSRERDRRRRSRSRSPHRSRRSRSPRRHRSRSRSPSRRRDRKRERDK 78

Query: 380 GRDRMRYR 387
                + R
Sbjct: 79  DAREPKKR 86

This is a family of eukaryotic proteins of unknown function. Some of the proteins in this family are putative nucleic acid binding proteins. Length = 158

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 44.5 bits (106), Expect = 8e-05
 Identities = 31/130 (23%), Positives = 42/130 (32%), Gaps = 1/130 (0%)

Query: 239 KPGHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQV 298
                EGG +          +  E EE   RRR  + +D +   E G   ++        
Sbjct: 142 ARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGD 201

Query: 299 EAAQVLPGAGRAGWEVE-ELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSR 357
           +  +          E        DR GR R RDR   R D     +   D  +      R
Sbjct: 202 DRDRRDRREQGDRREERGRRDGGDRRGRRRRRDRRDARGDDNREDRGDRDGDDGEGRGGR 261

Query: 358 ERDRGRDRDR 367
              R RDRDR
Sbjct: 262 RGRRFRDRDR 271

Length = 672

>gnl|CDD|201366 pfam00641, zf-RanBP, Zn-finger in Ran binding protein and others

 Score = 38.1 bits (89), Expect = 1e-04
 Identities = 11/30 (36%), Positives = 13/30 (43%), Gaps = 2/30 (6%)

Query: 146 DGDWMCPNTSCSNVNFAFRGVCNRCGTARP 175
           +GDW C    C   NFA    C  C   +P
Sbjct: 1   EGDWDCS--KCLVQNFATSTKCVACQAPKP 28

Length = 29

>gnl|CDD|240826 cd12380, RRM3_I_PABPs, RNA recognition motif 3 found in type I polyadenylate-binding proteins

 Score = 40.2 bits (95), Expect = 1e-04
 Identities = 27/86 (31%), Positives = 38/86 (44%), Gaps = 21/86 (24%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIG------LLKKDKRTGRPKVWLYRDKTTNEYKGDATVT 61
          VYV NL    D++ L E FG  G      ++K D+  G+ K             G   V 
Sbjct: 4  VYVKNLGEDMDDEKLKELFGKYGKITSAKVMKDDE--GKSK-------------GFGFVN 48

Query: 62 YEDPHAALAAVEWFNNKDFHGNLIGV 87
          +E+  AA  AVE  N K+ +G  + V
Sbjct: 49 FENHEAAQKAVEELNGKEVNGKKLYV 74

This subfamily corresponds to the RRM3 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is an ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammalian, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes the yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

>gnl|CDD|240689 cd12243, RRM1_MSSP, RNA recognition motif 1 in the c-myc gene single-strand binding proteins (MSSP) family

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 24/78 (30%), Positives = 33/78 (42%), Gaps = 14/78 (17%)

Query: 8  VYVCNLPHGTDEDMLAEY---FGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          VY+  LP  T ++ L +    FG I   K              DK TN+ KG   V ++ 
Sbjct: 3  VYIRGLPPNTTDEDLEKLCQPFGKIISTK-----------AILDKKTNKCKGYGFVDFDS 51

Query: 65 PHAALAAVEWFNNKDFHG 82
          P AAL A+E  N +    
Sbjct: 52 PEAALKAIEGLNGRGVQA 69

This subfamily corresponds to the RRM1 of c-myc gene single-strand binding proteins (MSSP) family, including single-stranded DNA-binding protein MSSP-1 (also termed RBMS1 or SCR2) and MSSP-2 (also termed RBMS2 or SCR3). All MSSP family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), both of which are responsible for the specific DNA binding activity. Both, MSSP-1 and -2, have been identified as protein factors binding to a putative DNA replication origin/transcriptional enhancer sequence present upstream from the human c-myc gene in both single- and double-stranded forms. Thus, they have been implied in regulating DNA replication, transcription, apoptosis induction, and cell-cycle movement, via the interaction with c-MYC, the product of protooncogene c-myc. Moreover, the family includes a new member termed RNA-binding motif, single-stranded-interacting protein 3 (RBMS3), which is not a transcriptional regulator. RBMS3 binds with high affinity to A/U-rich stretches of RNA, and to A/T-rich DNA sequences, and functions as a regulator of cytoplasmic activity. In addition, a putative meiosis-specific RNA-binding protein termed sporulation-specific protein 5 (SPO5, or meiotic RNA-binding protein 1, or meiotically up-regulated gene 12 protein), encoded by Schizosaccharomyces pombe Spo5/Mug12 gene, is also included in this family. SPO5 is a novel meiosis I regulator that may function in the vicinity of the Mei2 dot. . Length = 71

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

 Score = 43.7 bits (103), Expect = 1e-04
 Identities = 31/65 (47%), Positives = 34/65 (52%), Gaps = 6/65 (9%)

Query: 325 RERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREY-ERGRDR 383
           R R R+RGR R D     +R    RER R RSR RDR R R R+ DY R R    R R  
Sbjct: 1   RYRDRERGRLRND----TRRSDKGRERSRRRSRSRDRSR-RRRDRDYYRGRRGRSRSRSP 55

Query: 384 MRYRR 388
            RY R
Sbjct: 56  NRYYR 60

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

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 24/145 (16%), Positives = 33/145 (22%)

Query: 239 KPGHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQV 298
           +        R       +    +       R   A A +     E    +++        
Sbjct: 79  RAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAAAEAASAPEAAQARERRERGEAAR 138

Query: 299 EAAQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRE 358
             A    G G      E          E  RD  R R DR   +          R     
Sbjct: 139 RGAARKAGEGGEQPATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGR 198

Query: 359 RDRGRDRDREYDYERAREYERGRDR 383
               RDR    +    RE    RD 
Sbjct: 199 DGDDRDRRDRREQGDRREERGRRDG 223

Length = 672

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 43.4 bits (103), Expect = 2e-04
 Identities = 29/143 (20%), Positives = 37/143 (25%), Gaps = 2/143 (1%)

Query: 248 RGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLKKKFRAKTQQVEAAQVLPGA 307
           +  RGGG               RR A A       E    +           A      A
Sbjct: 56  KEARGGGAAAAAATPAAPAAAARRAARAAAAARQAEQPAAEAAAAKAEAAPAARAAAAAA 115

Query: 308 GRAGWEVEELGVTDRDGRERSRDRG--REREDRGSNKKRGGDDRERHRSRSRERDRGRDR 365
             A    E     +R  R  +  RG  R+  + G             R+   ERD  R R
Sbjct: 116 AEAASAPEAAQARERRERGEAARRGAARKAGEGGEQPATEARADAAERTEEEERDERRRR 175

Query: 366 DREYDYERAREYERGRDRMRYRR 388
               D +   E      R    R
Sbjct: 176 GDREDRQAEAERGERGRREERGR 198

Length = 672

>gnl|CDD|220648 pfam10243, MIP-T3, Microtubule-binding protein MIP-T3

 Score = 42.6 bits (100), Expect = 3e-04
 Identities = 31/145 (21%), Positives = 67/145 (46%), Gaps = 18/145 (12%)

Query: 250 GRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNLK------KKFRAKTQQVEAAQV 303
              G  +E ++E+++E K++++E   ++ +        K      +K + K ++VE  + 
Sbjct: 100 NESGKEEEKEKEQVKEEKKKKKEKPKEEPKDRKPKEEAKEKRPPKEKEKEKEKKVEEPR- 158

Query: 304 LPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGR 363
                    + EE    +R  R +SR +   ++    NKK+   + E+ R  +RE  +G+
Sbjct: 159 ---------DREEEKKRERV-RAKSRPKKPPKKKP-PNKKKEPPEEEKQRQAAREAVKGK 207

Query: 364 DRDREYDYERAREYERGRDRMRYRR 388
             + + + ER +E + G+DR     
Sbjct: 208 PEEPDVNEEREKEEDDGKDRETTTS 232

This protein, which interacts with both microtubules and TRAF3 (tumour necrosis factor receptor-associated factor 3), is conserved from worms to humans. The N-terminal region is the microtubule binding domain and is well-conserved; the C-terminal 100 residues, also well-conserved, constitute the coiled-coil region which binds to TRAF3. The central region of the protein is rich in lysine and glutamic acid and carries KKE motifs which may also be necessary for tubulin-binding, but this region is the least well-conserved. Length = 506

>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 = 38.8 bits (91), Expect = 3e-04
 Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 18/85 (21%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKK-----DKRTGRPKVWLYRDKTTNEYKGDATVTY 62
          V+V N+P+   E+ L E F  +G +       D+ TG+PK             G     +
Sbjct: 1  VFVGNIPYDATEEQLIEIFSEVGPVVSFRLVTDRDTGKPK-------------GYGFCEF 47

Query: 63 EDPHAALAAVEWFNNKDFHGNLIGV 87
          ED   A +A+   N  +F+G  + V
Sbjct: 48 EDIETAASAIRNLNGYEFNGRALRV 72

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

>gnl|CDD|241011 cd12567, RRM3_RBM19, RNA recognition motif 3 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 38.9 bits (91), Expect = 3e-04
 Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 8/82 (9%)

Query: 6  GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
          G +++ NL +   E+ L + F   G L +        V L  DK T + KG A VTY  P
Sbjct: 3  GRLFIRNLAYTCTEEDLEKLFSKYGPLSE--------VHLPIDKLTKKPKGFAFVTYMIP 54

Query: 66 HAALAAVEWFNNKDFHGNLIGV 87
            A+ A    +   F G L+ +
Sbjct: 55 EHAVKAFAELDGTVFQGRLLHL 76

This subgroup corresponds to the RRM3 of RBM19, also termed RNA-binding domain-1 (RBD-1), which is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA. In addition, it is essential for preimplantation development. RBM19 has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

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

 Score = 42.2 bits (99), Expect = 4e-04
 Identities = 19/40 (47%), Positives = 24/40 (60%)

Query: 349 RERHRSRSRERDRGRDRDREYDYERAREYERGRDRMRYRR 388
           R+    R RE+ RGRDRDR  +  R R  +R R R R+RR
Sbjct: 1   RDEEPDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRR 40

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

>gnl|CDD|219953 pfam08648, DUF1777, Protein of unknown function (DUF1777)

 Score = 39.9 bits (93), Expect = 6e-04
 Identities = 30/64 (46%), Positives = 35/64 (54%), Gaps = 5/64 (7%)

Query: 324 GRERSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDREYDYERAREYERGRDR 383
           GR RSR   R R  RG ++ R   +R R RSRSRERDR R R R     R+R   R R  
Sbjct: 2   GRSRSRSPRRSRR-RGRSRSRDRRERRRERSRSRERDRRR-RSRSRSPHRSR---RSRSP 56

Query: 384 MRYR 387
            R+R
Sbjct: 57  RRHR 60

This is a family of eukaryotic proteins of unknown function. Some of the proteins in this family are putative nucleic acid binding proteins. Length = 158

>gnl|CDD|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 37.9 bits (89), Expect = 6e-04
 Identities = 18/66 (27%), Positives = 28/66 (42%), Gaps = 8/66 (12%)

Query: 13 LPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV 72
          LP    E+ +   F   G +++        V + RDK T + KG A V +     A  A+
Sbjct: 7  LPKTATEEDVRALFEEYGNIEE--------VTIIRDKDTGQSKGCAFVKFSSREEAQKAI 58

Query: 73 EWFNNK 78
          E  + K
Sbjct: 59 EALHGK 64

This subfamily corresponds to the RRM1 and RRM2 domains of the CUGBP1 and ETR-3-like factors (CELF) as well as plant flowering time control protein FCA. CELF, also termed BRUNOL (Bruno-like) proteins, is a family of structurally related RNA-binding proteins involved in regulation of pre-mRNA splicing in the nucleus, and control of mRNA translation and deadenylation in the cytoplasm. The family contains six members: CELF-1 (also known as BRUNOL-2, CUG-BP1, NAPOR, EDEN-BP), CELF-2 (also known as BRUNOL-3, ETR-3, CUG-BP2, NAPOR-2), CELF-3 (also known as BRUNOL-1, TNRC4, ETR-1, CAGH4, ER DA4), CELF-4 (BRUNOL-4), CELF-5 (BRUNOL-5) and CELF-6 (BRUNOL-6). They all contain three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein. The low sequence conservation of the linker region is highly suggestive of a large variety in the co-factors that associate with the various CELF family members. Based on both, sequence similarity and function, the CELF family can be divided into two subfamilies, the first containing CELFs 1 and 2, and the second containing CELFs 3, 4, 5, and 6. The different CELF proteins may act through different sites on at least some substrates. Furthermore, CELF proteins may interact with each other in varying combinations to influence alternative splicing in different contexts. This subfamily also includes plant flowering time control protein FCA that functions in the posttranscriptional regulation of transcripts involved in the flowering process. FCA contains two RRMs, and a WW protein interaction domain. . Length = 77

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

 Score = 37.6 bits (88), Expect = 8e-04
 Identities = 20/70 (28%), Positives = 36/70 (51%), Gaps = 10/70 (14%)

Query: 8  VYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +++ +LP   TD+D L + F   G +   K        ++ DK T + K    V+Y++P 
Sbjct: 1  LFIYHLPNEFTDQD-LYQLFAPFGNVISAK--------VFVDKNTGQSKCFGFVSYDNPE 51

Query: 67 AALAAVEWFN 76
          +A AA++  N
Sbjct: 52 SAQAAIKAMN 61

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

>gnl|CDD|240816 cd12370, RRM1_PUF60, RNA recognition motif 1 in (U)-binding-splicing factor PUF60 and similar proteins

 Score = 37.4 bits (87), Expect = 8e-04
 Identities = 25/80 (31%), Positives = 35/80 (43%), Gaps = 8/80 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          VYV ++     ED + + F   G +K         + +  D  T ++KG A V YE P A
Sbjct: 3  VYVGSISFELGEDTIRQAFSPFGPIKS--------IDMSWDPVTMKHKGFAFVEYEVPEA 54

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A  A+E  N     G  I V
Sbjct: 55 AQLALEQMNGVMLGGRNIKV 74

This subfamily corresponds to the RRM1 of PUF60, also termed FUSE-binding protein-interacting repressor (FBP-interacting repressor or FIR), or Ro-binding protein 1 (RoBP1), or Siah-binding protein 1 (Siah-BP1). PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors another RRM and binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) in several nuclear proteins. Research indicates that PUF60 binds FUSE as a dimer, and only the first two RRM domains participate in the single-stranded DNA recognition. . Length = 76

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

 Score = 37.2 bits (87), Expect = 9e-04
 Identities = 18/71 (25%), Positives = 33/71 (46%), Gaps = 18/71 (25%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIG-----LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTY 62
          ++V  LP+ T +D L +YF   G     ++  D++TG+              +G   VT+
Sbjct: 3  IFVGGLPYHTTDDSLRKYFSQFGEIEEAVVITDRQTGKS-------------RGYGFVTF 49

Query: 63 EDPHAALAAVE 73
          +D  +A  A +
Sbjct: 50 KDKESAERACK 60

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|233496 TIGR01622, SF-CC1, splicing factor, CC1-like family

 Score = 40.6 bits (95), Expect = 0.001
 Identities = 26/63 (41%), Positives = 32/63 (50%), Gaps = 2/63 (3%)

Query: 327 RSRDRGREREDRGSNKKRGGDDRERHRSRSRERDRGRDRDRE-YDYERAREYERGRDRMR 385
           R RDR R R    + +   G +R R RSRSR+R R R RDR+ Y   R R   R  +R  
Sbjct: 1   RYRDRERGRLRNDTRRSDKGRERSRRRSRSRDRSR-RRRDRDYYRGRRGRSRSRSPNRYY 59

Query: 386 YRR 388
             R
Sbjct: 60  RPR 62

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

>gnl|CDD|240725 cd12279, RRM_TUT1, RNA recognition motif in speckle targeted PIP5K1A-regulated poly(A) polymerase (Star-PAP) and similar proteins

 Score = 37.0 bits (86), Expect = 0.001
 Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 3/36 (8%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKK---DKRTG 39
          SV+V     GT E+ L +YF   G +     DK  G
Sbjct: 4  SVFVSGFKRGTSEEQLMDYFSAFGPVMNVIMDKDKG 39

This subfamily corresponds to the RRM of Star-PAP, also termed RNA-binding motif protein 21 (RBM21), which is a ubiquitously expressed U6 snRNA-specific terminal uridylyltransferase (U6-TUTase) essential for cell proliferation. Although it belongs to the well-characterized poly(A) polymerase protein superfamily, Star-PAP is highly divergent from both, the poly(A) polymerase (PAP) and the terminal uridylyl transferase (TUTase), identified within the editing complexes of trypanosomes. Star-PAP predominantly localizes at nuclear speckles and catalyzes RNA-modifying nucleotidyl transferase reactions. It functions in mRNA biosynthesis and may be regulated by phosphoinositides. It binds to glutathione S-transferase (GST)-PIPKIalpha. Star-PAP preferentially uses ATP as a nucleotide substrate and possesses PAP activity that is stimulated by PtdIns4,5P2. It contains an N-terminal C2H2-type zinc finger motif followed by an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a split PAP domain linked by a proline-rich region, a PAP catalytic and core domain, a PAP-associated domain, an RS repeat, and a nuclear localization signal (NLS). . Length = 74

>gnl|CDD|240793 cd12347, RRM_PPIE, RNA recognition motif in cyclophilin-33 (Cyp33) and similar proteins

 Score = 36.8 bits (86), Expect = 0.001
 Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 8/80 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV  L    DE +L   F   G +K         + +  D  T +++G A V +E+P  
Sbjct: 1  LYVGGLAEEVDEKVLHAAFIPFGDIKD--------IQIPLDYETQKHRGFAFVEFEEPED 52

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A AA++  N  +  G  I V
Sbjct: 53 AAAAIDNMNESELFGRTIRV 72

This subfamily corresponds to the RRM of Cyp33, also termed peptidyl-prolyl cis-trans isomerase E (PPIase E), or cyclophilin E, or rotamase E. Cyp33 is a nuclear RNA-binding cyclophilin with an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal PPIase domain. Cyp33 possesses RNA-binding activity and preferentially binds to polyribonucleotide polyA and polyU, but hardly to polyG and polyC. It binds specifically to mRNA, which can stimulate its PPIase activity. Moreover, Cyp33 interacts with the third plant homeodomain (PHD3) zinc finger cassette of the mixed lineage leukemia (MLL) proto-oncoprotein and a poly-A RNA sequence through its RRM domain. It further mediates downregulation of the expression of MLL target genes HOXC8, HOXA9, CDKN1B, and C-MYC, in a proline isomerase-dependent manner. Cyp33 also possesses a PPIase activity that catalyzes cis-trans isomerization of the peptide bond preceding a proline, which has been implicated in the stimulation of folding and conformational changes in folded and unfolded proteins. The PPIase activity can be inhibited by the immunosuppressive drug cyclosporin A. . Length = 73

>gnl|CDD|237171 PRK12678, PRK12678, transcription termination factor Rho; Provisional

 Score = 39.9 bits (94), Expect = 0.002
 Identities = 44/215 (20%), Positives = 54/215 (25%), Gaps = 35/215 (16%)

Query: 168 NRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWA 227
                A     P A      R RG A     ++    G                      
Sbjct: 111 AAAAAAEAASAPEAAQARERRERGEAARRGAARKAGEGGEQP------------------ 152

Query: 228 KRTKCNICNTNKPGHNEGGVRGGRGGGYKELDEEELEETKRRRREAEADDGELYDEFGNL 287
             T+       +    E   R  RG       E E  E  RR       D     +    
Sbjct: 153 -ATEARADAAERTEEEERDERRRRGDREDRQAEAERGERGRREERGRDGDDRDRRDRRE- 210

Query: 288 KKKFRAKTQQVEAAQVLPGAGRAGWEVEELGVTDRDGRERSRDRGREREDRGSNKKRGGD 347
             +   + ++        G  R G          R    R       REDRG      G+
Sbjct: 211 --QGDRREERGRR----DGGDRRG--------RRRRRDRRDARGDDNREDRGDRDGDDGE 256

Query: 348 DRERHRSRSRERDRGRDRDREYDYERAREYERGRD 382
            R   R R R RDR R   R  D    RE E   D
Sbjct: 257 GRGGRRGR-RFRDRDRRGRRGGDGGNEREPELRED 290

Length = 672

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

 Score = 40.3 bits (94), Expect = 0.002
 Identities = 21/67 (31%), Positives = 24/67 (35%), Gaps = 3/67 (4%)

Query: 325 RERSRDRGREREDRGSNKKRGGDDRERHR---SRSRERDRGRDRDREYDYERAREYERGR 381
           R+R R R R    R    +     R R R    R R+RD  R R           Y R R
Sbjct: 3   RDRERGRLRNDTRRSDKGRERSRRRSRSRDRSRRRRDRDYYRGRRGRSRSRSPNRYYRPR 62

Query: 382 DRMRYRR 388
               YRR
Sbjct: 63  GDRSYRR 69

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

>gnl|CDD|240780 cd12334, RRM1_SF3B4, RNA recognition motif 1 in splicing factor 3B subunit 4 (SF3B4) and similar proteins

 Score = 36.8 bits (86), Expect = 0.002
 Identities = 22/82 (26%), Positives = 34/82 (41%), Gaps = 12/82 (14%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLY--RDKTTNEYKGDATVTYEDP 65
          VYV NL     E++L E F   G          P V ++  +D+ T  ++G   V +   
Sbjct: 1  VYVGNLDEKVTEELLWELFIQAG----------PVVNVHIPKDRVTQAHQGYGFVEFLSE 50

Query: 66 HAALAAVEWFNNKDFHGNLIGV 87
            A  A++  N    +G  I V
Sbjct: 51 EDADYAIKIMNMIKLYGKPIRV 72

This subfamily corresponds to the RRM1 of SF3B4, also termed pre-mRNA-splicing factor SF3b 49 kDa (SF3b50), or spliceosome-associated protein 49 (SAP 49). SF3B4 a component of the multiprotein complex splicing factor 3b (SF3B), an integral part of the U2 small nuclear ribonucleoprotein (snRNP) and the U11/U12 di-snRNP. SF3B is essential for the accurate excision of introns from pre-messenger RNA, and is involved in the recognition of the pre-mRNA's branch site within the major and minor spliceosomes. SF3B4 functions to tether U2 snRNP with pre-mRNA at the branch site during spliceosome assembly. It is an evolutionarily highly conserved protein with orthologs across diverse species. SF3B4 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It binds directly to pre-mRNA and also interacts directly and highly specifically with another SF3B subunit called SAP 145. . Length = 74

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

 Score = 36.6 bits (85), Expect = 0.002
 Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 10/69 (14%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRP-KVWLYRDKTTNEYKGDATVTYEDPH 66
          ++V NLP+ T  + L  +F         K  G P  V L  DK T + KG A V ++   
Sbjct: 3  LFVGNLPYDTTAEDLLAHF---------KNAGAPPSVRLLTDKKTGKSKGCAFVEFDTAE 53

Query: 67 AALAAVEWF 75
          A   A++  
Sbjct: 54 AMTKALKLH 62

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

>gnl|CDD|240812 cd12366, RRM1_RBM45, RNA recognition motif 1 in RNA-binding protein 45 (RBM45) and similar proteins

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 25/83 (30%), Positives = 34/83 (40%), Gaps = 12/83 (14%)

Query: 10 VCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAAL 69
          VC       ED L E F   G ++         +W+ +DK T E KG A V +    +A 
Sbjct: 9  VCG--KSVTEDDLREAFAPFGEIQD--------IWVVKDKQTKESKGVAYVKFAKASSAA 58

Query: 70 AAVEWFNNKDF--HGNLIGVFIA 90
           A+E  N K        + V IA
Sbjct: 59 RAMEEMNGKCLGGDTKPLKVLIA 81

This subfamily corresponds to the RRM1 of RBM45, also termed developmentally-regulated RNA-binding protein 1 (DRB1), a new member of RNA recognition motif (RRM)-type neural RNA-binding proteins, which expresses under spatiotemporal control. It is encoded by gene drb1 that is expressed in neurons, not in glial cells. RBM45 predominantly localizes in cytoplasm of cultured cells and specifically binds to poly(C) RNA. It could play an important role during neurogenesis. RBM45 carries four RRMs, also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

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

 Score = 35.7 bits (83), Expect = 0.003
 Identities = 24/80 (30%), Positives = 35/80 (43%), Gaps = 6/80 (7%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV NL    DED L   F   G ++  +    PK    +    N   G A VT++D  +
Sbjct: 3  IYVRNLDFKLDEDDLRGIFSKFGEVESIRI---PKKQDEKQGRLNN--GFAFVTFKDASS 57

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
          A  A++  N  +  G  I V
Sbjct: 58 AENALQ-LNGTELGGRKISV 76

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

>gnl|CDD|240730 cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins

 Score = 35.7 bits (83), Expect = 0.004
 Identities = 24/79 (30%), Positives = 30/79 (37%), Gaps = 8/79 (10%)

Query: 9  YVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAA 68
          YV NL     ED L   F   G ++         V L RD  T   KG   + + D   A
Sbjct: 2  YVGNLHFNITEDDLRGIFEPFGEIEF--------VQLQRDPETGRSKGYGFIQFADAEDA 53

Query: 69 LAAVEWFNNKDFHGNLIGV 87
            A+E  N  +  G  I V
Sbjct: 54 KKALEQLNGFELAGRPIKV 72

This subfamily corresponds to the RRM2 of RBM39 (also termed HCC1), a nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Although the cellular function of RBM23 remains unclear, it shows high sequence homology to RBM39 and contains two RRMs. It may possibly function as a pre-mRNA splicing factor. . Length = 73

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	388
KOG1995	351	consensus Conserved Zn-finger protein [General fun	99.95
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.77
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.73
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.62
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.59
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	99.56
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.55
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.55
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.54
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.54
KOG0122	270	consensus Translation initiation factor 3, subunit	99.54
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.46
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.42
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.42
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.41
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	99.4
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.39
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.38
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	99.37
PLN03120	260	nucleic acid binding protein; Provisional	99.37
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.37
PLN03213	759	repressor of silencing 3; Provisional	99.37
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.37
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.36
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.35
smart00362	72	RRM_2 RNA recognition motif.	99.35
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	99.34
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.34
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.33
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.33
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.32
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.31
PLN03121	243	nucleic acid binding protein; Provisional	99.31
smart00360	71	RRM RNA recognition motif.	99.3
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.3
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.29
KOG4198	280	consensus RNA-binding Ran Zn-finger protein and re	99.28
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.28
KOG1995	351	consensus Conserved Zn-finger protein [General fun	99.26
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.26
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.24
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.24
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.22
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	99.2
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.18
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.18
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.16
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.14
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.14
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.13
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.1
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.1
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.09
smart00361	70	RRM_1 RNA recognition motif.	99.06
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.03
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.01
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.99
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.99
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.98
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.98
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.96
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.95
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.95
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.94
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.88
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	98.86
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.86
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.73
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.71
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.69
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.69
KOG1457	284	consensus RNA binding protein (contains RRM repeat	98.67
KOG4198	280	consensus RNA-binding Ran Zn-finger protein and re	98.65
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.65
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.63
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.6
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	98.59
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.58
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	98.58
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.57
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.56
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	98.53
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.5
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.46
PF00641	30	zf-RanBP: Zn-finger in Ran binding protein and oth	98.41
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.38
KOG0226	290	consensus RNA-binding proteins [General function p	98.35
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	98.29
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	98.22
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.15
smart00547	26	ZnF_RBZ Zinc finger domain. Zinc finger domain in	98.13
KOG0151	877	consensus Predicted splicing regulator, contains R	98.12
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	98.07
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.01
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.0
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	97.9
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	97.83
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.79
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.74
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.73
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	97.66
KOG4210	285	consensus Nuclear localization sequence binding pr	97.65
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.52
PF00641	30	zf-RanBP: Zn-finger in Ran binding protein and oth	97.49
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.46
KOG2314	698	consensus Translation initiation factor 3, subunit	97.24
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	97.12
smart00547	26	ZnF_RBZ Zinc finger domain. Zinc finger domain in	97.07
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	97.05
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.03
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.87
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	96.81
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.76
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.74
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.67
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.67
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	96.54
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.47
KOG3152	278	consensus TBP-binding protein, activator of basal	96.47
KOG1855	484	consensus Predicted RNA-binding protein [General f	96.46
KOG1548	382	consensus Transcription elongation factor TAT-SF1	96.39
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	96.32
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	96.19
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	96.09
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.0
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	95.98
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	95.79
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	95.78
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	95.41
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	95.31
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	95.28
PF12871	97	PRP38_assoc: Pre-mRNA-splicing factor 38-associate	95.13
KOG1996	378	consensus mRNA splicing factor [RNA processing and	94.68
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	94.64
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	93.91
PF12871	97	PRP38_assoc: Pre-mRNA-splicing factor 38-associate	93.84
KOG2068	327	consensus MOT2 transcription factor [Transcription	93.71
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	93.51
KOG4660	549	consensus Protein Mei2, essential for commitment t	93.46
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	93.37
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	93.22
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	92.93
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	92.62
KOG0151	877	consensus Predicted splicing regulator, contains R	92.19
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	92.18
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	91.44
KOG4574	1007	consensus RNA-binding protein (contains RRM and Pu	91.22
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	91.07
KOG2135	526	consensus Proteins containing the RNA recognition	90.47
KOG0804	493	consensus Cytoplasmic Zn-finger protein BRAP2 (BRC	90.22
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	89.25
KOG3973	465	consensus Uncharacterized conserved glycine-rich p	89.23
KOG4210	285	consensus Nuclear localization sequence binding pr	86.84
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	86.67
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	86.04
KOG2591	684	consensus c-Mpl binding protein, contains La domai	85.45
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	85.31
KOG0796	319	consensus Spliceosome subunit [RNA processing and	83.91
PRK14559	645	putative protein serine/threonine phosphatase; Pro	82.96
PF12773	50	DZR: Double zinc ribbon	82.41
PF13248	26	zf-ribbon_3: zinc-ribbon domain	81.79
cd00350	33	rubredoxin_like Rubredoxin_like; nonheme iron bind	81.15
KOG4246	1194	consensus Predicted DNA-binding protein, contains	81.11
PF13240	23	zinc_ribbon_2: zinc-ribbon domain	80.87
cd00729	34	rubredoxin_SM Rubredoxin, Small Modular nonheme ir	80.01

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=99.95  E-value=1.4e-27  Score=230.15  Aligned_cols=194  Identities=40%  Similarity=0.673  Sum_probs=143.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +.+.+|||.+||..+++++|.++|.+++.|+..+.|++|+|+|+++++|+.+|+-|.|+|++...|++||.+++++.|.+
T Consensus        64 s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g  143 (351)
T KOG1995|consen   64 SDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG  143 (351)
T ss_pred             cccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence            45679999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCCCccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccCCCCCCCCCCCcccccc
Q 016532           83 NLIGVFIAESRGKDDHAYNSAAAAGDPTVAGDVSGLDENSRDVNGFAGRGRGRGDAVGKTWQQDGDWMCPNTSCSNVNFA  162 (388)
Q Consensus        83 r~I~V~~a~~~~~~~~~~~~~~~~g~~~~~gg~GG~~g~~g~~~~~ggrG~G~g~g~g~~~~r~gDW~C~~~~cg~~Nfa  162 (388)
                      .+|+|.+|..+....                                                               |+
T Consensus       144 n~ikvs~a~~r~~ve---------------------------------------------------------------~~  160 (351)
T KOG1995|consen  144 NTIKVSLAERRTGVE---------------------------------------------------------------SV  160 (351)
T ss_pred             CCchhhhhhhccCcc---------------------------------------------------------------cc
Confidence            999999998765433                                                               33


Q ss_pred             cccccccCCCCCCCC---CCCCCCC-CCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCccCC-CCCccccccccccccCC
Q 016532          163 FRGVCNRCGTARPVG---GPGAGGR-AGGRG-RGRAGNESGSQGRQIGAATGLFGPNDWSCP-MCGNINWAKRTKCNICN  236 (388)
Q Consensus       163 ~R~~C~rC~~~r~~~---~~~~~~g-~g~~~-~g~~~~~~~~~~~~~~~~~~~~~~~dw~c~-~c~~~n~~~~~~c~~c~  236 (388)
                      .+..|+.|.++.+..   ..+...+ ++..+ .+++.-+...-....++..+++.++||.|+ .|.|+||||+..||+|+
T Consensus       161 rg~~~~~~g~g~fg~~~~grg~~~G~gg~~~~~~~~~rGg~~~~g~~g~~~~~~~d~Dw~c~~~c~N~nfa~r~~cnrck  240 (351)
T KOG1995|consen  161 RGGYPNDGGAGEFGRLRGGRGGPGGPGGGDGEAGKGDRGGVPDGGESGGGNVQDEDGDWDCPPSCGNRNFAWREECNRCK  240 (351)
T ss_pred             cccccCcCCCCCccccccCCCCCCCCCCccccccccccCCcCCCcccCCccccccccccccccccccccccccccccccc
Confidence            333333333322210   0000000 00000 000000000011245677889999999999 99999999999999999


Q ss_pred             CCCCCC---CCCCCccccCCCCCCcc
Q 016532          237 TNKPGH---NEGGVRGGRGGGYKELD  259 (388)
Q Consensus       237 ~~~~~~---~~~~~~~g~ggg~~~~~  259 (388)
                      ++||..   ..+..+...++++.+.+
T Consensus       241 ~~Kp~~~~~~gg~~~g~~~~g~~~~d  266 (351)
T KOG1995|consen  241 APKPERSLPSGGGPGGSRGEGGPGGD  266 (351)
T ss_pred             CCCcccccCCCCCCCCCccCCCCccc
Confidence            999976   44555666666666655

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

Probab=99.77  E-value=7.3e-18  Score=147.97  Aligned_cols=84  Identities=26%  Similarity=0.378  Sum_probs=79.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+|||+.+|+++|+++|.+||.|..        |.|+.++.|+++++||||+|.+.++|++||+.|++..|.++
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr  104 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVD--------AKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGR  104 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4679999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|+|.++..+..
T Consensus       105 ~l~V~~a~~~~~  116 (144)
T PLN03134        105 HIRVNPANDRPS  116 (144)
T ss_pred             EEEEEeCCcCCC
Confidence            999999987654

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

Probab=99.73  E-value=5e-17  Score=153.54  Aligned_cols=86  Identities=28%  Similarity=0.325  Sum_probs=81.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .||||+-|+++|+|..|+.+|+.||.|+.        |.|+.++.||+|+|||||+|+.+.++..|++..+|..|+++.|
T Consensus       102 ~TLFv~RLnydT~EskLrreF~~YG~Ikr--------irlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri  173 (335)
T KOG0113|consen  102 KTLFVARLNYDTSESKLRREFEKYGPIKR--------IRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRI  173 (335)
T ss_pred             ceeeeeeccccccHHHHHHHHHhcCccee--------EEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEE
Confidence            59999999999999999999999999998        9999999999999999999999999999999999999999999


Q ss_pred             EEEecccCCCCCcc
Q 016532           86 GVFIAESRGKDDHA   99 (388)
Q Consensus        86 ~V~~a~~~~~~~~~   99 (388)
                      .|.+...+....+.
T Consensus       174 ~VDvERgRTvkgW~  187 (335)
T KOG0113|consen  174 LVDVERGRTVKGWL  187 (335)
T ss_pred             EEEecccccccccc
Confidence            99998877665543

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.62  E-value=5.9e-15  Score=146.94  Aligned_cols=84  Identities=32%  Similarity=0.447  Sum_probs=77.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG-   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G-   82 (388)
                      ..++|||+|||..+|+++|+++|++||.|..        |.|+.++.|+++++||||+|.+.++|++||+.||+..|.+ 
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~--------v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~  263 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQ--------KNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGG  263 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcCCEEE--------EEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence            4678999999999999999999999999988        7799999999999999999999999999999999998876 


Q ss_pred             -ceEEEEecccCCC
Q 016532           83 -NLIGVFIAESRGK   95 (388)
Q Consensus        83 -r~I~V~~a~~~~~   95 (388)
                       +.|.|.++....+
T Consensus       264 ~~~l~V~~a~~~~~  277 (346)
T TIGR01659       264 SQPLTVRLAEEHGK  277 (346)
T ss_pred             ceeEEEEECCcccc
Confidence             6899999887544

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.59  E-value=7.5e-15  Score=145.68  Aligned_cols=82  Identities=28%  Similarity=0.383  Sum_probs=78.3

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+.+++++|.++|++||.|..        |+|+.++.|+.++|||||+|.+.++|.+||..|||..|.|+.|
T Consensus       270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~--------v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i  341 (352)
T TIGR01661       270 YCIFVYNLSPDTDETVLWQLFGPFGAVQN--------VKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNGYTLGNRVL  341 (352)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhCCCeEE--------EEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCCCEECCeEE
Confidence            36999999999999999999999999998        8899999999999999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      +|.++.++..
T Consensus       342 ~V~~~~~~~~  351 (352)
T TIGR01661       342 QVSFKTNKAY  351 (352)
T ss_pred             EEEEccCCCC
Confidence            9999988754

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

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

Probab=99.56  E-value=6.5e-15  Score=141.94  Aligned_cols=87  Identities=21%  Similarity=0.248  Sum_probs=83.0

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |++|.+.|||+.|++.||.++|+.+|+.||.|.+        +.|++|..||.+..||||+|++.+++++|+..|+++.|
T Consensus       235 ~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~s--------ceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLI  306 (479)
T KOG0415|consen  235 VKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVS--------CEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLI  306 (479)
T ss_pred             cCCCcceEEEEecCCcccccchhhHHhhccccee--------eeEEecccccchhheeeeeecchhhHHHHHhhhcceee
Confidence            5788999999999999999999999999999999        55999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      +.+.|+|.++++..+
T Consensus       307 DDrRIHVDFSQSVsk  321 (479)
T KOG0415|consen  307 DDRRIHVDFSQSVSK  321 (479)
T ss_pred             ccceEEeehhhhhhh
Confidence            999999999988765

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.55  E-value=1.8e-14  Score=142.95  Aligned_cols=83  Identities=27%  Similarity=0.346  Sum_probs=78.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +.++|||+|||..+|+++|+++|++||.|..        |+|+.++.|++++|||||+|.+.++|++||+.|++..|.|+
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~--------v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~   73 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIES--------CKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNK   73 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEE--------EEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCe
Confidence            4689999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.++.+..
T Consensus        74 ~i~v~~a~~~~   84 (352)
T TIGR01661        74 TIKVSYARPSS   84 (352)
T ss_pred             eEEEEeecccc
Confidence            99999987654

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.55  E-value=1.9e-14  Score=143.38  Aligned_cols=82  Identities=22%  Similarity=0.251  Sum_probs=77.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ..++|||++||+++|+++|+++|++||.|+.        |+|+.++.|+++++||||+|.++++|++||+.|++..|.++
T Consensus       106 ~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~--------v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr  177 (346)
T TIGR01659       106 SGTNLIVNYLPQDMTDRELYALFRTIGPINT--------CRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNK  177 (346)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCc
Confidence            4679999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++.+.
T Consensus       178 ~i~V~~a~p~  187 (346)
T TIGR01659       178 RLKVSYARPG  187 (346)
T ss_pred             eeeeeccccc
Confidence            9999998753

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).

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

Probab=99.54  E-value=1.4e-14  Score=127.91  Aligned_cols=79  Identities=35%  Similarity=0.549  Sum_probs=73.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      -+++|||+||+..+++.||+.+|..||.|..        |||-.++     .|||||+|+++.+|+.|+..|+|..|.|.
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrs--------vWvArnP-----PGfAFVEFed~RDA~DAvr~LDG~~~cG~   75 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRS--------VWVARNP-----PGFAFVEFEDPRDAEDAVRYLDGKDICGS   75 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCccee--------EEEeecC-----CCceEEeccCcccHHHHHhhcCCccccCc
Confidence            3689999999999999999999999999998        9988754     69999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|++++-...
T Consensus        76 r~rVE~S~G~~r   87 (195)
T KOG0107|consen   76 RIRVELSTGRPR   87 (195)
T ss_pred             eEEEEeecCCcc
Confidence            999999977544

>PF00076 RRM_1: RNA recognition motif

Probab=99.54  E-value=3.7e-14  Score=107.16  Aligned_cols=70  Identities=31%  Similarity=0.528  Sum_probs=65.9

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      |||+|||+++|+++|.++|++||.|..        |.|+.+ .++.+++||||+|.+.++|++||+.|++..|.++.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~--------~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIES--------IKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEE--------EEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccc--------cccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            899999999999999999999999987        778887 5789999999999999999999999999999999875

(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 ....

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

Probab=99.54  E-value=2.3e-14  Score=132.46  Aligned_cols=82  Identities=32%  Similarity=0.397  Sum_probs=79.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|-|.|||.+++|++|+++|..||.|..        |.|.+|+.||.++|||||+|.+.++|++||..|||.-++.-
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~r--------vylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~L  259 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITR--------VYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNL  259 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccce--------eEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceE
Confidence            5789999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|++++|+
T Consensus       260 ILrvEwskP~  269 (270)
T KOG0122|consen  260 ILRVEWSKPS  269 (270)
T ss_pred             EEEEEecCCC
Confidence            9999999886

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

Probab=99.46  E-value=1.7e-13  Score=123.96  Aligned_cols=83  Identities=27%  Similarity=0.295  Sum_probs=78.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      -++|.|-||.+.||.++|..+|++||.|..        |.|++|+.|..++|||||-|....+|+.||+.|+|.+|+|+.
T Consensus        13 m~SLkVdNLTyRTspd~LrrvFekYG~vgD--------VyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRe   84 (256)
T KOG4207|consen   13 MTSLKVDNLTYRTSPDDLRRVFEKYGRVGD--------VYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRE   84 (256)
T ss_pred             ceeEEecceeccCCHHHHHHHHHHhCcccc--------eecccccccccccceeEEEeeecchHHHHHHhhcceeeccce
Confidence            368999999999999999999999999987        999999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|++|+--..
T Consensus        85 lrVq~arygr~   95 (256)
T KOG4207|consen   85 LRVQMARYGRP   95 (256)
T ss_pred             eeehhhhcCCC
Confidence            99999986443

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.42  E-value=8e-13  Score=100.77  Aligned_cols=70  Identities=33%  Similarity=0.558  Sum_probs=64.0

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      |||+|||+.+++++|.++|+.||.|..        |.++.++. +.++++|||+|.++++|+.|+..+++..|.|+.|.
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~--------v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEK--------VRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEE--------EEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcce--------EEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            799999999999999999999999877        88999887 89999999999999999999999999999998874

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

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

Probab=99.42  E-value=3.8e-13  Score=113.29  Aligned_cols=82  Identities=21%  Similarity=0.250  Sum_probs=76.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+.||||+||+..|+|++|.++|+++|.|..        |.+-.|+.|..+-||+||+|.+.++|+.||..+++..|+.
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irr--------iiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLdd  105 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRR--------IIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDD  105 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhccchhe--------eEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccc
Confidence            35789999999999999999999999999997        7777899999999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      ++|.|.+.-.
T Consensus       106 r~ir~D~D~G  115 (153)
T KOG0121|consen  106 RPIRIDWDAG  115 (153)
T ss_pred             cceeeecccc
Confidence            9999998644

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

Probab=99.41  E-value=3.5e-13  Score=124.20  Aligned_cols=78  Identities=27%  Similarity=0.326  Sum_probs=72.1

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||++|++.|+.+.|+.+|++||.|.+        ..||.|+.|+++|||+||+|.+.++|++|++-. .-.|+|++.
T Consensus        13 TKifVggL~w~T~~~~l~~yFeqfGeI~e--------avvitd~~t~rskGyGfVTf~d~~aa~rAc~dp-~piIdGR~a   83 (247)
T KOG0149|consen   13 TKIFVGGLAWETHKETLRRYFEQFGEIVE--------AVVITDKNTGRSKGYGFVTFRDAEAATRACKDP-NPIIDGRKA   83 (247)
T ss_pred             EEEEEcCcccccchHHHHHHHHHhCceEE--------EEEEeccCCccccceeeEEeecHHHHHHHhcCC-CCccccccc
Confidence            68999999999999999999999999998        559999999999999999999999999999844 456999999


Q ss_pred             EEEeccc
Q 016532           86 GVFIAES   92 (388)
Q Consensus        86 ~V~~a~~   92 (388)
                      .+.+|..
T Consensus        84 NcnlA~l   90 (247)
T KOG0149|consen   84 NCNLASL   90 (247)
T ss_pred             ccchhhh
Confidence            9999875

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

Probab=99.40  E-value=3.6e-14  Score=125.94  Aligned_cols=81  Identities=28%  Similarity=0.356  Sum_probs=76.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.-|||+|||+..||.||..+|++||.|+.        |.|++|+.||+|+||||+.|++..+..-||..|||..|.|
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vd--------inLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~g  104 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVD--------INLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILG  104 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccCceEE--------EEEEecCCCCcccceEEEEecCccceEEEEeccCCceecc
Confidence            35778999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|....
T Consensus       105 RtirVDHv~  113 (219)
T KOG0126|consen  105 RTIRVDHVS  113 (219)
T ss_pred             eeEEeeecc
Confidence            999998754

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

Probab=99.39  E-value=1.6e-12  Score=115.87  Aligned_cols=78  Identities=24%  Similarity=0.307  Sum_probs=68.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.+|||+|||.++.+.+|+++|.+||.|..        |.|..-   -.+..||||+|+++.+|+.||..-+|..+++.
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~--------ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdGYdydg~   73 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIRE--------IELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGC   73 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEE--------EEeccC---CCCCCeeEEEecCccchhhhhhcccccccCcc
Confidence            4569999999999999999999999999987        444322   23568999999999999999999999999999


Q ss_pred             eEEEEeccc
Q 016532           84 LIGVFIAES   92 (388)
Q Consensus        84 ~I~V~~a~~   92 (388)
                      .|.|+++..
T Consensus        74 rLRVEfprg   82 (241)
T KOG0105|consen   74 RLRVEFPRG   82 (241)
T ss_pred             eEEEEeccC
Confidence            999999865

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

Probab=99.38  E-value=2.1e-12  Score=134.51  Aligned_cols=82  Identities=32%  Similarity=0.360  Sum_probs=77.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||..+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||..|++..|.++.
T Consensus       295 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~--------~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~  366 (509)
T TIGR01642       295 KDRIYIGNLPLYLGEDQIKELLESFGDLKA--------FNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNK  366 (509)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeE
Confidence            468999999999999999999999999988        779999999999999999999999999999999999999999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      |.|.+|....
T Consensus       367 l~v~~a~~~~  376 (509)
T TIGR01642       367 LHVQRACVGA  376 (509)
T ss_pred             EEEEECccCC
Confidence            9999997543

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

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

Probab=99.37  E-value=1.1e-12  Score=111.46  Aligned_cols=83  Identities=25%  Similarity=0.347  Sum_probs=78.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      .-.|||.++.+.+||++|...|..||.|+.        |.|-.|+.||..+|||+|+|++.++|++||..||+..|+++.
T Consensus        72 GwIi~VtgvHeEatEedi~d~F~dyGeiKN--------ihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~  143 (170)
T KOG0130|consen   72 GWIIFVTGVHEEATEEDIHDKFADYGEIKN--------IHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQN  143 (170)
T ss_pred             eEEEEEeccCcchhHHHHHHHHhhcccccc--------eeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCc
Confidence            457999999999999999999999999998        889999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.++..+.+
T Consensus       144 v~VDw~Fv~gp  154 (170)
T KOG0130|consen  144 VSVDWCFVKGP  154 (170)
T ss_pred             eeEEEEEecCC
Confidence            99999987654

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.37  E-value=2.8e-12  Score=121.50  Aligned_cols=78  Identities=22%  Similarity=0.244  Sum_probs=71.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+.+|+++|+++|+.||.|..        |.|+.++.   +++||||+|.++++|+.||. |++..|.++
T Consensus         3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~--------V~I~~d~~---~~GfAFVtF~d~eaAe~All-LnG~~l~gr   70 (260)
T PLN03120          3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEY--------VEMQSENE---RSQIAYVTFKDPQGAETALL-LSGATIVDQ   70 (260)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeecCC---CCCEEEEEeCcHHHHHHHHH-hcCCeeCCc
Confidence            4679999999999999999999999999998        88888864   46899999999999999995 999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++..-
T Consensus        71 ~V~Vt~a~~~   80 (260)
T PLN03120         71 SVTITPAEDY   80 (260)
T ss_pred             eEEEEeccCC
Confidence            9999998643

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

Probab=99.37  E-value=2.2e-12  Score=132.67  Aligned_cols=80  Identities=30%  Similarity=0.347  Sum_probs=76.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      +.+|||+|||..+|+++|.++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|.|+.
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~--------v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~  257 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIED--------VQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRP  257 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEE
Confidence            579999999999999999999999999988        889999999999999999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|.++..
T Consensus       258 i~v~~a~~  265 (457)
T TIGR01622       258 IKVGYAQD  265 (457)
T ss_pred             EEEEEccC
Confidence            99999874

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.

>PLN03213 repressor of silencing 3; Provisional

Probab=99.37  E-value=1.7e-12  Score=129.85  Aligned_cols=78  Identities=15%  Similarity=0.204  Sum_probs=71.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCH--HHHHHHHHHhCCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP--HAALAAVEWFNNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~--e~A~~Ai~~lng~~i~   81 (388)
                      ...+|||+||++.||+++|..+|+.||.|..        |.|+  +.||  +|||||+|...  .++.+||..|||..|+
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkd--------VEIp--RETG--RGFAFVEMssdddaEeeKAISaLNGAEWK   76 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDA--------VEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNGCVWK   76 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcCCeec
Confidence            3468999999999999999999999999998        7788  5567  89999999987  7899999999999999


Q ss_pred             CceEEEEecccC
Q 016532           82 GNLIGVFIAESR   93 (388)
Q Consensus        82 Gr~I~V~~a~~~   93 (388)
                      |+.|+|..|++.
T Consensus        77 GR~LKVNKAKP~   88 (759)
T PLN03213         77 GGRLRLEKAKEH   88 (759)
T ss_pred             CceeEEeeccHH
Confidence            999999999864

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

Probab=99.37  E-value=2.5e-12  Score=135.42  Aligned_cols=83  Identities=20%  Similarity=0.235  Sum_probs=78.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+++++++|+++|+.||.|..        |.|+.++.|+.++|||||+|.+.++|.+||+.||+..|.|+.
T Consensus       204 ~~rLfVgnLp~~vteedLk~lFs~FG~I~s--------vrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~  275 (612)
T TIGR01645       204 FNRIYVASVHPDLSETDIKSVFEAFGEIVK--------CQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQY  275 (612)
T ss_pred             cceEEeecCCCCCCHHHHHHHHhhcCCeeE--------EEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeE
Confidence            468999999999999999999999999998        889999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.++.+++.
T Consensus       276 LrV~kAi~pP~  286 (612)
T TIGR01645       276 LRVGKCVTPPD  286 (612)
T ss_pred             EEEEecCCCcc
Confidence            99999987554

In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.

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

Probab=99.36  E-value=8.6e-12  Score=131.10  Aligned_cols=77  Identities=29%  Similarity=0.402  Sum_probs=69.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhc--CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTI--GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~--G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ...+|||+|||..+|+++|+++|++|  |.|..        |.++        ++||||+|.+.++|++||+.||+.+|.
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~r--------V~~~--------rgfAFVeF~s~e~A~kAi~~lnG~~i~  295 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVER--------VKKI--------RDYAFVHFEDREDAVKAMDELNGKELE  295 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEE--------EEee--------cCeEEEEeCCHHHHHHHHHHhCCCEEC
Confidence            35789999999999999999999999  99987        5444        469999999999999999999999999


Q ss_pred             CceEEEEecccCCCC
Q 016532           82 GNLIGVFIAESRGKD   96 (388)
Q Consensus        82 Gr~I~V~~a~~~~~~   96 (388)
                      |+.|+|.+|++....
T Consensus       296 Gr~I~V~~Akp~~~~  310 (578)
T TIGR01648       296 GSEIEVTLAKPVDKK  310 (578)
T ss_pred             CEEEEEEEccCCCcc
Confidence            999999999886543

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

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

Probab=99.35  E-value=2.9e-12  Score=134.96  Aligned_cols=80  Identities=31%  Similarity=0.341  Sum_probs=75.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+.+++++|+++|.+||.|..        |.|+.++.|++++|||||+|.+.++|+.||+.||+..|.|+
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~s--------V~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR  177 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKS--------INMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGR  177 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEE--------EEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecc
Confidence            3468999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecc
Q 016532           84 LIGVFIAE   91 (388)
Q Consensus        84 ~I~V~~a~   91 (388)
                      .|.|....
T Consensus       178 ~IkV~rp~  185 (612)
T TIGR01645       178 NIKVGRPS  185 (612)
T ss_pred             eeeecccc
Confidence            99998644

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.

>smart00362 RRM_2 RNA recognition motif

Probab=99.35  E-value=6.1e-12  Score=93.77  Aligned_cols=72  Identities=31%  Similarity=0.436  Sum_probs=65.9

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||.|||..+++++|..+|.+||.|..        |.++.++  +.++++|||+|.+.++|+.|+..|++..|.++.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~--------~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~   70 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIES--------VKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLR   70 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEE--------EEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEe
Confidence            5999999999999999999999999987        6677766  67889999999999999999999999999999888


Q ss_pred             EE
Q 016532           87 VF   88 (388)
Q Consensus        87 V~   88 (388)
                      |+
T Consensus        71 v~   72 (72)
T smart00362       71 VE   72 (72)
T ss_pred             eC
Confidence            73

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

Probab=99.34  E-value=6.8e-13  Score=120.98  Aligned_cols=87  Identities=24%  Similarity=0.348  Sum_probs=82.1

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |.....+|||++|...|||..|...|-.||.|+.        |.|+.|..+.+.++|+||+|...++|.+||..||..+|
T Consensus         6 ~a~~KrtlYVGGladeVtekvLhaAFIPFGDI~d--------IqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL   77 (298)
T KOG0111|consen    6 MANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKD--------IQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESEL   77 (298)
T ss_pred             ccccceeEEeccchHHHHHHHHHhccccccchhh--------cccccchhcccccceeEEEeeccchhHHHhhcCchhhh
Confidence            4567789999999999999999999999999998        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      .|+.|.|.+|+|..-
T Consensus        78 ~GrtirVN~AkP~ki   92 (298)
T KOG0111|consen   78 FGRTIRVNLAKPEKI   92 (298)
T ss_pred             cceeEEEeecCCccc
Confidence            999999999998644

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

Probab=99.34  E-value=2.7e-12  Score=119.73  Aligned_cols=83  Identities=29%  Similarity=0.390  Sum_probs=78.5

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      .+.|+|.-||.++|+++|+.+|...|+|.+        +++++||.||.+.||+||.|..+++|++||..|||..|..+.
T Consensus        41 kTNLIvNYLPQ~MTqdE~rSLF~SiGeiES--------cKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KT  112 (360)
T KOG0145|consen   41 KTNLIVNYLPQNMTQDELRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKT  112 (360)
T ss_pred             cceeeeeecccccCHHHHHHHhhcccceee--------eeeeeccccccccccceeeecChHHHHHHHhhhcceeeccce
Confidence            357899999999999999999999999999        669999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |+|+||++...
T Consensus       113 IKVSyARPSs~  123 (360)
T KOG0145|consen  113 IKVSYARPSSD  123 (360)
T ss_pred             EEEEeccCChh
Confidence            99999998654

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

Probab=99.33  E-value=4.5e-12  Score=134.01  Aligned_cols=79  Identities=28%  Similarity=0.389  Sum_probs=75.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+++||++|.++|++||.|..        |+|++++.|++++|||||+|.+.++|++||..|++..|.|+.|
T Consensus         1 ~sl~VgnLp~~vte~~L~~~F~~~G~v~~--------v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i   72 (562)
T TIGR01628         1 ASLYVGDLDPDVTEAKLYDLFKPFGPVLS--------VRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPI   72 (562)
T ss_pred             CeEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeE
Confidence            37999999999999999999999999988        8899999999999999999999999999999999999999999


Q ss_pred             EEEeccc
Q 016532           86 GVFIAES   92 (388)
Q Consensus        86 ~V~~a~~   92 (388)
                      .|.++..
T Consensus        73 ~i~~s~~   79 (562)
T TIGR01628        73 RIMWSQR   79 (562)
T ss_pred             Eeecccc
Confidence            9998764

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

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

Probab=99.33  E-value=4.9e-12  Score=130.12  Aligned_cols=81  Identities=23%  Similarity=0.365  Sum_probs=75.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||..+++++|+++|++||.|..        |.|+.++.|++++|||||+|.+.++|++||. |++..|.|+
T Consensus        88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~--------v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~~~~g~  158 (457)
T TIGR01622        88 DDRTVFVLQLALKARERDLYEFFSKVGKVRD--------VQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQMLLGR  158 (457)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCCEECCe
Confidence            4679999999999999999999999999988        8899999999999999999999999999997 999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++...
T Consensus       159 ~i~v~~~~~~  168 (457)
T TIGR01622       159 PIIVQSSQAE  168 (457)
T ss_pred             eeEEeecchh
Confidence            9999987643

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.

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

Probab=99.32  E-value=7.7e-12  Score=116.10  Aligned_cols=80  Identities=35%  Similarity=0.510  Sum_probs=76.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||..+|+++|..+|.+||.|..        |.|..++.|+.++|||||+|.+.++|..||..|++..|.++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~--------~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~  186 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKR--------VRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRP  186 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeE--------EEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCce
Confidence            489999999999999999999999999987        889999899999999999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|.++..
T Consensus       187 ~~v~~~~~  194 (306)
T COG0724         187 LRVQKAQP  194 (306)
T ss_pred             eEeecccc
Confidence            99999764

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

Probab=99.31  E-value=4.7e-12  Score=121.43  Aligned_cols=83  Identities=24%  Similarity=0.224  Sum_probs=75.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ..+.|+|+|||+.+.+.||+.+|.+||.|..        |.||.+.  .-||||+||+|++.++|++|-++|||..|.|+
T Consensus        95 ~pkRLhVSNIPFrFRdpDL~aMF~kfG~Vld--------VEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~VEGR  164 (376)
T KOG0125|consen   95 TPKRLHVSNIPFRFRDPDLRAMFEKFGKVLD--------VEIIFNE--RGSKGFGFVTMENPADADRARAELHGTVVEGR  164 (376)
T ss_pred             CCceeEeecCCccccCccHHHHHHhhCceee--------EEEEecc--CCCCccceEEecChhhHHHHHHHhhcceeece
Confidence            3578999999999999999999999999998        7788876  35899999999999999999999999999999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      +|.|..|..+...
T Consensus       165 kIEVn~ATarV~n  177 (376)
T KOG0125|consen  165 KIEVNNATARVHN  177 (376)
T ss_pred             EEEEeccchhhcc
Confidence            9999999876443

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.31  E-value=1.2e-11  Score=115.59  Aligned_cols=80  Identities=21%  Similarity=0.226  Sum_probs=72.7

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |.....+|||+||++.+|+++|+++|+.||.|..        |.|+.+..   ..+||||+|.++++|+.||. |+|..|
T Consensus         1 m~~~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~--------V~I~~D~e---t~gfAfVtF~d~~aaetAll-LnGa~l   68 (243)
T PLN03121          1 MYPGGYTAEVTNLSPKATEKDVYDFFSHCGAIEH--------VEIIRSGE---YACTAYVTFKDAYALETAVL-LSGATI   68 (243)
T ss_pred             CCCCceEEEEecCCCCCCHHHHHHHHHhcCCeEE--------EEEecCCC---cceEEEEEECCHHHHHHHHh-cCCCee
Confidence            6677889999999999999999999999999998        88998854   45799999999999999995 999999


Q ss_pred             cCceEEEEeccc
Q 016532           81 HGNLIGVFIAES   92 (388)
Q Consensus        81 ~Gr~I~V~~a~~   92 (388)
                      .++.|.|.....
T Consensus        69 ~d~~I~It~~~~   80 (243)
T PLN03121         69 VDQRVCITRWGQ   80 (243)
T ss_pred             CCceEEEEeCcc
Confidence            999999988654

>smart00360 RRM RNA recognition motif

Probab=99.30  E-value=1.3e-11  Score=91.52  Aligned_cols=71  Identities=38%  Similarity=0.497  Sum_probs=66.0

Q ss_pred             eccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEE
Q 016532           10 VCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVF   88 (388)
Q Consensus        10 V~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~   88 (388)
                      |.|||..+++++|..+|.+||.|..        |.|+.++.++.++++|||+|.+.++|..|+..|++..|.++.|.|+
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~--------~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIES--------VRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeE--------EEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            6899999999999999999999987        7788888889999999999999999999999999999999988873

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

Probab=99.30  E-value=1.1e-11  Score=131.12  Aligned_cols=82  Identities=22%  Similarity=0.304  Sum_probs=77.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+||+..+|+++|+++|++||.|..        |+|+.+ .++.++|||||+|.+.++|++||..||+..|.|+
T Consensus       284 ~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~--------~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk  354 (562)
T TIGR01628       284 QGVNLYVKNLDDTVTDEKLRELFSECGEITS--------AKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGK  354 (562)
T ss_pred             CCCEEEEeCCCCccCHHHHHHHHHhcCCeEE--------EEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCc
Confidence            4578999999999999999999999999998        779998 5799999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+|..+.
T Consensus       355 ~l~V~~a~~k~  365 (562)
T TIGR01628       355 PLYVALAQRKE  365 (562)
T ss_pred             eeEEEeccCcH
Confidence            99999998754

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

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

Probab=99.29  E-value=2.6e-11  Score=113.83  Aligned_cols=80  Identities=30%  Similarity=0.495  Sum_probs=74.1

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ++++++|||+||+..+||++|++.|+.||.|.+        |+|+.++      |||||.|++.|+|..||..+|+.+|.
T Consensus       161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~E--------VRvFk~q------GYaFVrF~tkEaAahAIv~mNntei~  226 (321)
T KOG0148|consen  161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQE--------VRVFKDQ------GYAFVRFETKEAAAHAIVQMNNTEIG  226 (321)
T ss_pred             CCCCceEEeCCcCccccHHHHHHhcccCCcceE--------EEEeccc------ceEEEEecchhhHHHHHHHhcCceeC
Confidence            467899999999999999999999999999998        8899876      89999999999999999999999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      |+.|+..+-+....
T Consensus       227 G~~VkCsWGKe~~~  240 (321)
T KOG0148|consen  227 GQLVRCSWGKEGDD  240 (321)
T ss_pred             ceEEEEeccccCCC
Confidence            99999999876543

>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]

Probab=99.28  E-value=4.2e-12  Score=121.18  Aligned_cols=100  Identities=26%  Similarity=0.483  Sum_probs=67.9

Q ss_pred             CccccCCCCCCCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCC-------CCCCCCCC-----CCCCCCCCCCCC
Q 016532          141 KTWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGR-------GRGRAGNE-----SGSQGRQIGAAT  208 (388)
Q Consensus       141 ~~~~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~-------~~g~~~~~-----~~~~~~~~~~~~  208 (388)
                      ....+++||.|+  .|+..||+.++.|++|+.+++...........+.       ....+.+-     +.+-.... ++.
T Consensus        57 ~~~~~pgdw~c~--~c~~~n~arr~~c~~c~~s~~~~~~~~~~~~~g~~~~~~~~r~~~~~~~~~~~~g~~~~~n~-~~~  133 (280)
T KOG4198|consen   57 KDPPRPGDWNCP--LCGFHNSARRLLCFRCGFSKVPLDSALTAPNSGSRSLQTGPRYFKGDWLCPRCPGLGFSRNN-KPK  133 (280)
T ss_pred             CCCCCCcccccC--ccchhhHHHhhhcceecccCCCccccccCCCCcccccccccccccCCCCCCCCCCCcccccc-ccc
Confidence            345689999999  4999999999999999998876554321111110       00000000     00000000 133


Q ss_pred             CCCCCCCccCCCCCccccccccccccCCCCCCCCC
Q 016532          209 GLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN  243 (388)
Q Consensus       209 ~~~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~~  243 (388)
                      ..|.+|||.|+.|++||||++++|.+|+++++...
T Consensus       134 r~~~~GDW~Cp~C~fhNfarn~~C~rC~~~r~~~a  168 (280)
T KOG4198|consen  134 RPWRSGDWECPGCNFHNFARNSECFRCGAKRPLAA  168 (280)
T ss_pred             CCccccCcccCCCCceeccccchhhhcCCcCcccc
Confidence            57999999999999999999999999999999743

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

Probab=99.28  E-value=1e-11  Score=130.58  Aligned_cols=77  Identities=31%  Similarity=0.459  Sum_probs=70.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-Cc
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-GN   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-Gr   83 (388)
                      .++|||+|||.+++|++|.++|++||.|..        |+|++| .+++++|||||+|.+.++|++||+.||+..|. ++
T Consensus        58 ~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~--------vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr  128 (578)
T TIGR01648        58 GCEVFVGKIPRDLYEDELVPLFEKAGPIYE--------LRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGR  128 (578)
T ss_pred             CCEEEeCCCCCCCCHHHHHHHHHhhCCEEE--------EEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCc
Confidence            479999999999999999999999999998        889999 78999999999999999999999999999885 67


Q ss_pred             eEEEEec
Q 016532           84 LIGVFIA   90 (388)
Q Consensus        84 ~I~V~~a   90 (388)
                      .|.|..+
T Consensus       129 ~l~V~~S  135 (578)
T TIGR01648       129 LLGVCIS  135 (578)
T ss_pred             ccccccc
Confidence            7766654

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.

>KOG1995 consensus Conserved Zn-finger protein [General function prediction only]

Probab=99.26  E-value=3.9e-11  Score=116.73  Aligned_cols=146  Identities=18%  Similarity=0.192  Sum_probs=90.3

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCcc
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNI  224 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~  224 (388)
                      ..++|+|++-+|.++||+++.+|..|++.+......+...   ...          --...++..+|...||.|.+|+++
T Consensus        68 ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y---~dk----------eT~~~KGeatvS~~D~~~akaai~  134 (351)
T KOG1995|consen   68 TIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIY---TDK----------ETGAPKGEATVSYEDPPAAKAAIE  134 (351)
T ss_pred             cceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhcc---ccc----------cccCcCCceeeeecChhhhhhhhh
Confidence            5689999999999999999999999999998754333211   000          012445566777777777777777


Q ss_pred             ccccccccc-----------------------cCCCCCCCC--CCCCCccccCCCCCC-----cchHHHHHHHHhhhhhh
Q 016532          225 NWAKRTKCN-----------------------ICNTNKPGH--NEGGVRGGRGGGYKE-----LDEEELEETKRRRREAE  274 (388)
Q Consensus       225 n~~~~~~c~-----------------------~c~~~~~~~--~~~~~~~g~ggg~~~-----~~~~~~~~~~~~~~~~~  274 (388)
                      |||.+..|+                       .|+++++..  ...+..+|.+|++++     ....+...----.-.++
T Consensus       135 ~~agkdf~gn~ikvs~a~~r~~ve~~rg~~~~~~g~g~fg~~~~grg~~~G~gg~~~~~~~~~rGg~~~~g~~g~~~~~~  214 (351)
T KOG1995|consen  135 WFAGKDFCGNTIKVSLAERRTGVESVRGGYPNDGGAGEFGRLRGGRGGPGGPGGGDGEAGKGDRGGVPDGGESGGGNVQD  214 (351)
T ss_pred             hhccccccCCCchhhhhhhccCcccccccccCcCCCCCccccccCCCCCCCCCCccccccccccCCcCCCcccCCccccc
Confidence            777666666                       333333320  111223344555552     11000000000001235


Q ss_pred             hcCCcccc-ccCcccccccccchhhhhccC
Q 016532          275 ADDGELYD-EFGNLKKKFRAKTQQVEAAQV  303 (388)
Q Consensus       275 ~~~~~~~~-~~g~~~~~~~~~~~~~~~~~~  303 (388)
                      ++.||.|. .|+|.+++.+..||+|.+++.
T Consensus       215 ~d~Dw~c~~~c~N~nfa~r~~cnrck~~Kp  244 (351)
T KOG1995|consen  215 EDGDWDCPPSCGNRNFAWREECNRCKAPKP  244 (351)
T ss_pred             ccccccccccccccccccccccccccCCCc
Confidence            67789998 999999999999999887653

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

Probab=99.26  E-value=5e-11  Score=89.26  Aligned_cols=74  Identities=36%  Similarity=0.511  Sum_probs=67.6

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||.|||..+++++|.++|..||.|..        +.++.++.+ .++++|||+|.+.++|..|+..+++..+.++.|.
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~--------~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~   71 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVES--------VRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNGKELGGRPLR   71 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEE--------EEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCCCeECCeEEE
Confidence            5899999999999999999999999987        778877765 6789999999999999999999999999999998


Q ss_pred             EEe
Q 016532           87 VFI   89 (388)
Q Consensus        87 V~~   89 (388)
                      |.+
T Consensus        72 v~~   74 (74)
T cd00590          72 VEF   74 (74)
T ss_pred             EeC
Confidence            864

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).

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

Probab=99.24  E-value=2.3e-11  Score=117.46  Aligned_cols=93  Identities=33%  Similarity=0.514  Sum_probs=87.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .++.|||+|||.++|.+++.++|++||.|..+..|+.|+|+|+++.. |..+|-|.|.|...++++-||..|++..|.|+
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~  211 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDEDELRGK  211 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence            46679999999999999999999999999999999999999999987 99999999999999999999999999999999


Q ss_pred             eEEEEecccCCCCC
Q 016532           84 LIGVFIAESRGKDD   97 (388)
Q Consensus        84 ~I~V~~a~~~~~~~   97 (388)
                      .|+|+.|+...+..
T Consensus       212 ~~rVerAkfq~Kge  225 (382)
T KOG1548|consen  212 KLRVERAKFQMKGE  225 (382)
T ss_pred             EEEEehhhhhhccC
Confidence            99999999876643

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

Probab=99.24  E-value=2.3e-11  Score=120.77  Aligned_cols=81  Identities=28%  Similarity=0.439  Sum_probs=75.5

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-Cc
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-GN   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-Gr   83 (388)
                      .+-|||+.||.++.|++|..+|++.|.|-.        ++|+.|+.+|.++|||||+|.+.+.|+.||+.||+++|. |+
T Consensus        83 G~EVfvGkIPrD~~EdeLvplfEkiG~I~e--------lRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK  154 (506)
T KOG0117|consen   83 GCEVFVGKIPRDVFEDELVPLFEKIGKIYE--------LRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGK  154 (506)
T ss_pred             CceEEecCCCccccchhhHHHHHhccceee--------EEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCC
Confidence            468999999999999999999999999988        999999999999999999999999999999999999986 88


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|..+...
T Consensus       155 ~igvc~Svan  164 (506)
T KOG0117|consen  155 LLGVCVSVAN  164 (506)
T ss_pred             EeEEEEeeec
Confidence            8888887643

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

Probab=99.22  E-value=5.4e-11  Score=118.16  Aligned_cols=80  Identities=26%  Similarity=0.348  Sum_probs=71.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .-..|||.||+.+|||+.|+++|++||.|..        |+.+        +-||||.|.+.++|.+||+.||+++|+|.
T Consensus       258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veR--------Vkk~--------rDYaFVHf~eR~davkAm~~~ngkeldG~  321 (506)
T KOG0117|consen  258 KVKVLYVRNLMESTTEETLKKLFNEFGKVER--------VKKP--------RDYAFVHFAEREDAVKAMKETNGKELDGS  321 (506)
T ss_pred             heeeeeeeccchhhhHHHHHHHHHhccceEE--------eecc--------cceeEEeecchHHHHHHHHHhcCceecCc
Confidence            3468999999999999999999999999987        4444        34999999999999999999999999999


Q ss_pred             eEEEEecccCCCCCcc
Q 016532           84 LIGVFIAESRGKDDHA   99 (388)
Q Consensus        84 ~I~V~~a~~~~~~~~~   99 (388)
                      .|.|.+|++..+....
T Consensus       322 ~iEvtLAKP~~k~k~~  337 (506)
T KOG0117|consen  322 PIEVTLAKPVDKKKKE  337 (506)
T ss_pred             eEEEEecCChhhhccc
Confidence            9999999997665443

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

Probab=99.20  E-value=3.8e-11  Score=122.09  Aligned_cols=82  Identities=28%  Similarity=0.399  Sum_probs=78.7

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..|||+|||+++++++|..+|+..|.|.+        ++++.|+.||+++||+|++|.+.++|+.||..||+.++.|++|
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s--------~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l   90 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLS--------FRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKL   90 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccce--------eeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceE
Confidence            78999999999999999999999999998        8899999999999999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      +|.++.....
T Consensus        91 ~v~~~~~~~~  100 (435)
T KOG0108|consen   91 RVNYASNRKN  100 (435)
T ss_pred             Eeecccccch
Confidence            9999876554

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

Probab=99.18  E-value=1.1e-10  Score=121.45  Aligned_cols=78  Identities=22%  Similarity=0.318  Sum_probs=71.3

Q ss_pred             CCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++.+|||+|||+ .+|+++|.++|+.||.|..        |+|+.++     ++||||+|.++++|+.||..||+..|.|
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~--------vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng~~l~g  340 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVER--------VKFMKNK-----KETALIEMADPYQAQLALTHLNGVKLFG  340 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            567999999998 6999999999999999998        7788764     5899999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.+++...
T Consensus       341 ~~l~v~~s~~~~  352 (481)
T TIGR01649       341 KPLRVCPSKQQN  352 (481)
T ss_pred             ceEEEEEccccc
Confidence            999999987653

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).

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

Probab=99.18  E-value=1e-10  Score=95.37  Aligned_cols=78  Identities=23%  Similarity=0.410  Sum_probs=70.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      +..|||.|||..+|.+++.++|.+||.|..        |+|-..+.   .+|-|||.|++..+|.+|+..|.|..+.++.
T Consensus        18 nriLyirNLp~~ITseemydlFGkyg~IrQ--------IRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg~n~~~ry   86 (124)
T KOG0114|consen   18 NRILYIRNLPFKITSEEMYDLFGKYGTIRQ--------IRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSGYNVDNRY   86 (124)
T ss_pred             heeEEEecCCccccHHHHHHHhhcccceEE--------EEecCccC---cCceEEEEehHhhhHHHHHHHhcccccCCce
Confidence            568999999999999999999999999998        77776665   5799999999999999999999999999999


Q ss_pred             EEEEecccC
Q 016532           85 IGVFIAESR   93 (388)
Q Consensus        85 I~V~~a~~~   93 (388)
                      |.|-+-++.
T Consensus        87 l~vlyyq~~   95 (124)
T KOG0114|consen   87 LVVLYYQPE   95 (124)
T ss_pred             EEEEecCHH
Confidence            999987653

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

Probab=99.16  E-value=4e-11  Score=106.79  Aligned_cols=81  Identities=23%  Similarity=0.322  Sum_probs=77.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...||||+||+..++++.|.++|-+.|.|..        |+|++++.|...+|||||+|.++++|+-||+.||...|.|+
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~--------i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgr   79 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVN--------LHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGR   79 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceee--------eecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCc
Confidence            4579999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEeccc
Q 016532           84 LIGVFIAES   92 (388)
Q Consensus        84 ~I~V~~a~~   92 (388)
                      +|+|..+..
T Consensus        80 pIrv~kas~   88 (203)
T KOG0131|consen   80 PIRVNKASA   88 (203)
T ss_pred             eeEEEeccc
Confidence            999999883

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

Probab=99.14  E-value=8.1e-11  Score=110.52  Aligned_cols=81  Identities=23%  Similarity=0.272  Sum_probs=77.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..|||+-|.+.++-++|++.|.+||.|..        .+|++|..|+++|||+||.|...++|+.||..|||.=|..+.|
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS~--------akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~I  134 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVSD--------AKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTI  134 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhcccccccc--------ceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeecccee
Confidence            46999999999999999999999999998        5599999999999999999999999999999999999999999


Q ss_pred             EEEecccCC
Q 016532           86 GVFIAESRG   94 (388)
Q Consensus        86 ~V~~a~~~~   94 (388)
                      +-.+|..++
T Consensus       135 RTNWATRKp  143 (321)
T KOG0148|consen  135 RTNWATRKP  143 (321)
T ss_pred             eccccccCc
Confidence            999998776

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

Probab=99.14  E-value=1.8e-10  Score=119.87  Aligned_cols=77  Identities=26%  Similarity=0.223  Sum_probs=68.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l--ng~~i~   81 (388)
                      ++.+|||+|||+.+|+++|.++|++||.|..        |.|+.+      ++||||+|.+.++|+.||..|  ++..|.
T Consensus         1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~--------v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~~~l~   66 (481)
T TIGR01649         1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSY--------VMMLPG------KRQALVEFEDEESAKACVNFATSVPIYIR   66 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcCCeeE--------EEEECC------CCEEEEEeCchHHHHHHHHHhhcCCceEc
Confidence            5789999999999999999999999999998        667643      579999999999999999864  778999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.++..+.
T Consensus        67 g~~l~v~~s~~~~   79 (481)
T TIGR01649        67 GQPAFFNYSTSQE   79 (481)
T ss_pred             CeEEEEEecCCcc
Confidence            9999999997653

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).

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

Probab=99.13  E-value=2e-10  Score=107.32  Aligned_cols=80  Identities=29%  Similarity=0.386  Sum_probs=76.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      --|||-||.+++.|.-|.++|..||.|..        |+|++|..|.+.|||+||++.+.++|..||..|||..|.++.|
T Consensus       279 ~ciFvYNLspd~de~~LWQlFgpFGAv~n--------VKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvL  350 (360)
T KOG0145|consen  279 WCIFVYNLSPDADESILWQLFGPFGAVTN--------VKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVL  350 (360)
T ss_pred             eEEEEEecCCCchHhHHHHHhCcccceee--------EEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEE
Confidence            36999999999999999999999999998        8899999999999999999999999999999999999999999


Q ss_pred             EEEecccC
Q 016532           86 GVFIAESR   93 (388)
Q Consensus        86 ~V~~a~~~   93 (388)
                      .|.+...+
T Consensus       351 QVsFKtnk  358 (360)
T KOG0145|consen  351 QVSFKTNK  358 (360)
T ss_pred             EEEEecCC
Confidence            99997664

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

Probab=99.10  E-value=2.6e-10  Score=115.69  Aligned_cols=82  Identities=33%  Similarity=0.440  Sum_probs=75.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh-----CC-c
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF-----NN-K   78 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l-----ng-~   78 (388)
                      ..+|||.|||+++|+++|.++|++||.|..        +.|+.++.|+.++|.|||.|.++.+|+.||+..     .+ +
T Consensus       292 ~~tVFvRNL~fD~tEEel~~~fskFG~v~y--------a~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~  363 (678)
T KOG0127|consen  292 GKTVFVRNLPFDTTEEELKEHFSKFGEVKY--------AIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSV  363 (678)
T ss_pred             cceEEEecCCccccHHHHHHHHHhhcccee--------EEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceE
Confidence            379999999999999999999999999998        679999999999999999999999999999966     23 6


Q ss_pred             eecCceEEEEecccCC
Q 016532           79 DFHGNLIGVFIAESRG   94 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~   94 (388)
                      .|.|+.|.|.+|.++.
T Consensus       364 ll~GR~Lkv~~Av~Rk  379 (678)
T KOG0127|consen  364 LLDGRLLKVTLAVTRK  379 (678)
T ss_pred             EEeccEEeeeeccchH
Confidence            7889999999988754

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

Probab=99.10  E-value=7.4e-11  Score=110.55  Aligned_cols=86  Identities=20%  Similarity=0.339  Sum_probs=80.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++...|||-.||.++.+.||.++|-.||.|.+.+        |+.|+.|..+|+|+||.|+++.+|+.||..|||..|.-
T Consensus       283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaK--------VFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGM  354 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAK--------VFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGM  354 (371)
T ss_pred             CCcceEEEEeCchhhccHHHHHHhccccceeeee--------eeehhccccccceeeEecCCchhHHHHHHHhcchhhhh
Confidence            3567999999999999999999999999999954        88999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      ++|+|.+.+++...
T Consensus       355 KRLKVQLKRPkdan  368 (371)
T KOG0146|consen  355 KRLKVQLKRPKDAN  368 (371)
T ss_pred             hhhhhhhcCccccC
Confidence            99999999887643

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

Probab=99.09  E-value=1.2e-10  Score=115.16  Aligned_cols=85  Identities=22%  Similarity=0.370  Sum_probs=76.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee-cC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF-HG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i-~G   82 (388)
                      ++.+|||+-|+..+||.+|+++|++||.|+.        |.|+++.. +.++|+|||.|.+.+-|..||+.||+..- .|
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied--------~~ilrd~~-~~sRGcaFV~fstke~A~~Aika~ng~~tmeG  193 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFGHIED--------CYILRDPD-GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEG  193 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhCccch--------hhheeccc-ccccceeEEEEehHHHHHHHHHhhccceeecc
Confidence            4678999999999999999999999999998        77999986 89999999999999999999999999754 44


Q ss_pred             --ceEEEEecccCCCCC
Q 016532           83 --NLIGVFIAESRGKDD   97 (388)
Q Consensus        83 --r~I~V~~a~~~~~~~   97 (388)
                        .+|.|.||.++..+.
T Consensus       194 cs~PLVVkFADtqkdk~  210 (510)
T KOG0144|consen  194 CSQPLVVKFADTQKDKD  210 (510)
T ss_pred             CCCceEEEecccCCCch
Confidence              899999999876554

>smart00361 RRM_1 RNA recognition motif

Probab=99.06  E-value=6e-10  Score=85.62  Aligned_cols=61  Identities=23%  Similarity=0.411  Sum_probs=54.9

Q ss_pred             HHHHHHHHH----hcCceeecCCCCCCeEE-EEecCCC--CCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEE
Q 016532           19 EDMLAEYFG----TIGLLKKDKRTGRPKVW-LYRDKTT--NEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV   87 (388)
Q Consensus        19 eedL~~~F~----~~G~i~~~~~tg~p~V~-i~~dk~T--g~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V   87 (388)
                      +++|.++|.    +||.|..        |. |+.++.|  +.++||+||+|.+.++|+.||..|||..|.|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~--------v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGK--------INKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeE--------EEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            578888888    9999987        64 6777777  899999999999999999999999999999999876

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

Probab=99.03  E-value=6.2e-10  Score=113.02  Aligned_cols=82  Identities=23%  Similarity=0.333  Sum_probs=75.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      .-.|+|.|||+.+...+|+.+|+.||.|..        |.|++.+.+... |||||+|....+|..||+.||+..|.|++
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~E--------i~IP~k~dgklc-GFaFV~fk~~~dA~~Al~~~N~~~i~gR~  187 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVE--------IVIPRKKDGKLC-GFAFVQFKEKKDAEKALEFFNGNKIDGRP  187 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEE--------EEcccCCCCCcc-ceEEEEEeeHHHHHHHHHhccCceecCce
Confidence            457999999999999999999999999998        889988875554 99999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |-|.||.++..
T Consensus       188 VAVDWAV~Kd~  198 (678)
T KOG0127|consen  188 VAVDWAVDKDT  198 (678)
T ss_pred             eEEeeeccccc
Confidence            99999987654

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

Probab=99.01  E-value=5.1e-10  Score=110.87  Aligned_cols=85  Identities=24%  Similarity=0.325  Sum_probs=75.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce-ec-
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD-FH-   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~-i~-   81 (388)
                      +.-+|||+-||..++|.||+.+|++||.|.+        |.|++||.|+.++|+|||.|.+.++|.+|+..|+... |- 
T Consensus        33 ~~vKlfVgqIprt~sE~dlr~lFe~yg~V~e--------inl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG  104 (510)
T KOG0144|consen   33 SAVKLFVGQIPRTASEKDLRELFEKYGNVYE--------INLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPG  104 (510)
T ss_pred             hhhhheeccCCccccHHHHHHHHHHhCceeE--------EEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCC
Confidence            3458999999999999999999999999998        8899999999999999999999999999999998764 43 


Q ss_pred             -CceEEEEecccCCCC
Q 016532           82 -GNLIGVFIAESRGKD   96 (388)
Q Consensus        82 -Gr~I~V~~a~~~~~~   96 (388)
                       ...|.|.+|....+.
T Consensus       105 ~~~pvqvk~Ad~E~er  120 (510)
T KOG0144|consen  105 MHHPVQVKYADGERER  120 (510)
T ss_pred             CCcceeecccchhhhc
Confidence             478999998865543

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

Probab=98.99  E-value=7.3e-10  Score=98.80  Aligned_cols=85  Identities=26%  Similarity=0.311  Sum_probs=77.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      +..|||+||.+.++|..|...|+.||.+...       -.|+++..|+.+++|+||.|.+.+.+.+||..||+..+.+++
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~-------P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~  168 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISP-------PKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRP  168 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccC-------CcccccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCc
Confidence            4689999999999999999999999999763       358899999999999999999999999999999999999999


Q ss_pred             EEEEecccCCCC
Q 016532           85 IGVFIAESRGKD   96 (388)
Q Consensus        85 I~V~~a~~~~~~   96 (388)
                      |.|.++..+...
T Consensus       169 itv~ya~k~~~k  180 (203)
T KOG0131|consen  169 ITVSYAFKKDTK  180 (203)
T ss_pred             eEEEEEEecCCC
Confidence            999999887553

>PF13893 RRM_5: RNA recognition motif

Probab=98.99  E-value=2.1e-09  Score=78.62  Aligned_cols=56  Identities=30%  Similarity=0.495  Sum_probs=48.9

Q ss_pred             HHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEec
Q 016532           22 LAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIA   90 (388)
Q Consensus        22 L~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a   90 (388)
                      |..+|++||.|..        |.+..++     .++|||+|.+.++|+.|+..||+..|.|++|+|++|
T Consensus         1 L~~~f~~fG~V~~--------i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKK--------IKIFKKK-----RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEE--------EEEETTS-----TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEE--------EEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            6789999999987        5565433     589999999999999999999999999999999986

(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 ....

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

Probab=98.98  E-value=1.4e-09  Score=98.83  Aligned_cols=82  Identities=32%  Similarity=0.450  Sum_probs=74.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhc-CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTI-GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~-G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+||..||..+.+.+|..+|.+| |.+..        +++.+++.||.|++||||+|++++.|+-|-+.||++.|++
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r--------~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e  119 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTR--------FRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLME  119 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeEE--------EEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence            35678999999999999999999998 56655        7778999999999999999999999999999999999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.+.+-.+.
T Consensus       120 ~lL~c~vmppe  130 (214)
T KOG4208|consen  120 HLLECHVMPPE  130 (214)
T ss_pred             heeeeEEeCch
Confidence            99999998765

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

Probab=98.98  E-value=6.6e-10  Score=105.36  Aligned_cols=75  Identities=25%  Similarity=0.328  Sum_probs=69.0

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||..+++.+|+.+|++||+|.++.        |++        .|+||..++...|+.||..|++..|+|..|
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECD--------IvK--------NYgFVHiEdktaaedairNLhgYtLhg~nI   66 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECD--------IVK--------NYGFVHIEDKTAAEDAIRNLHGYTLHGVNI   66 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeee--------eec--------ccceEEeecccccHHHHhhcccceecceEE
Confidence            5799999999999999999999999999954        764        589999999999999999999999999999


Q ss_pred             EEEecccCCCC
Q 016532           86 GVFIAESRGKD   96 (388)
Q Consensus        86 ~V~~a~~~~~~   96 (388)
                      .|+.++++++.
T Consensus        67 nVeaSksKsk~   77 (346)
T KOG0109|consen   67 NVEASKSKSKA   77 (346)
T ss_pred             EEEeccccCCC
Confidence            99999988553

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

Probab=98.96  E-value=6.7e-10  Score=113.03  Aligned_cols=81  Identities=32%  Similarity=0.434  Sum_probs=75.3

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      .|||+||..++|+++|..+|+.||.|..        |.+++|..||.++||+||+|.+.++|..|++.|||.+|.|+.|+
T Consensus       280 rl~vgnLHfNite~~lr~ifepfg~Ie~--------v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ik  351 (549)
T KOG0147|consen  280 RLYVGNLHFNITEDMLRGIFEPFGKIEN--------VQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIK  351 (549)
T ss_pred             hhhhcccccCchHHHHhhhccCccccee--------eeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEE
Confidence            3899999999999999999999999998        78999999999999999999999999999999999999999999


Q ss_pred             EEecccCCC
Q 016532           87 VFIAESRGK   95 (388)
Q Consensus        87 V~~a~~~~~   95 (388)
                      |..-.-+..
T Consensus       352 V~~v~~r~~  360 (549)
T KOG0147|consen  352 VSVVTERVD  360 (549)
T ss_pred             EEEeeeecc
Confidence            988665443

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

Probab=98.95  E-value=6e-09  Score=105.57  Aligned_cols=82  Identities=20%  Similarity=0.201  Sum_probs=67.0

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||.|||+++++.+|+++|.+||.|+...      |.+.. + .++..+||||+|.+...++.||++- -..|.+++|
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~------I~vr~-~-~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl  359 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGG------IQVRS-P-GGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKL  359 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhcccccccc------eEEec-c-CCCcCceEEEEEeecchhhhhhhcC-ccccCCeeE
Confidence            4599999999999999999999999999854      44433 2 2334499999999999999999854 677889999


Q ss_pred             EEEecccCCCC
Q 016532           86 GVFIAESRGKD   96 (388)
Q Consensus        86 ~V~~a~~~~~~   96 (388)
                      .|+..++....
T Consensus       360 ~Veek~~~~~g  370 (419)
T KOG0116|consen  360 NVEEKRPGFRG  370 (419)
T ss_pred             EEEeccccccc
Confidence            99988775543

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

Probab=98.95  E-value=4.9e-10  Score=108.92  Aligned_cols=76  Identities=33%  Similarity=0.370  Sum_probs=73.0

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..|||+.|.+.+.|+.|+..|..||.|++        |.+.+|+.|++.++||||+|+-++.|+-|++.||+..+.|+.|
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKS--------InMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNi  185 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKS--------INMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNI  185 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcce--------eecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccc
Confidence            46999999999999999999999999999        8899999999999999999999999999999999999999999


Q ss_pred             EEEe
Q 016532           86 GVFI   89 (388)
Q Consensus        86 ~V~~   89 (388)
                      +|..
T Consensus       186 KVgr  189 (544)
T KOG0124|consen  186 KVGR  189 (544)
T ss_pred             cccC
Confidence            9874

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

Probab=98.94  E-value=1.2e-09  Score=113.88  Aligned_cols=83  Identities=13%  Similarity=0.207  Sum_probs=61.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCC--CCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRT--GRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~t--g~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      ....+|||+|||+.+|+++|.++|.+|+.+......  +.+.+.+.    +...++||||+|.++++|+.||. |++..|
T Consensus       173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~----~~~~kg~afVeF~~~e~A~~Al~-l~g~~~  247 (509)
T TIGR01642       173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVN----INKEKNFAFLEFRTVEEATFAMA-LDSIIY  247 (509)
T ss_pred             ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEE----ECCCCCEEEEEeCCHHHHhhhhc-CCCeEe
Confidence            356799999999999999999999986322210000  11112222    24568999999999999999995 999999


Q ss_pred             cCceEEEEec
Q 016532           81 HGNLIGVFIA   90 (388)
Q Consensus        81 ~Gr~I~V~~a   90 (388)
                      .|..|.|...
T Consensus       248 ~g~~l~v~r~  257 (509)
T TIGR01642       248 SNVFLKIRRP  257 (509)
T ss_pred             eCceeEecCc
Confidence            9999998654

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

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

Probab=98.88  E-value=1.4e-08  Score=100.98  Aligned_cols=81  Identities=23%  Similarity=0.332  Sum_probs=73.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHH-hcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~-~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+||.|||+++.+.+|+++|. +.|.|..        |.|+.|. +++++|+|.|+|.++|.+++|++.||.+++.|+
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~y--------veLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR  114 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEY--------VELLFDE-SGKARGCAVVEFKDPENVQKALEKLNKYEVNGR  114 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEe--------eeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhhccccCc
Confidence            45699999999999999999996 6799988        7798887 599999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|......+
T Consensus       115 ~l~vKEd~d~q  125 (608)
T KOG4212|consen  115 ELVVKEDHDEQ  125 (608)
T ss_pred             eEEEeccCchh
Confidence            99998765543

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

Probab=98.86  E-value=6.6e-09  Score=95.71  Aligned_cols=83  Identities=27%  Similarity=0.406  Sum_probs=72.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHH----HHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            3 MANGSVYVCNLPHGTDEDMLAE----YFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~----~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .++.||||.||+.-+..++|+.    +|++||.|..        |...  + |.+.+|-|||.|.+.+.|-.|+..|+|.
T Consensus         7 ~pn~TlYInnLnekI~~~elkrsL~~LFsqfG~ild--------I~a~--k-t~KmRGQA~VvFk~~~~As~A~r~l~gf   75 (221)
T KOG4206|consen    7 NPNGTLYINNLNEKIKKDELKRSLYLLFSQFGKILD--------ISAF--K-TPKMRGQAFVVFKETEAASAALRALQGF   75 (221)
T ss_pred             CCCceEeehhccccccHHHHHHHHHHHHHhhCCeEE--------EEec--C-CCCccCceEEEecChhHHHHHHHHhcCC
Confidence            3555999999999999999887    9999999976        3333  2 6789999999999999999999999999


Q ss_pred             eecCceEEEEecccCCCC
Q 016532           79 DFHGNLIGVFIAESRGKD   96 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~~   96 (388)
                      .|.|+.|.|+||++....
T Consensus        76 pFygK~mriqyA~s~sdi   93 (221)
T KOG4206|consen   76 PFYGKPMRIQYAKSDSDI   93 (221)
T ss_pred             cccCchhheecccCccch
Confidence            999999999999987653

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

Probab=98.86  E-value=3.3e-09  Score=100.70  Aligned_cols=76  Identities=21%  Similarity=0.312  Sum_probs=69.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|+|+||.+.+|..+|++.|.+||.|.+++        |++        .|+||.|+-.++|..||..|++.+|.|+
T Consensus        77 ~stkl~vgNis~tctn~ElRa~fe~ygpviecd--------ivk--------dy~fvh~d~~eda~~air~l~~~~~~gk  140 (346)
T KOG0109|consen   77 ASTKLHVGNISPTCTNQELRAKFEKYGPVIECD--------IVK--------DYAFVHFDRAEDAVEAIRGLDNTEFQGK  140 (346)
T ss_pred             CccccccCCCCccccCHHHhhhhcccCCceeee--------eec--------ceeEEEEeeccchHHHHhcccccccccc
Confidence            568999999999999999999999999998844        654        6999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|+|+++.++-.
T Consensus       141 ~m~vq~stsrlr  152 (346)
T KOG0109|consen  141 RMHVQLSTSRLR  152 (346)
T ss_pred             eeeeeeeccccc
Confidence            999999998754

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

Probab=98.73  E-value=2.8e-08  Score=99.98  Aligned_cols=81  Identities=25%  Similarity=0.300  Sum_probs=73.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++..|||.||+++++..+|.++|+.||.|.+        |+|..+.. | ++|| ||+|+++++|++||..|||..+.++
T Consensus        75 d~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS--------~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng~ll~~k  143 (369)
T KOG0123|consen   75 DPSLVFIKNLDESIDNKSLYDTFSEFGNILS--------CKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNGMLLNGK  143 (369)
T ss_pred             CCceeeecCCCcccCcHHHHHHHHhhcCeeE--------EEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcCcccCCC
Confidence            4556999999999999999999999999999        66988875 4 9999 9999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.....+..
T Consensus       144 ki~vg~~~~~~e  155 (369)
T KOG0123|consen  144 KIYVGLFERKEE  155 (369)
T ss_pred             eeEEeeccchhh
Confidence            999998877654

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

Probab=98.71  E-value=3.6e-08  Score=103.15  Aligned_cols=78  Identities=22%  Similarity=0.300  Sum_probs=68.8

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT---NEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T---g~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++|||.||++.+|.++|..+|...|.|.+        |.|...+..   -.|.||+||+|.++++|+.||..|+|..|+|
T Consensus       516 t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS--------~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldG  587 (725)
T KOG0110|consen  516 TKLFVKNLNFDTTLEDLEDLFSKQGTVLS--------IEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDG  587 (725)
T ss_pred             hhhhhhcCCcccchhHHHHHHHhcCeEEE--------EEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecC
Confidence            34999999999999999999999999998        555544421   2356999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|.++.
T Consensus       588 H~l~lk~S~  596 (725)
T KOG0110|consen  588 HKLELKISE  596 (725)
T ss_pred             ceEEEEecc
Confidence            999999998

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

Probab=98.69  E-value=4.8e-08  Score=95.68  Aligned_cols=86  Identities=24%  Similarity=0.343  Sum_probs=78.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||++||.++++++|+++|.+||.|..        +.|+.|+.+..+++|+||+|.+.+++.+++. ..-..|.++.
T Consensus        97 tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~--------~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~  167 (311)
T KOG4205|consen   97 TKKIFVGGLPPDTTEEDFKDYFEQFGKVAD--------VVIMYDKTTSRPRGFGFVTFDSEDSVDKVTL-QKFHDFNGKK  167 (311)
T ss_pred             eeEEEecCcCCCCchHHHhhhhhccceeEe--------eEEeecccccccccceeeEeccccccceecc-cceeeecCce
Confidence            458999999999999999999999998877        7799999999999999999999999999887 7778899999


Q ss_pred             EEEEecccCCCCCcc
Q 016532           85 IGVFIAESRGKDDHA   99 (388)
Q Consensus        85 I~V~~a~~~~~~~~~   99 (388)
                      +.|..|.++......
T Consensus       168 vevkrA~pk~~~~~~  182 (311)
T KOG4205|consen  168 VEVKRAIPKEVMQST  182 (311)
T ss_pred             eeEeeccchhhcccc
Confidence            999999998765543

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

Probab=98.69  E-value=3.3e-08  Score=100.92  Aligned_cols=82  Identities=18%  Similarity=0.250  Sum_probs=74.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ...|||.+|+..|...+|+.+|++||.|+-+        +|+.+..|--.++|+||++.+.++|.++|+.|+-.+|.|++
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGA--------KVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrm  476 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGA--------KVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRM  476 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceece--------eeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhccee
Confidence            4679999999999999999999999999884        48888877778999999999999999999999999999999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      |.|+.++..+
T Consensus       477 ISVEkaKNEp  486 (940)
T KOG4661|consen  477 ISVEKAKNEP  486 (940)
T ss_pred             eeeeecccCc
Confidence            9999987654

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

Probab=98.67  E-value=1.3e-07  Score=86.94  Aligned_cols=86  Identities=22%  Similarity=0.281  Sum_probs=69.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec---
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH---   81 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~---   81 (388)
                      -.||||.+||.++..-+|..+|..|--...+.      |+ +.++.....+-+|||+|.+..+|++|++.|||..|+   
T Consensus        34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgsl------LK-~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~  106 (284)
T KOG1457|consen   34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSL------LK-YTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPET  106 (284)
T ss_pred             cceeeeccCCcccCHHHHHHHhccCCCcccee------ee-eccCCCccccceEEEEecchHHHHHHHHHhcCeeecccc
Confidence            47999999999999999999999886555431      22 223322234579999999999999999999999998   


Q ss_pred             CceEEEEecccCCCCC
Q 016532           82 GNLIGVFIAESRGKDD   97 (388)
Q Consensus        82 Gr~I~V~~a~~~~~~~   97 (388)
                      +..|+|++|++..+..
T Consensus       107 ~stLhiElAKSNtK~k  122 (284)
T KOG1457|consen  107 GSTLHIELAKSNTKRK  122 (284)
T ss_pred             CceeEeeehhcCcccc
Confidence            7899999999877654

>KOG4198 consensus RNA-binding Ran Zn-finger protein and related proteins [General function prediction only]

Probab=98.65  E-value=3e-08  Score=95.00  Aligned_cols=98  Identities=24%  Similarity=0.498  Sum_probs=66.1

Q ss_pred             cccCCCCCCCCCCCcccccccccccccCCCCCCCCCCCCCCC----CCCCC-----C-------------CCCCC-----
Q 016532          143 WQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGR----AGGRG-----R-------------GRAGN-----  195 (388)
Q Consensus       143 ~~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g----~g~~~-----~-------------g~~~~-----  195 (388)
                      ..++|||+|+  .|..+||+++..|++|+++++.+..-....    ...+.     .             ..+..     
T Consensus       135 ~~~~GDW~Cp--~C~fhNfarn~~C~rC~~~r~~~a~~~~~~s~~~~~~~~s~~~~~~~~t~~~~~~r~~~~~~~~~~~~  212 (280)
T KOG4198|consen  135 PWRSGDWECP--GCNFHNFARNSECFRCGAKRPLAALLGNQASEATEHDWLSKVADSSSSTRFESLLRCNARGEMSESRV  212 (280)
T ss_pred             CccccCcccC--CCCceeccccchhhhcCCcCcccccccccccccccccccccccccccceecccchhhcccCccccccc
Confidence            4578999999  999999999999999999999755211100    00000     0             00000     


Q ss_pred             ---CC--CCC------CCCCCCCCCCCCCCCccCCCCCccccccccccccCCCCCCCC
Q 016532          196 ---ES--GSQ------GRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       196 ---~~--~~~------~~~~~~~~~~~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                         ..  .+.      .....-.+...+.+||.|..|.++||.++..|+.|.++.+..
T Consensus       213 d~~~~~~~~~~~~e~~~~~~sr~s~~~~dgdw~~~s~~~~~~r~r~a~~~c~~~~~~~  270 (280)
T KOG4198|consen  213 DGADVKGNFSSDDESRLEPLSRGSKSSRDGDWMCESCKAENFRRRNACLKCISPRGSF  270 (280)
T ss_pred             ccccccccccccccccccccccCcccccCCCcccccccchhhhhhhhhhccccCcccc
Confidence               00  000      112333445688999999999999999999999999877653

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

Probab=98.65  E-value=8.5e-08  Score=90.65  Aligned_cols=84  Identities=29%  Similarity=0.379  Sum_probs=74.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      -+++|+|.|||+.|++++|+++|..|+.++.        +.|-.++ +|.+.|.|-|.|...++|.+||+.|+++.|+|.
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r--------~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~  152 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEFGELKR--------VAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNGVALDGR  152 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHhccceE--------EeeccCC-CCCCCccceeeecchHhHHHHHHHhcCcccCCc
Confidence            3478999999999999999999999997776        5566666 699999999999999999999999999999999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      .|++.+..+....
T Consensus       153 ~mk~~~i~~~~~~  165 (243)
T KOG0533|consen  153 PMKIEIISSPSQS  165 (243)
T ss_pred             eeeeEEecCcccc
Confidence            9999998776553

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

Probab=98.63  E-value=3e-08  Score=97.13  Aligned_cols=84  Identities=25%  Similarity=0.397  Sum_probs=75.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||++|++.++++.|+..|.+||.|..        +.|++++.|+.+++|+||+|++++...++|. ..-..|.++
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d--------~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~-~~~h~~dgr   75 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTD--------CVVMRDPSTGRSRGFGFVTFATPEGVDAVLN-ARTHKLDGR   75 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceee--------EEEeccCCCCCcccccceecCCCcchheeec-ccccccCCc
Confidence            5679999999999999999999999999998        6699999999999999999999999988887 444568999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      .|.+..|.++...
T Consensus        76 ~ve~k~av~r~~~   88 (311)
T KOG4205|consen   76 SVEPKRAVSREDQ   88 (311)
T ss_pred             cccceeccCcccc
Confidence            9999998887643

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

Probab=98.60  E-value=8.6e-08  Score=101.03  Aligned_cols=79  Identities=20%  Similarity=0.300  Sum_probs=70.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      -++||||++|+..|+|.+|..+|+.||.|.+        |.++-      ++++|||.+...++|++||.+|..+.|..+
T Consensus       420 ~SrTLwvG~i~k~v~e~dL~~~feefGeiqS--------i~li~------~R~cAfI~M~~RqdA~kalqkl~n~kv~~k  485 (894)
T KOG0132|consen  420 CSRTLWVGGIPKNVTEQDLANLFEEFGEIQS--------IILIP------PRGCAFIKMVRRQDAEKALQKLSNVKVADK  485 (894)
T ss_pred             eeeeeeeccccchhhHHHHHHHHHhccccee--------Eeecc------CCceeEEEEeehhHHHHHHHHHhcccccce
Confidence            4689999999999999999999999999998        54543      568999999999999999999999999999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      .|+|.||..+...
T Consensus       486 ~Iki~Wa~g~G~k  498 (894)
T KOG0132|consen  486 TIKIAWAVGKGPK  498 (894)
T ss_pred             eeEEeeeccCCcc
Confidence            9999999866443

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

Probab=98.59  E-value=1e-07  Score=92.95  Aligned_cols=82  Identities=21%  Similarity=0.250  Sum_probs=76.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      +.|||..+.++.+|+||+.+|+.||.|+.        +.+-+.+.++..+||+||+|.+..+...||..||=..|.|..|
T Consensus       211 nRiYVaSvHpDLSe~DiKSVFEAFG~I~~--------C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyL  282 (544)
T KOG0124|consen  211 NRIYVASVHPDLSETDIKSVFEAFGEIVK--------CQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYL  282 (544)
T ss_pred             heEEeeecCCCccHHHHHHHHHhhcceee--------EEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceE
Confidence            58999999999999999999999999998        6699999999999999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      +|-.+...+.
T Consensus       283 RVGk~vTPP~  292 (544)
T KOG0124|consen  283 RVGKCVTPPD  292 (544)
T ss_pred             ecccccCCCc
Confidence            9988766543

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

Probab=98.58  E-value=5.7e-08  Score=91.37  Aligned_cols=83  Identities=19%  Similarity=0.253  Sum_probs=73.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec--
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH--   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~--   81 (388)
                      +..+|||+-|...-.|+|++.+|..||.|.+        +.|++... |.+||+|||.|.+..+|+.||..|+|...+  
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e--------~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpG   88 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEE--------CTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPG   88 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcce--------eEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCC
Confidence            4679999999999999999999999999998        77888775 899999999999999999999999998654  


Q ss_pred             -CceEEEEecccCCC
Q 016532           82 -GNLIGVFIAESRGK   95 (388)
Q Consensus        82 -Gr~I~V~~a~~~~~   95 (388)
                       ...|.|.++....+
T Consensus        89 ASSSLVVK~ADTdkE  103 (371)
T KOG0146|consen   89 ASSSLVVKFADTDKE  103 (371)
T ss_pred             CccceEEEeccchHH
Confidence             37899999977544

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

Probab=98.58  E-value=1.3e-07  Score=95.09  Aligned_cols=76  Identities=26%  Similarity=0.365  Sum_probs=70.8

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..|||+   ++||+..|.++|+.+|.+.+        |+|.+|. |  +.|||||.|.++++|++||..||...|.|++|
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s--------~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~   67 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLS--------IRVCRDA-T--SLGYAYVNFQQPADAERALDTMNFDVLKGKPI   67 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCcee--------EEEeecC-C--ccceEEEecCCHHHHHHHHHHcCCcccCCcEE
Confidence            469999   99999999999999999999        8899998 7  99999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|-++...+.
T Consensus        68 rim~s~rd~~   77 (369)
T KOG0123|consen   68 RIMWSQRDPS   77 (369)
T ss_pred             EeehhccCCc
Confidence            9999876543

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

Probab=98.57  E-value=3.6e-07  Score=74.78  Aligned_cols=82  Identities=23%  Similarity=0.253  Sum_probs=69.3

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec----
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH----   81 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~----   81 (388)
                      +||+|.|||...|.++|.+++...-.-.-+-      +.|+.|..|....|||||.|.+++.|...+..++|..+.    
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF------~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s   75 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDF------FYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNS   75 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceE------EEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCC
Confidence            6999999999999999999997642222222      788999999999999999999999999999999999886    


Q ss_pred             CceEEEEecccC
Q 016532           82 GNLIGVFIAESR   93 (388)
Q Consensus        82 Gr~I~V~~a~~~   93 (388)
                      .+...|.+|+-+
T Consensus        76 ~Kvc~i~yAriQ   87 (97)
T PF04059_consen   76 KKVCEISYARIQ   87 (97)
T ss_pred             CcEEEEehhHhh
Confidence            477888888754

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

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

Probab=98.56  E-value=1.6e-07  Score=91.24  Aligned_cols=74  Identities=23%  Similarity=0.267  Sum_probs=64.8

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHH-hCCceecCc
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEW-FNNKDFHGN   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~-lng~~i~Gr   83 (388)
                      -.+|||++|...++|.+|..+|.+||.|.+        |.|+..+      ++|||+|.+.++|+.|.+. ++-..|+|.
T Consensus       228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirs--------i~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~lvI~G~  293 (377)
T KOG0153|consen  228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRS--------IRILPRK------GCAFVTFTTREAAEKAAEKSFNKLVINGF  293 (377)
T ss_pred             eeEEEecccccchhHHHHHHHHhhcCCeee--------EEeeccc------ccceeeehhhHHHHHHHHhhcceeeecce
Confidence            369999999999999999999999999998        6666543      6999999999999998875 555678999


Q ss_pred             eEEEEeccc
Q 016532           84 LIGVFIAES   92 (388)
Q Consensus        84 ~I~V~~a~~   92 (388)
                      +|.|.+..+
T Consensus       294 Rl~i~Wg~~  302 (377)
T KOG0153|consen  294 RLKIKWGRP  302 (377)
T ss_pred             EEEEEeCCC
Confidence            999999888

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

Probab=98.53  E-value=6.3e-08  Score=101.35  Aligned_cols=83  Identities=20%  Similarity=0.275  Sum_probs=75.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      -++|+|.|||+..+-.+|+.+|..||.|.+        |.|+.....+.++|||||+|.++.+|..|+..|..+.|.|+.
T Consensus       613 ~tKIlVRNipFeAt~rEVr~LF~aFGqlks--------vRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRr  684 (725)
T KOG0110|consen  613 GTKILVRNIPFEATKREVRKLFTAFGQLKS--------VRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRR  684 (725)
T ss_pred             cceeeeeccchHHHHHHHHHHHhcccceee--------eccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechh
Confidence            368999999999999999999999999998        778776666778999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.++||.....
T Consensus       685 LVLEwA~~d~~  695 (725)
T KOG0110|consen  685 LVLEWAKSDNT  695 (725)
T ss_pred             hheehhccchH
Confidence            99999987543

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

Probab=98.50  E-value=2.4e-07  Score=92.34  Aligned_cols=76  Identities=24%  Similarity=0.304  Sum_probs=67.8

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +....+|||.|||.++|+..|++-|..||.|..+.        |+   +.++++|  .|.|.++++|+.|+..|++..|.
T Consensus       533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yad--------im---e~GkskG--VVrF~s~edAEra~a~Mngs~l~  599 (608)
T KOG4212|consen  533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYAD--------IM---ENGKSKG--VVRFFSPEDAERACALMNGSRLD  599 (608)
T ss_pred             cccccEEEEecCCccccHHHHHHHHHhccceehhh--------hh---ccCCccc--eEEecCHHHHHHHHHHhccCccc
Confidence            45678999999999999999999999999999854        43   2477777  89999999999999999999999


Q ss_pred             CceEEEEec
Q 016532           82 GNLIGVFIA   90 (388)
Q Consensus        82 Gr~I~V~~a   90 (388)
                      |+.|.|.|.
T Consensus       600 Gr~I~V~y~  608 (608)
T KOG4212|consen  600 GRNIKVTYF  608 (608)
T ss_pred             CceeeeeeC
Confidence            999999874

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

Probab=98.46  E-value=4.9e-07  Score=85.37  Aligned_cols=83  Identities=20%  Similarity=0.225  Sum_probs=77.1

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..+...|||+|+...+|.++|+.+|..||.|..        |.|+.++.++.+++||||+|.+.+.++.||. |++..|.
T Consensus        98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~--------~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~-l~gs~i~  168 (231)
T KOG4209|consen   98 EVDAPSVWVGNVDFLVTLTKIELHFESCGGINR--------VTVPKDKFRGHPKGFAYVEFSSYELVEEAYK-LDGSEIP  168 (231)
T ss_pred             ccCCceEEEeccccccccchhhheeeccCCccc--------eeeeccccCCCcceeEEEecccHhhhHHHhh-cCCcccc
Confidence            356789999999999999999999999999986        6799999999999999999999999999999 9999999


Q ss_pred             CceEEEEecccC
Q 016532           82 GNLIGVFIAESR   93 (388)
Q Consensus        82 Gr~I~V~~a~~~   93 (388)
                      +..|.|.+....
T Consensus       169 ~~~i~vt~~r~~  180 (231)
T KOG4209|consen  169 GPAIEVTLKRTN  180 (231)
T ss_pred             cccceeeeeeee
Confidence            999999998775

>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=98.41  E-value=7.4e-08  Score=61.85  Aligned_cols=30  Identities=43%  Similarity=1.032  Sum_probs=24.7

Q ss_pred             CCCCccCCCCCccccccccccccCCCCCCC
Q 016532          212 GPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       212 ~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      ++++|.|+.|.++|++....|.+|.+|||+
T Consensus         1 k~g~W~C~~C~~~N~~~~~~C~~C~~~rp~   30 (30)
T PF00641_consen    1 KEGDWKCPSCTFMNPASRSKCVACGAPRPG   30 (30)
T ss_dssp             -SSSEEETTTTEEEESSSSB-TTT--BTTB
T ss_pred             CCcCccCCCCcCCchHHhhhhhCcCCCCcC
Confidence            468999999999999999999999999984

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....

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

Probab=98.38  E-value=1.2e-07  Score=86.91  Aligned_cols=79  Identities=22%  Similarity=0.211  Sum_probs=69.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...||||+||...|+|+.|.++|-+-|.|..        |.|..++. ++.+ ||||+|.++.+..-||+.|||..+.+.
T Consensus         8 ~drtl~v~n~~~~v~eelL~ElfiqaGPV~k--------v~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~   77 (267)
T KOG4454|consen    8 MDRTLLVQNMYSGVSEELLSELFIQAGPVYK--------VGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENGDDLEED   77 (267)
T ss_pred             hhhHHHHHhhhhhhhHHHHHHHhhccCceEE--------EeCCCCcc-CCCc-eeeeecccccchhhhhhhcccchhccc
Confidence            3569999999999999999999999999987        66776665 5666 999999999999999999999999999


Q ss_pred             eEEEEeccc
Q 016532           84 LIGVFIAES   92 (388)
Q Consensus        84 ~I~V~~a~~   92 (388)
                      .|.|.+-..
T Consensus        78 e~q~~~r~G   86 (267)
T KOG4454|consen   78 EEQRTLRCG   86 (267)
T ss_pred             hhhcccccC
Confidence            998887543

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.35  E-value=3.6e-07  Score=85.58  Aligned_cols=83  Identities=24%  Similarity=0.312  Sum_probs=75.4

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ....||.+-|..+++.+.|...|.+|-.....        ++++++.|++++||+||.|.++.++..||..|+|+.+..+
T Consensus       189 ~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~a--------kviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsr  260 (290)
T KOG0226|consen  189 DDFRIFCGDLGNEVNDDVLARAFKKFPSFQKA--------KVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSR  260 (290)
T ss_pred             ccceeecccccccccHHHHHHHHHhccchhhc--------cccccccccccccceeeeecCHHHHHHHHHhhcccccccc
Confidence            45789999999999999999999999888774        4999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.+..+..+.
T Consensus       261 piklRkS~wke  271 (290)
T KOG0226|consen  261 PIKLRKSEWKE  271 (290)
T ss_pred             hhHhhhhhHHh
Confidence            99887766544

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

Probab=98.29  E-value=5.8e-07  Score=83.44  Aligned_cols=72  Identities=26%  Similarity=0.383  Sum_probs=63.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..|||++||+.+.+.+|+.+|..||.|..+        .+ +       .+|+||+|+++.+|..||..||+++|.+..+
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~--------~m-k-------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~   65 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDA--------DM-K-------NGFGFVEFEDPRDADDAVHDLDGKELCGERL   65 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccc--------ee-e-------cccceeccCchhhhhcccchhcCceecceee
Confidence            369999999999999999999999999872        22 1       2789999999999999999999999999888


Q ss_pred             EEEecccC
Q 016532           86 GVFIAESR   93 (388)
Q Consensus        86 ~V~~a~~~   93 (388)
                      .|+++...
T Consensus        66 vve~~r~~   73 (216)
T KOG0106|consen   66 VVEHARGK   73 (216)
T ss_pred             eeeccccc
Confidence            88888764

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=98.22  E-value=1.1e-06  Score=86.49  Aligned_cols=76  Identities=20%  Similarity=0.311  Sum_probs=56.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT---NEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T---g~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..|-|.||.+++|.++|..+|.-+|.|..        |.||-+...   ....-.|||-|.+...+..|.. |....|-+
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~e--------lrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQh-Ltntvfvd   78 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPE--------LRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQH-LTNTVFVD   78 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhcccccc--------ccccCCCCCccCcceeeeEEEeccCCcceeHHhh-hccceeee
Confidence            48999999999999999999999999988        445543211   1234589999999999999987 55555555


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      ..|.|.+.
T Consensus        79 raliv~p~   86 (479)
T KOG4676|consen   79 RALIVRPY   86 (479)
T ss_pred             eeEEEEec
Confidence            55555443

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

Probab=98.15  E-value=5.7e-06  Score=83.88  Aligned_cols=79  Identities=19%  Similarity=0.299  Sum_probs=66.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ...|-|.+||+++|++||.++|+.++ |..          |+....||++.|.|||+|.+.+++++||+ .+-..+..+.
T Consensus        10 ~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~----------~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RY   77 (510)
T KOG4211|consen   10 AFEVRLRGLPWSATEKEILDFFSNCG-IEN----------LEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRY   77 (510)
T ss_pred             ceEEEecCCCccccHHHHHHHHhcCc-eeE----------EEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCce
Confidence            45677889999999999999999886 443          45556679999999999999999999998 6777788899


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|..+...+.
T Consensus        78 IEVf~~~~~e~   88 (510)
T KOG4211|consen   78 IEVFTAGGAEA   88 (510)
T ss_pred             EEEEccCCccc
Confidence            99998865543

>smart00547 ZnF_RBZ Zinc finger domain

Probab=98.13  E-value=1.2e-06  Score=54.18  Aligned_cols=26  Identities=42%  Similarity=1.099  Sum_probs=24.4

Q ss_pred             CCccCCCCCccccccccccccCCCCC
Q 016532          214 NDWSCPMCGNINWAKRTKCNICNTNK  239 (388)
Q Consensus       214 ~dw~c~~c~~~n~~~~~~c~~c~~~~  239 (388)
                      ++|.|++|.++|++.+..|.+|++|.
T Consensus         1 g~W~C~~C~~~N~~~~~~C~~C~~p~   26 (26)
T smart00547        1 GDWECPACTFLNFASRSKCFACGAPX   26 (26)
T ss_pred             CcccCCCCCCcChhhhccccccCCcC
Confidence            68999999999999999999999873

Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.

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

Probab=98.12  E-value=4.3e-06  Score=87.76  Aligned_cols=84  Identities=18%  Similarity=0.175  Sum_probs=71.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC---CCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK---TTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk---~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      +.++.|||+||++.++++.|...|..||.|..        |+|+.-+   +....+.++||.|.+..+|++|+..|++..
T Consensus       172 P~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlas--------vKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~i  243 (877)
T KOG0151|consen  172 PQTTNLYVGNLNPSVDENFLLRTFGRFGPLAS--------VKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGII  243 (877)
T ss_pred             CcccceeeecCCccccHHHHHHHhcccCcccc--------eeeecccchhhhccccccceeeehhhhhHHHHHHHhccee
Confidence            34688999999999999999999999999998        5565433   234456799999999999999999999999


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      ++...|++-+++..+
T Consensus       244 v~~~e~K~gWgk~V~  258 (877)
T KOG0151|consen  244 VMEYEMKLGWGKAVP  258 (877)
T ss_pred             eeeeeeeeccccccc
Confidence            999999999986543

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=98.07  E-value=4.1e-06  Score=81.56  Aligned_cols=78  Identities=23%  Similarity=0.275  Sum_probs=68.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ..+||+||-+.||++||.+.+...|......      |+++.++.+|++||||+|...+..+.++.|+.|.-++|.|+.-
T Consensus        81 ~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~d------mKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P  154 (498)
T KOG4849|consen   81 YCCYVGNLLWYTTDADLLKALQSTGLAQFAD------MKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSP  154 (498)
T ss_pred             EEEEecceeEEeccHHHHHHHHhhhHHHHhh------hhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCC
Confidence            4689999999999999999998888765544      7899999999999999999999999999999999999999765


Q ss_pred             EEEe
Q 016532           86 GVFI   89 (388)
Q Consensus        86 ~V~~   89 (388)
                      .|..
T Consensus       155 ~V~~  158 (498)
T KOG4849|consen  155 TVLS  158 (498)
T ss_pred             eeec
Confidence            5544

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

Probab=98.01  E-value=4.9e-06  Score=85.85  Aligned_cols=83  Identities=27%  Similarity=0.307  Sum_probs=77.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ....|||++||..+++.++.+++..||.++.        ..++.+..|+.+++|||.+|.++.....|+..|||..+.++
T Consensus       288 ~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~--------f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~  359 (500)
T KOG0120|consen  288 SPNKIFVGGLPLYLTEDQVKELLDSFGPLKA--------FRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDK  359 (500)
T ss_pred             ccchhhhccCcCccCHHHHHHHHHhcccchh--------heeecccccccccceeeeeeeCCcchhhhhcccchhhhcCc
Confidence            3568999999999999999999999999998        77999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|+.|....
T Consensus       360 ~lvvq~A~~g~  370 (500)
T KOG0120|consen  360 KLVVQRAIVGA  370 (500)
T ss_pred             eeEeehhhccc
Confidence            99999987643

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

Probab=98.00  E-value=5e-06  Score=85.36  Aligned_cols=71  Identities=27%  Similarity=0.433  Sum_probs=63.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++..+|+|-|||..|++++|..+|+.||.|..        |+..     -...+..||+|.+..+|++|++.|++..|.+
T Consensus        73 ~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~--------ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~  139 (549)
T KOG4660|consen   73 MNQGTLVVFNLPRSVSNDTLLRIFGAYGEIRE--------IRET-----PNKRGIVFVEFYDVRDAERALKALNRREIAG  139 (549)
T ss_pred             CccceEEEEecCCcCCHHHHHHHHHhhcchhh--------hhcc-----cccCceEEEEEeehHhHHHHHHHHHHHHhhh
Confidence            45679999999999999999999999999987        3333     3446899999999999999999999999999


Q ss_pred             ceEE
Q 016532           83 NLIG   86 (388)
Q Consensus        83 r~I~   86 (388)
                      +.|+
T Consensus       140 ~~~k  143 (549)
T KOG4660|consen  140 KRIK  143 (549)
T ss_pred             hhhc
Confidence            8887

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

Probab=97.90  E-value=2.6e-05  Score=79.24  Aligned_cols=81  Identities=22%  Similarity=0.372  Sum_probs=65.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|-|.+||+.+|++||.+||+-.-.+.. .      |.++.++. +++.|.|||+|++.+.|++||. -|-..|..+
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~-g------i~l~~d~r-gR~tGEAfVqF~sqe~ae~Al~-rhre~iGhR  172 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPD-G------ILLPMDQR-GRPTGEAFVQFESQESAEIALG-RHRENIGHR  172 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCccccc-c------eeeeccCC-CCcccceEEEecCHHHHHHHHH-HHHHhhccc
Confidence            3468889999999999999999998765543 2      65666664 7799999999999999999998 455567778


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      -|.|..+...
T Consensus       173 YIEvF~Ss~~  182 (510)
T KOG4211|consen  173 YIEVFRSSRA  182 (510)
T ss_pred             eEEeehhHHH
Confidence            8898887643

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

Probab=97.83  E-value=5.9e-05  Score=69.89  Aligned_cols=78  Identities=22%  Similarity=0.340  Sum_probs=67.3

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |..++.+||+.|||..++.+.|..+|.+|...+.        |+++...     .+.|||+|.+...|..|+..|++..|
T Consensus       142 ~~ppn~ilf~~niP~es~~e~l~~lf~qf~g~ke--------ir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~~~i  208 (221)
T KOG4206|consen  142 MAPPNNILFLTNIPSESESEMLSDLFEQFPGFKE--------IRLIPPR-----SGIAFVEFLSDRQASAAQQALQGFKI  208 (221)
T ss_pred             CCCCceEEEEecCCcchhHHHHHHHHhhCcccce--------eEeccCC-----CceeEEecchhhhhHHHhhhhcccee
Confidence            3567889999999999999999999999988877        6666544     47999999999999999999999888


Q ss_pred             c-CceEEEEecc
Q 016532           81 H-GNLIGVFIAE   91 (388)
Q Consensus        81 ~-Gr~I~V~~a~   91 (388)
                      - ...|.|.++.
T Consensus       209 t~~~~m~i~~a~  220 (221)
T KOG4206|consen  209 TKKNTMQITFAK  220 (221)
T ss_pred             ccCceEEecccC
Confidence            7 7788887764

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

Probab=97.79  E-value=2.2e-05  Score=72.59  Aligned_cols=65  Identities=15%  Similarity=0.211  Sum_probs=52.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      -.||||.||.+++||++|+.+|+.|--+..        ++| +.+ .|  ...|||+|++.+.|..||..|+|..|.
T Consensus       210 cstlfianl~~~~~ed~l~~~~~~~~gf~~--------l~~-~~~-~g--~~vaf~~~~~~~~at~am~~lqg~~~s  274 (284)
T KOG1457|consen  210 CSTLFIANLGPNCTEDELKQLLSRYPGFHI--------LKI-RAR-GG--MPVAFADFEEIEQATDAMNHLQGNLLS  274 (284)
T ss_pred             hhhHhhhccCCCCCHHHHHHHHHhCCCceE--------EEE-ecC-CC--cceEeecHHHHHHHHHHHHHhhcceec
Confidence            368999999999999999999999976664        333 333 23  358999999999999999999987653

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

Probab=97.74  E-value=0.00012  Score=72.89  Aligned_cols=78  Identities=23%  Similarity=0.347  Sum_probs=69.8

Q ss_pred             CcEEEeccCC-CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            5 NGSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         5 ~~tlfV~nLp-~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..|.|.||. ..+|.+.|..+|+.||.|..        |+|+.++.     --|.|+|.+...|+-||+.|+|..|.|+
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqR--------Vkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g~~l~gk  363 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQR--------VKILYNKK-----DNALIQMSDGQQAQLAMEHLEGHKLYGK  363 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEE--------EEeeecCC-----cceeeeecchhHHHHHHHHhhcceecCc
Confidence            5788899987 67899999999999999998        88988873     4699999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|+|.+++-...
T Consensus       364 ~lrvt~SKH~~v  375 (492)
T KOG1190|consen  364 KLRVTLSKHTNV  375 (492)
T ss_pred             eEEEeeccCccc
Confidence            999999986543

>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=97.73  E-value=0.00012  Score=57.91  Aligned_cols=70  Identities=23%  Similarity=0.310  Sum_probs=46.6

Q ss_pred             cEEEeccCCCCCCHHHHH----HHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            6 GSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~----~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +.|||.|||.+.+...|.    +++..+|--+         +.|.        .+.|+|-|.+++.|..|.+.|++..+.
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkV---------l~v~--------~~tAilrF~~~~~A~RA~KRmegEdVf   65 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKV---------LSVS--------GGTAILRFPNQEFAERAQKRMEGEDVF   65 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--E---------EE----------TT-EEEEESSHHHHHHHHHHHTT--SS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEE---------EEEe--------CCEEEEEeCCHHHHHHHHHhhcccccc
Confidence            579999999999987665    5555676432         2231        267999999999999999999999999


Q ss_pred             CceEEEEeccc
Q 016532           82 GNLIGVFIAES   92 (388)
Q Consensus        82 Gr~I~V~~a~~   92 (388)
                      |.+|.|.+...
T Consensus        66 G~kI~v~~~~~   76 (90)
T PF11608_consen   66 GNKISVSFSPK   76 (90)
T ss_dssp             SS--EEESS--
T ss_pred             cceEEEEEcCC
Confidence            99999999754

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=97.66  E-value=2.5e-05  Score=80.27  Aligned_cols=82  Identities=21%  Similarity=0.359  Sum_probs=74.8

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..|||+.-|+..+++-+|.++|+.+|.|..        |.||.|+.++.++|.|||+|.+.+++..||. |.|..++|.+
T Consensus       179 ~Rtvf~~qla~r~~pRdL~efFs~~gkVrd--------VriI~Dr~s~rskgi~Yvef~D~~sVp~aia-LsGqrllg~p  249 (549)
T KOG0147|consen  179 QRTVFCMQLARRNPPRDLEEFFSIVGKVRD--------VRIIGDRNSRRSKGIAYVEFCDEQSVPLAIA-LSGQRLLGVP  249 (549)
T ss_pred             HHHHHHHHHhhcCCchhHHHHHHhhcCcce--------eEeeccccchhhcceeEEEEecccchhhHhh-hcCCcccCce
Confidence            357888889999999999999999999988        8899999999999999999999999999995 9999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|+.......
T Consensus       250 v~vq~sEaekn  260 (549)
T KOG0147|consen  250 VIVQLSEAEKN  260 (549)
T ss_pred             eEecccHHHHH
Confidence            99998765443

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=97.65  E-value=4e-05  Score=74.68  Aligned_cols=84  Identities=23%  Similarity=0.284  Sum_probs=75.4

Q ss_pred             CCcEEE-eccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVY-VCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlf-V~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.+|| |.+|+..+++++|..+|..++.|..        |.+..+..|+.+++||||.|.....+..++.. +...+.+
T Consensus       183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~--------~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~-~~~~~~~  253 (285)
T KOG4210|consen  183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITS--------VRLPTDEESGDSKGFAYVDFSAGNSKKLALND-QTRSIGG  253 (285)
T ss_pred             ccccceeecccccccchHHHhhhccCcCccee--------eccCCCCCccchhhhhhhhhhhchhHHHHhhc-ccCcccC
Confidence            345666 9999999999999999999999998        78999999999999999999999999999986 7888999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      .++.|.+..+....
T Consensus       254 ~~~~~~~~~~~~~~  267 (285)
T KOG4210|consen  254 RPLRLEEDEPRPKS  267 (285)
T ss_pred             cccccccCCCCccc
Confidence            99999998876553

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.52  E-value=0.00016  Score=70.41  Aligned_cols=80  Identities=23%  Similarity=0.406  Sum_probs=63.4

Q ss_pred             CCcEEEeccCCCCCCHHH----H--HHHHHhcCceeecCCCCCCeEEEEecCCCC---CcccE--EEEEeCCHHHHHHHH
Q 016532            4 ANGSVYVCNLPHGTDEDM----L--AEYFGTIGLLKKDKRTGRPKVWLYRDKTTN---EYKGD--ATVTYEDPHAALAAV   72 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teed----L--~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg---~srG~--aFVeF~s~e~A~~Ai   72 (388)
                      ..+-|||-+||+.+..++    |  .++|.+||.|..          |+.++.|-   ...+.  .||+|.+.++|..||
T Consensus       113 QKNLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~K----------IvvNkkt~s~nst~~h~gvYITy~~kedAarcI  182 (480)
T COG5175         113 QKNLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKK----------IVVNKKTSSLNSTASHAGVYITYSTKEDAARCI  182 (480)
T ss_pred             ecceeEEecCCCCCCcccccccccchhhhhhccceeE----------EEecccccccccccccceEEEEecchHHHHHHH
Confidence            456789999998887766    3  388999999976          55555541   11122  399999999999999


Q ss_pred             HHhCCceecCceEEEEecccC
Q 016532           73 EWFNNKDFHGNLIGVFIAESR   93 (388)
Q Consensus        73 ~~lng~~i~Gr~I~V~~a~~~   93 (388)
                      ...+|..++|+.|+..|...+
T Consensus       183 a~vDgs~~DGr~lkatYGTTK  203 (480)
T COG5175         183 AEVDGSLLDGRVLKATYGTTK  203 (480)
T ss_pred             HHhccccccCceEeeecCchH
Confidence            999999999999999997765

>PF00641 zf-RanBP: Zn-finger in Ran binding protein and others; InterPro: IPR001876 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=97.49  E-value=3.7e-05  Score=49.24  Aligned_cols=30  Identities=50%  Similarity=1.119  Sum_probs=24.1

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPV  176 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~  176 (388)
                      ++|+|.|+  .|..+|++....|+.|++++|.
T Consensus         1 k~g~W~C~--~C~~~N~~~~~~C~~C~~~rp~   30 (30)
T PF00641_consen    1 KEGDWKCP--SCTFMNPASRSKCVACGAPRPG   30 (30)
T ss_dssp             -SSSEEET--TTTEEEESSSSB-TTT--BTTB
T ss_pred             CCcCccCC--CCcCCchHHhhhhhCcCCCCcC
Confidence            36899998  8999999999999999999873

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the zinc finger domain found in RanBP2 proteins. Ran is an evolutionary conserved member of the Ras superfamily that regulates all receptor-mediated transport between the nucleus and the cytoplasm. Ran binding protein 2 (RanBP2) is a 358kDa nucleoporin located on the cytoplasmic side of the nuclear pore complex which plays a role in nuclear protein import []. RanBP2 contains multiple zinc fingers which mediate binding to RanGDP []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9G_A 2EBR_A 2WX0_C 2WX1_C 2WWZ_C 3GJ6_B 2LK0_A 2LK1_A 3GJ5_B 3GJ8_B ....

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

Probab=97.46  E-value=8.4e-05  Score=69.19  Aligned_cols=70  Identities=21%  Similarity=0.157  Sum_probs=61.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .....|+|.+|+..+.+.+|..+|..+|.+...         +.       ..+++||+|...++|..||..|++..|.+
T Consensus        97 ~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~---------~~-------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~  160 (216)
T KOG0106|consen   97 RTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYV---------DA-------RRNFAFVEFSEQEDAKRALEKLDGKKLNG  160 (216)
T ss_pred             cccceeeeccchhhhhHHHHhhhhcccCCCchh---------hh-------hccccceeehhhhhhhhcchhccchhhcC
Confidence            346789999999999999999999999999541         22       35799999999999999999999999999


Q ss_pred             ceEEEE
Q 016532           83 NLIGVF   88 (388)
Q Consensus        83 r~I~V~   88 (388)
                      +.|.|.
T Consensus       161 ~~l~~~  166 (216)
T KOG0106|consen  161 RRISVE  166 (216)
T ss_pred             ceeeec
Confidence            999993

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=97.24  E-value=0.001  Score=68.88  Aligned_cols=77  Identities=22%  Similarity=0.232  Sum_probs=61.6

Q ss_pred             CcEEEeccCCCCCC------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            5 NGSVYVCNLPHGTD------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         5 ~~tlfV~nLp~~~t------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .+.|+|-|+|..-.      ...|..+|+++|.|..        +.++.+..+| .+||.|++|.++.+|+.||+.|||+
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn--------~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G~  128 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVN--------MYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNGK  128 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccc--------eeeccCccCC-eeeEEEEEecChhhHHHHHHhcccc
Confidence            46789999985332      2355688999999887        6677777755 9999999999999999999999999


Q ss_pred             eec-CceEEEEec
Q 016532           79 DFH-GNLIGVFIA   90 (388)
Q Consensus        79 ~i~-Gr~I~V~~a   90 (388)
                      .|+ ++++.|..-
T Consensus       129 ~ldknHtf~v~~f  141 (698)
T KOG2314|consen  129 RLDKNHTFFVRLF  141 (698)
T ss_pred             eecccceEEeehh
Confidence            887 567776653

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=97.12  E-value=0.0013  Score=69.39  Aligned_cols=76  Identities=14%  Similarity=0.249  Sum_probs=66.3

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      +.|-|.|+|+.++-+||.+||.-|-.+..+       |.|-.+ +.|.+.|.|.|.|++.++|..|...|++..|..++|
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~s-------I~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V  939 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNS-------IRIRRN-DDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVV  939 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCc-------eeEeec-CCCCcccceeEeecCHHHHHhhhhccccCcccceeE
Confidence            478899999999999999999999777653       545444 359999999999999999999999999999999999


Q ss_pred             EEEe
Q 016532           86 GVFI   89 (388)
Q Consensus        86 ~V~~   89 (388)
                      .|.+
T Consensus       940 ~l~i  943 (944)
T KOG4307|consen  940 SLRI  943 (944)
T ss_pred             EEEe
Confidence            8875

>smart00547 ZnF_RBZ Zinc finger domain

Probab=97.07  E-value=0.00029  Score=43.39  Aligned_cols=25  Identities=52%  Similarity=1.278  Sum_probs=23.6

Q ss_pred             CCCCCCCCCCcccccccccccccCCCC
Q 016532          147 GDWMCPNTSCSNVNFAFRGVCNRCGTA  173 (388)
Q Consensus       147 gDW~C~~~~cg~~Nfa~R~~C~rC~~~  173 (388)
                      |+|+|+  .|.++||+.+..|++|++|
T Consensus         1 g~W~C~--~C~~~N~~~~~~C~~C~~p   25 (26)
T smart00547        1 GDWECP--ACTFLNFASRSKCFACGAP   25 (26)
T ss_pred             CcccCC--CCCCcChhhhccccccCCc
Confidence            689999  8999999999999999986

Zinc finger domain in Ran-binding proteins (RanBPs), and other proteins. In RanBPs, this domain binds RanGDP.

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

Probab=97.05  E-value=0.00091  Score=66.80  Aligned_cols=78  Identities=18%  Similarity=0.166  Sum_probs=64.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +++.+|.+.|||++++|++|+.+|..-|......        ...    ++.+-+|++.+.+.++|..|+..++...+..
T Consensus       412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkaf--------kff----~kd~kmal~q~~sveeA~~ali~~hnh~lge  479 (492)
T KOG1190|consen  412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAF--------KFF----QKDRKMALPQLESVEEAIQALIDLHNHYLGE  479 (492)
T ss_pred             CchhheeeccCCcccchhHHHHhhhcCCceEEee--------eec----CCCcceeecccCChhHhhhhccccccccCCC
Confidence            5678999999999999999999999988775521        222    2345699999999999999999999888875


Q ss_pred             -ceEEEEeccc
Q 016532           83 -NLIGVFIAES   92 (388)
Q Consensus        83 -r~I~V~~a~~   92 (388)
                       ..|+|+++++
T Consensus       480 n~hlRvSFSks  490 (492)
T KOG1190|consen  480 NHHLRVSFSKS  490 (492)
T ss_pred             CceEEEEeecc
Confidence             5899999876

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

Probab=97.03  E-value=0.0011  Score=55.08  Aligned_cols=70  Identities=20%  Similarity=0.287  Sum_probs=42.1

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc-----ee
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK-----DF   80 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~-----~i   80 (388)
                      ..|+|.+|+..++-++|+.+|++|+.|..        |-+..    |.  -.|||-|.+++.|+.|+..+.-.     .|
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~y--------VD~~~----G~--~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i   67 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAY--------VDFSR----GD--TEGYVRFKTPEAAQKALEKLKEANDGKLKI   67 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEE--------EE--T----T---SEEEEEESS---HHHHHHHHHHTTTS-B-T
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcce--------EEecC----CC--CEEEEEECCcchHHHHHHHHHhccCCceEE
Confidence            36889999999999999999999998876        33332    22  37999999999999999866433     45


Q ss_pred             cCceEEEEe
Q 016532           81 HGNLIGVFI   89 (388)
Q Consensus        81 ~Gr~I~V~~   89 (388)
                      .+..+.+.+
T Consensus        68 ~~~~~~~~v   76 (105)
T PF08777_consen   68 KGKEVTLEV   76 (105)
T ss_dssp             TSSSEEEE-
T ss_pred             cCceEEEEE
Confidence            566666655

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

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.87  E-value=0.0022  Score=65.82  Aligned_cols=62  Identities=24%  Similarity=0.297  Sum_probs=56.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHH-hcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~-~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      +..||||++||--++.++|..+|. -||.|.-        +-|=.|++-+.++|-+-|+|.+..+..+||.
T Consensus       369 prrTVFVGgvprpl~A~eLA~imd~lyGgV~y--------aGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs  431 (520)
T KOG0129|consen  369 PRRTVFVGGLPRPLTAEELAMIMEDLFGGVLY--------VGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS  431 (520)
T ss_pred             ccceEEecCCCCcchHHHHHHHHHHhcCceEE--------EEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence            457999999999999999999998 7999987        5688887778999999999999999999998

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=96.81  E-value=0.0018  Score=64.21  Aligned_cols=85  Identities=16%  Similarity=0.196  Sum_probs=69.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ...|-+.+||+..+.++|..+|..|-.-..-     --|.++.+.+ |.+.|.|||+|.+.+.|..|+...+.+.+..+.
T Consensus       280 kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f-----~gVHmv~N~q-GrPSGeAFIqm~nae~a~aaaqk~hk~~mk~RY  353 (508)
T KOG1365|consen  280 KDCVRLRGLPYEATVEDILDFLGDFATDIRF-----QGVHMVLNGQ-GRPSGEAFIQMRNAERARAAAQKCHKKLMKSRY  353 (508)
T ss_pred             CCeeEecCCChhhhHHHHHHHHHHHhhhccc-----ceeEEEEcCC-CCcChhhhhhhhhhHHHHHHHHHHHHhhcccce
Confidence            4578899999999999999999988644320     1167777765 899999999999999999999988888778999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|..+.....
T Consensus       354 iEvfp~S~eel  364 (508)
T KOG1365|consen  354 IEVFPCSVEEL  364 (508)
T ss_pred             EEEeeccHHHH
Confidence            99998765543

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.76  E-value=0.0075  Score=52.86  Aligned_cols=75  Identities=23%  Similarity=0.298  Sum_probs=51.8

Q ss_pred             CCCCcEEEeccCC------CCCCH---HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 016532            2 TMANGSVYVCNLP------HGTDE---DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV   72 (388)
Q Consensus         2 ~~~~~tlfV~nLp------~~~te---edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai   72 (388)
                      -++..||.|.=+.      ..+.+   .+|.+.|..||.+.-        |+++-+        .-+|+|.+-++|.+|+
T Consensus        24 GPpDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvL--------vRfv~~--------~mwVTF~dg~sALaal   87 (146)
T PF08952_consen   24 GPPDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVL--------VRFVGD--------TMWVTFRDGQSALAAL   87 (146)
T ss_dssp             --TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECE--------EEEETT--------CEEEEESSCHHHHHHH
T ss_pred             CCCCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEE--------EEEeCC--------eEEEEECccHHHHHHH
Confidence            4567788887666      23333   266778888998765        555443        3689999999999999


Q ss_pred             HHhCCceecCceEEEEecccC
Q 016532           73 EWFNNKDFHGNLIGVFIAESR   93 (388)
Q Consensus        73 ~~lng~~i~Gr~I~V~~a~~~   93 (388)
                      . |+|..|.|+.|+|.+..+.
T Consensus        88 s-~dg~~v~g~~l~i~LKtpd  107 (146)
T PF08952_consen   88 S-LDGIQVNGRTLKIRLKTPD  107 (146)
T ss_dssp             H-GCCSEETTEEEEEEE----
T ss_pred             c-cCCcEECCEEEEEEeCCcc
Confidence            8 9999999999999997763

; PDB: 1UFW_A 2DNR_A.

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.74  E-value=0.0038  Score=64.21  Aligned_cols=62  Identities=23%  Similarity=0.313  Sum_probs=48.6

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC---CCCCccc---EEEEEeCCHHHHHHHHHHh
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK---TTNEYKG---DATVTYEDPHAALAAVEWF   75 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk---~Tg~srG---~aFVeF~s~e~A~~Ai~~l   75 (388)
                      +.+|||++||++++|+.|...|..||.+..+         .....   .--.++|   |+|+.|+++.++++.|...
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FGs~~Vd---------WP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC  326 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFGSVKVD---------WPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSAC  326 (520)
T ss_pred             ccceeecCCCccccHHHHHhhcccccceEee---------cCCCccccccCCCCCcccEEEEEecchHHHHHHHHHH
Confidence            5789999999999999999999999998752         33111   1123566   9999999999988877654

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

Probab=96.67  E-value=0.004  Score=45.26  Aligned_cols=53  Identities=21%  Similarity=0.327  Sum_probs=41.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV   72 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai   72 (388)
                      ++.|-|.|.++...+..| .+|.+||.|..        +.+.      ....+.||.|.+..+|++||
T Consensus         1 ~~wI~V~Gf~~~~~~~vl-~~F~~fGeI~~--------~~~~------~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    1 STWISVSGFPPDLAEEVL-EHFASFGEIVD--------IYVP------ESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             CcEEEEEeECchHHHHHH-HHHHhcCCEEE--------EEcC------CCCcEEEEEECCHHHHHhhC
Confidence            367889999987775555 48889999987        3333      22468999999999999985

>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=96.67  E-value=0.0091  Score=49.24  Aligned_cols=80  Identities=20%  Similarity=0.319  Sum_probs=51.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC------CCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK------TTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk------~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      ....|.|-+.|+.. ...|..+|++||.|...       +.+..+.      ..-....+..|+|.++.+|++||. .||
T Consensus         5 ~~~wVtVFGfp~~~-~~~Vl~~F~~~G~Ile~-------~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~-~NG   75 (100)
T PF05172_consen    5 SETWVTVFGFPPSA-SNQVLRHFSSFGTILEH-------FEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQ-KNG   75 (100)
T ss_dssp             GCCEEEEE---GGG-HHHHHHHHHCCS-EECE-------EGGG----------E-CCTTEEEEEESSHHHHHHHHT-TTT
T ss_pred             CCeEEEEEccCHHH-HHHHHHHHHhcceEEEe-------ecccccccccccccCCCCCCEEEEECCCHHHHHHHHH-hCC
Confidence            45678899999984 56677899999999872       1000000      001124699999999999999998 899


Q ss_pred             ceecCc-eEEEEeccc
Q 016532           78 KDFHGN-LIGVFIAES   92 (388)
Q Consensus        78 ~~i~Gr-~I~V~~a~~   92 (388)
                      ..|.|. +|-|.+..+
T Consensus        76 ~i~~g~~mvGV~~~~~   91 (100)
T PF05172_consen   76 TIFSGSLMVGVKPCDP   91 (100)
T ss_dssp             EEETTCEEEEEEE-HH
T ss_pred             eEEcCcEEEEEEEcHH
Confidence            999885 555766643

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.

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

Probab=96.54  E-value=0.019  Score=52.15  Aligned_cols=62  Identities=23%  Similarity=0.238  Sum_probs=54.2

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ...|+|.+||++.++++|++++.+-|.|..+.        |.+|       +++.|+|...++++-||..|+...+.
T Consensus       115 e~RVvVsGLp~SgSWQDLKDHmReaGdvCfad--------v~rD-------g~GvV~~~r~eDMkYAvr~ld~~~~~  176 (241)
T KOG0105|consen  115 EYRVVVSGLPPSGSWQDLKDHMREAGDVCFAD--------VQRD-------GVGVVEYLRKEDMKYAVRKLDDQKFR  176 (241)
T ss_pred             ceeEEEecCCCCCchHHHHHHHHhhCCeeeee--------eecc-------cceeeeeeehhhHHHHHHhhcccccc
Confidence            46899999999999999999999999998743        5554       47999999999999999999887665

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

Probab=96.47  E-value=0.0077  Score=59.75  Aligned_cols=79  Identities=15%  Similarity=0.168  Sum_probs=62.5

Q ss_pred             CCCcEEEeccCC--CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLP--HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp--~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .++..|.+.=|+  +.+|.+.|.++....|.|..        |.|++.  ++.   -|.|+|++.+.|++|...|||..|
T Consensus       118 ~pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlR--------IvIfkk--ngV---QAmVEFdsv~~AqrAk~alNGADI  184 (494)
T KOG1456|consen  118 TPNKVLLFTILNPQYPITVDVLYTICNPQGKVLR--------IVIFKK--NGV---QAMVEFDSVEVAQRAKAALNGADI  184 (494)
T ss_pred             CCCeEEEEEeecCccccchhhhhhhcCCCCceEE--------EEEEec--cce---eeEEeechhHHHHHHHhhcccccc
Confidence            355666665555  57888999999999999987        545443  443   599999999999999999999988


Q ss_pred             cC--ceEEEEecccCC
Q 016532           81 HG--NLIGVFIAESRG   94 (388)
Q Consensus        81 ~G--r~I~V~~a~~~~   94 (388)
                      ..  -+|+|+||++..
T Consensus       185 YsGCCTLKIeyAkP~r  200 (494)
T KOG1456|consen  185 YSGCCTLKIEYAKPTR  200 (494)
T ss_pred             cccceeEEEEecCcce
Confidence            64  789999998753

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=96.47  E-value=0.0027  Score=60.03  Aligned_cols=72  Identities=24%  Similarity=0.339  Sum_probs=57.2

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC--------CCccc----EEEEEeCCHHHHHHHH
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT--------NEYKG----DATVTYEDPHAALAAV   72 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T--------g~srG----~aFVeF~s~e~A~~Ai   72 (388)
                      ...|||++||+.+...-|+++|++||.|-.        |.|-....+        +....    -+.|+|.+...|..+.
T Consensus        74 ~GVvylS~IPp~m~~~rlReil~~yGeVGR--------vylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iA  145 (278)
T KOG3152|consen   74 TGVVYLSNIPPYMDPVRLREILSQYGEVGR--------VYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIA  145 (278)
T ss_pred             ceEEEeccCCCccCHHHHHHHHHhccccce--------EEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHH
Confidence            468999999999999999999999999987        444333322        22222    3569999999999999


Q ss_pred             HHhCCceecCce
Q 016532           73 EWFNNKDFHGNL   84 (388)
Q Consensus        73 ~~lng~~i~Gr~   84 (388)
                      ..||+..|.|+.
T Consensus       146 e~Lnn~~Iggkk  157 (278)
T KOG3152|consen  146 ELLNNTPIGGKK  157 (278)
T ss_pred             HHhCCCccCCCC
Confidence            999999998853

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

Probab=96.46  E-value=0.003  Score=63.60  Aligned_cols=68  Identities=28%  Similarity=0.379  Sum_probs=55.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEec---CCC--CCc--------ccEEEEEeCCHHHHH
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRD---KTT--NEY--------KGDATVTYEDPHAAL   69 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~d---k~T--g~s--------rG~aFVeF~s~e~A~   69 (388)
                      +++.+|.+.|||.+-.-+-|.++|+.+|.|+.        |+|..-   +..  +.+        +-+|||+|+..+.|.
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~Iks--------IRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~  300 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKS--------IRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAAR  300 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceee--------eeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHH
Confidence            57889999999999999999999999999998        666543   111  111        458999999999999


Q ss_pred             HHHHHhCCc
Q 016532           70 AAVEWFNNK   78 (388)
Q Consensus        70 ~Ai~~lng~   78 (388)
                      +|.+.|+..
T Consensus       301 KA~e~~~~e  309 (484)
T KOG1855|consen  301 KARELLNPE  309 (484)
T ss_pred             HHHHhhchh
Confidence            999988544

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

Probab=96.39  E-value=0.011  Score=58.05  Aligned_cols=79  Identities=22%  Similarity=0.348  Sum_probs=60.7

Q ss_pred             CCcEEEeccCC----CCCC-------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 016532            4 ANGSVYVCNLP----HGTD-------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV   72 (388)
Q Consensus         4 ~~~tlfV~nLp----~~~t-------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai   72 (388)
                      .+.+|.|.||=    ...+       +++|.+.-.+||.|..        |.|+ ++   .+.|.+.|.|.+.++|..||
T Consensus       264 ~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~--------vvv~-d~---hPdGvvtV~f~n~eeA~~ci  331 (382)
T KOG1548|consen  264 ADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRK--------VVVY-DR---HPDGVVTVSFRNNEEADQCI  331 (382)
T ss_pred             CCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcce--------EEEe-cc---CCCceeEEEeCChHHHHHHH
Confidence            35678888862    2233       2455566788999987        5454 33   46799999999999999999


Q ss_pred             HHhCCceecCceEEEEecccCC
Q 016532           73 EWFNNKDFHGNLIGVFIAESRG   94 (388)
Q Consensus        73 ~~lng~~i~Gr~I~V~~a~~~~   94 (388)
                      ..|+|..|.|+.|..++...+.
T Consensus       332 q~m~GR~fdgRql~A~i~DG~t  353 (382)
T KOG1548|consen  332 QTMDGRWFDGRQLTASIWDGKT  353 (382)
T ss_pred             HHhcCeeecceEEEEEEeCCcc
Confidence            9999999999999998865543

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

Probab=96.32  E-value=0.0095  Score=61.93  Aligned_cols=64  Identities=14%  Similarity=0.189  Sum_probs=49.3

Q ss_pred             HHHHHHHHhcCceeecCCCCCCeEEEEec---CCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEecc
Q 016532           20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRD---KTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE   91 (388)
Q Consensus        20 edL~~~F~~~G~i~~~~~tg~p~V~i~~d---k~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a~   91 (388)
                      ++|+..+++||.|.+        |.|.+.   .......|-.||+|.+.++++.|++.|+|..|.+++|...|-.
T Consensus       424 Edvr~ec~k~g~v~~--------v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVvtsYyd  490 (500)
T KOG0120|consen  424 EDVRTECAKFGAVRS--------VEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVVASYYD  490 (500)
T ss_pred             HHHHHHhcccCceeE--------EecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEEEEecC
Confidence            344556678999988        556555   1122335678999999999999999999999999999888754

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

Probab=96.19  E-value=0.0056  Score=66.57  Aligned_cols=80  Identities=20%  Similarity=0.209  Sum_probs=67.8

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..+++.|+|++|++++....|..+|..||.|..          |-.+.  +.  -||+|.|++...|+.|+..|-+..|.
T Consensus       452 st~ttr~~sgglg~w~p~~~l~r~fd~fGpir~----------Idy~h--gq--~yayi~yes~~~aq~a~~~~rgap~G  517 (975)
T KOG0112|consen  452 STPTTRLQSGGLGPWSPVSRLNREFDRFGPIRI----------IDYRH--GQ--PYAYIQYESPPAAQAATHDMRGAPLG  517 (975)
T ss_pred             cccceeeccCCCCCCChHHHHHHHhhccCccee----------eeccc--CC--cceeeecccCccchhhHHHHhcCcCC
Confidence            356789999999999999999999999999986          33332  33  49999999999999999999999998


Q ss_pred             C--ceEEEEecccCCC
Q 016532           82 G--NLIGVFIAESRGK   95 (388)
Q Consensus        82 G--r~I~V~~a~~~~~   95 (388)
                      +  +.|.|.|+.....
T Consensus       518 ~P~~r~rvdla~~~~~  533 (975)
T KOG0112|consen  518 GPPRRLRVDLASPPGA  533 (975)
T ss_pred             CCCcccccccccCCCC
Confidence            5  7899999876543

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

Probab=96.09  E-value=0.027  Score=55.97  Aligned_cols=78  Identities=27%  Similarity=0.344  Sum_probs=67.1

Q ss_pred             CCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +...++|.+|... ++-+.|..+|-.||.|..        |++++.+.     +-|.|++-+..+.+.||..||+..+-|
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~r--------vkFmkTk~-----gtamVemgd~~aver~v~hLnn~~lfG  352 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVER--------VKFMKTKP-----GTAMVEMGDAYAVERAVTHLNNIPLFG  352 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhcCceee--------EEEeeccc-----ceeEEEcCcHHHHHHHHHHhccCcccc
Confidence            4578999999865 455778999999999998        88888763     789999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      .+|.|.+++...
T Consensus       353 ~kl~v~~SkQ~~  364 (494)
T KOG1456|consen  353 GKLNVCVSKQNF  364 (494)
T ss_pred             ceEEEeeccccc
Confidence            999998887543

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=96.00  E-value=0.037  Score=41.57  Aligned_cols=60  Identities=15%  Similarity=0.160  Sum_probs=44.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF   75 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l   75 (388)
                      ....+|+|.|| .+++.++|+.+|..|-....     .-.|..+-|.       -|-|.|.+.+.|.+||..|
T Consensus         3 ~rpeavhirGv-d~lsT~dI~~y~~~y~~~~~-----~~~IEWIdDt-------ScNvvf~d~~~A~~AL~~L   62 (62)
T PF10309_consen    3 IRPEAVHIRGV-DELSTDDIKAYFSEYFDEEG-----PFRIEWIDDT-------SCNVVFKDEETAARALVAL   62 (62)
T ss_pred             ceeceEEEEcC-CCCCHHHHHHHHHHhcccCC-----CceEEEecCC-------cEEEEECCHHHHHHHHHcC
Confidence            34678999999 55888899999999811110     1127777775       3899999999999999754

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=95.98  E-value=0.0083  Score=60.37  Aligned_cols=75  Identities=23%  Similarity=0.286  Sum_probs=58.7

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc-eecCce
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK-DFHGNL   84 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~-~i~Gr~   84 (388)
                      ++||++||.+.++..+|+.+|...- +.-..      -.++.       .+||||.+.+...|.+|++.|+++ ++.|..
T Consensus         2 nklyignL~p~~~psdl~svfg~ak-~~~~g------~fl~k-------~gyafvd~pdq~wa~kaie~~sgk~elqGkr   67 (584)
T KOG2193|consen    2 NKLYIGNLSPQVTPSDLESVFGDAK-IPGSG------QFLVK-------SGYAFVDCPDQQWANKAIETLSGKVELQGKR   67 (584)
T ss_pred             CcccccccCCCCChHHHHHHhcccc-CCCCc------ceeee-------cceeeccCCchhhhhhhHHhhchhhhhcCce
Confidence            5799999999999999999997541 11110      11221       379999999999999999999987 578999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      +.|..+-++.
T Consensus        68 ~e~~~sv~kk   77 (584)
T KOG2193|consen   68 QEVEHSVPKK   77 (584)
T ss_pred             eeccchhhHH
Confidence            9999887654

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=95.79  E-value=0.0036  Score=67.69  Aligned_cols=82  Identities=18%  Similarity=0.154  Sum_probs=71.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ...|||.|+|+..|.++|+.++..+|.+++        +.++..+. |+++|.|||.|.++.++.+++...+...+.-..
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~--------~~~vt~r~-gkpkg~a~v~y~~ea~~s~~~~s~d~~~~rE~~  806 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTS--------LRLVTVRA-GKPKGKARVDYNTEADASRKVASVDVAGKRENN  806 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccc--------cchhhhhc-cccccceeccCCCcchhhhhcccchhhhhhhcC
Confidence            457999999999999999999999999988        55777764 899999999999999999999888888787778


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      +.|..+.+...
T Consensus       807 ~~v~vsnp~~~  817 (881)
T KOG0128|consen  807 GEVQVSNPERD  817 (881)
T ss_pred             ccccccCCccc
Confidence            88888776443

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=95.78  E-value=0.011  Score=61.88  Aligned_cols=78  Identities=21%  Similarity=0.268  Sum_probs=63.2

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhc-CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTI-GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~-G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-   81 (388)
                      .++.|||.||---+|.-+|+.+|..- |.|..        +||  |+    .+..|||.|.+.++|.+.+.+||++.+- 
T Consensus       443 ~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee--------~Wm--Dk----IKShCyV~yss~eEA~atr~AlhnV~WP~  508 (718)
T KOG2416|consen  443 PSNVLHIDNLVRPFTLGQLKELLGRTGGNVEE--------FWM--DK----IKSHCYVSYSSVEEAAATREALHNVQWPP  508 (718)
T ss_pred             ccceEeeecccccchHHHHHHHHhhccCchHH--------HHH--HH----hhcceeEecccHHHHHHHHHHHhccccCC
Confidence            57899999999999999999999954 55554        433  33    3568999999999999999999999774 


Q ss_pred             --CceEEEEecccCCC
Q 016532           82 --GNLIGVFIAESRGK   95 (388)
Q Consensus        82 --Gr~I~V~~a~~~~~   95 (388)
                        .+.|.|.|......
T Consensus       509 sNPK~L~adf~~~del  524 (718)
T KOG2416|consen  509 SNPKHLIADFVRADEL  524 (718)
T ss_pred             CCCceeEeeecchhHH
Confidence              58899998876544

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=95.41  E-value=0.044  Score=54.70  Aligned_cols=79  Identities=20%  Similarity=0.239  Sum_probs=54.5

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      .|-+.+||+++|+.++.++|..--.|.-    +...|.++..+ .|++.|.|||.|..+++|+.||... -..|.-+.|.
T Consensus       163 ivRmRGLPfdat~~dVv~FF~~~cpv~~----g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~kh-rq~iGqRYIE  236 (508)
T KOG1365|consen  163 IVRMRGLPFDATALDVVEFFGPPCPVTG----GTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRKH-RQNIGQRYIE  236 (508)
T ss_pred             EEEecCCCCCcchHHHHHhcCCCCcccC----CccceEEEECC-CCCcccceEEEecCHHHHHHHHHHH-HHHHhHHHHH
Confidence            4557799999999999999974433331    12225444443 5899999999999999999999743 2334445555


Q ss_pred             EEecc
Q 016532           87 VFIAE   91 (388)
Q Consensus        87 V~~a~   91 (388)
                      |..+.
T Consensus       237 lFRST  241 (508)
T KOG1365|consen  237 LFRST  241 (508)
T ss_pred             HHHHh
Confidence            55444

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=95.31  E-value=0.013  Score=55.58  Aligned_cols=64  Identities=17%  Similarity=0.236  Sum_probs=50.2

Q ss_pred             HHHHHHHH-hcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEeccc
Q 016532           20 DMLAEYFG-TIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        20 edL~~~F~-~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a~~   92 (388)
                      ++|...|+ +||.|..        +.|-.+. .-...|-+||.|...++|++|++.||+.-|.|++|+.++..-
T Consensus        83 Ed~f~E~~~kygEiee--------~~Vc~Nl-~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pv  147 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEE--------LNVCDNL-GDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPV  147 (260)
T ss_pred             HHHHHHHHHHhhhhhh--------hhhhccc-chhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCc
Confidence            45555555 8999987        4344333 234578899999999999999999999999999999988754

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=95.28  E-value=0.0014  Score=70.64  Aligned_cols=68  Identities=28%  Similarity=0.386  Sum_probs=57.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++||.||++.+.+++|...|..++.+..        |.|...+.++..+|+|||+|..++++.+||.......+.
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~--------vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g  735 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEV--------VQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG  735 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhh--------HHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh
Confidence            57899999999999999999999998887        445556667899999999999999999999955555444

>PF12871 PRP38_assoc: Pre-mRNA-splicing factor 38-associated hydrophilic C-term; InterPro: IPR024767 This entry represents a hydrophilic domain found mainly at the C terminus of plant and metazoan pre-mRNA-splicing factor 38 proteins

Probab=95.13  E-value=0.015  Score=47.60  Aligned_cols=8  Identities=63%  Similarity=0.754  Sum_probs=3.2

Q ss_pred             cccccccc
Q 016532          379 RGRDRMRY  386 (388)
Q Consensus       379 r~r~r~r~  386 (388)
                      |+|+++++
T Consensus        88 R~RdRdr~   95 (97)
T PF12871_consen   88 RSRDRDRD   95 (97)
T ss_pred             cccccccc
Confidence            33344443

The function of the domain is not known.

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=94.68  E-value=0.096  Score=50.69  Aligned_cols=64  Identities=20%  Similarity=0.228  Sum_probs=48.2

Q ss_pred             HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCc-ccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEecc
Q 016532           20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEY-KGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE   91 (388)
Q Consensus        20 edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~s-rG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a~   91 (388)
                      .++.....+||.|..        |.|+..+..-.. ---.||+|+..++|.+|+..|||..|.|+.+...|-.
T Consensus       301 de~keEceKyg~V~~--------viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fyn  365 (378)
T KOG1996|consen  301 DETKEECEKYGKVGN--------VIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFYN  365 (378)
T ss_pred             HHHHHHHHhhcceee--------EEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheecc
Confidence            466778889999987        445544421111 1246999999999999999999999999988877643

>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=94.64  E-value=0.056  Score=49.10  Aligned_cols=84  Identities=17%  Similarity=0.106  Sum_probs=48.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHh-cCceeecCCCCCCeEE-EEecCCCC-CcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGT-IGLLKKDKRTGRPKVW-LYRDKTTN-EYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~-~G~i~~~~~tg~p~V~-i~~dk~Tg-~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      ...+|.|..||+.+|++++...++. ++....-     ..+. .+...... ..-.-|||.|.+.+++...+..++|..|
T Consensus         6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w-----~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F   80 (176)
T PF03467_consen    6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDW-----YYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVF   80 (176)
T ss_dssp             ---EEEEEEE-TTS-HHHHCCCCSS--SSE--------EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEE
T ss_pred             cCceEEEeCCCCCCCHHHHHHHhhhhcccccce-----EEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEE
Confidence            4569999999999999998875554 3333100     0011 01111111 1234699999999999999999999888


Q ss_pred             cC-----ceEEEEeccc
Q 016532           81 HG-----NLIGVFIAES   92 (388)
Q Consensus        81 ~G-----r~I~V~~a~~   92 (388)
                      .+     ....|++|..
T Consensus        81 ~D~kg~~~~~~VE~Apy   97 (176)
T PF03467_consen   81 VDSKGNEYPAVVEFAPY   97 (176)
T ss_dssp             E-TTS-EEEEEEEE-SS
T ss_pred             ECCCCCCcceeEEEcch
Confidence            64     3456666655

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.

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=93.91  E-value=0.29  Score=37.27  Aligned_cols=56  Identities=14%  Similarity=0.186  Sum_probs=45.5

Q ss_pred             CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEE
Q 016532           15 HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV   87 (388)
Q Consensus        15 ~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V   87 (388)
                      ..++-++|+..|..|.-..           |..++ |    || ||.|.+..+|++++...++..+....|.+
T Consensus        10 ~~~~v~d~K~~Lr~y~~~~-----------I~~d~-t----Gf-YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   10 HGVTVEDFKKRLRKYRWDR-----------IRDDR-T----GF-YIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             CCccHHHHHHHHhcCCcce-----------EEecC-C----EE-EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            4678899999999998554           55555 2    44 89999999999999999999888877665

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

>PF12871 PRP38_assoc: Pre-mRNA-splicing factor 38-associated hydrophilic C-term; InterPro: IPR024767 This entry represents a hydrophilic domain found mainly at the C terminus of plant and metazoan pre-mRNA-splicing factor 38 proteins

Probab=93.84  E-value=0.051  Score=44.53  Aligned_cols=6  Identities=33%  Similarity=0.590  Sum_probs=2.2

Q ss_pred             hhhccc
Q 016532          376 EYERGR  381 (388)
Q Consensus       376 ~r~r~r  381 (388)
                      ++++++
T Consensus        89 ~RdRdr   94 (97)
T PF12871_consen   89 SRDRDR   94 (97)
T ss_pred             cccccc
Confidence            333333

The function of the domain is not known.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=93.71  E-value=0.021  Score=56.03  Aligned_cols=83  Identities=20%  Similarity=0.319  Sum_probs=60.8

Q ss_pred             CcEEEeccCCCCCCHHHHH---HHHHhcCceeecCCCCCCeEEEEecCCCCC---cccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            5 NGSVYVCNLPHGTDEDMLA---EYFGTIGLLKKDKRTGRPKVWLYRDKTTNE---YKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~---~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~---srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .+-+||-+|++.+..+.+.   ..|.+||.|..        |.+..+..+-.   .-.-++|+|...++|..||...++.
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~k--------i~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~  148 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINK--------IVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGF  148 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceE--------EeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhH
Confidence            4568899999877665553   67888998877        44444331011   1124899999999999999999999


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .+.++.|++.+...+.-
T Consensus       149 ~~dg~~lka~~gttkyc  165 (327)
T KOG2068|consen  149 VDDGRALKASLGTTKYC  165 (327)
T ss_pred             HhhhhhhHHhhCCCcch
Confidence            99999888888776543

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=93.51  E-value=0.091  Score=49.94  Aligned_cols=62  Identities=23%  Similarity=0.356  Sum_probs=53.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      ..|||.||+..++-+.|.+.|..||.|...       |.++-+  -+++.+-.+|.|...-.|.+|+..+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~a-------v~~vD~--r~k~t~eg~v~~~~k~~a~~a~rr~~   93 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERA-------VAKVDD--RGKPTREGIVEFAKKPNARKAARRCR   93 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchh-------eeeecc--cccccccchhhhhcchhHHHHHHHhc
Confidence            789999999999999999999999999874       434433  37888899999999999999998764

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

Probab=93.46  E-value=0.097  Score=54.52  Aligned_cols=53  Identities=23%  Similarity=0.308  Sum_probs=43.1

Q ss_pred             EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec----CceEEEEecccCCC
Q 016532           43 VWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH----GNLIGVFIAESRGK   95 (388)
Q Consensus        43 V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~----Gr~I~V~~a~~~~~   95 (388)
                      +.++.|-.+....|||||.|.+++++..+++++||+.+.    .+...|.||.-+.+
T Consensus       419 lYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnGk~W~~FnS~Kia~itYArIQGk  475 (549)
T KOG4660|consen  419 LYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNGKKWEKFNSEKIASITYARIQGK  475 (549)
T ss_pred             EEeccccccccccceeEEeecCHHHHHHHHHHHcCCchhhhcceeeeeeehhhhhch
Confidence            567777777888999999999999999999999999765    35667777765544

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=93.37  E-value=0.5  Score=39.66  Aligned_cols=68  Identities=21%  Similarity=0.218  Sum_probs=46.5

Q ss_pred             cEEEeccCC-CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            6 GSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         6 ~tlfV~nLp-~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+|.|--+| ..++.++|..+.+.+-....       .++|+++..  ..+-.+.|.|.+.+.|...+..+||+.|.-
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~-------~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIE-------HIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEE-------EEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            344444444 45555566655555544333       278888753  356678999999999999999999998763

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=93.22  E-value=0.26  Score=39.22  Aligned_cols=54  Identities=15%  Similarity=0.199  Sum_probs=40.7

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      .+||. .|...-..||.++|+.||.|.         |..+-+.       -|||.+...+.|..++..+.-
T Consensus        11 VFhlt-FPkeWK~~DI~qlFspfG~I~---------VsWi~dT-------SAfV~l~~r~~~~~v~~~~~~   64 (87)
T PF08675_consen   11 VFHLT-FPKEWKTSDIYQLFSPFGQIY---------VSWINDT-------SAFVALHNRDQAKVVMNTLKK   64 (87)
T ss_dssp             EEEEE---TT--HHHHHHHCCCCCCEE---------EEEECTT-------EEEEEECCCHHHHHHHHHHTT
T ss_pred             EEEEe-CchHhhhhhHHHHhccCCcEE---------EEEEcCC-------cEEEEeecHHHHHHHHHHhcc
Confidence            44555 999999999999999999997         4455543       599999999999999987763

; 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.

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=92.93  E-value=0.071  Score=56.88  Aligned_cols=78  Identities=23%  Similarity=0.133  Sum_probs=59.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ...|||..||..|++.++..+|...-.|+. .      |.|..-+ |++.++.|||+|..++++..|+..-.-..+..+.
T Consensus       434 g~~lyv~~lP~~t~~~~~v~~f~~~~~Ved-~------I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r~  505 (944)
T KOG4307|consen  434 GGALYVFQLPVMTPIVPPVNKFMGAAAVED-F------IELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHRI  505 (944)
T ss_pred             cceEEeccCCccccccchhhhhhhhhhhhh-e------eEeccCC-cccccchhhheeccccccchhhhcccccccCceE
Confidence            468999999999999999999987665553 1      5555544 5778899999999988888887655555555677


Q ss_pred             EEEEec
Q 016532           85 IGVFIA   90 (388)
Q Consensus        85 I~V~~a   90 (388)
                      |.|...
T Consensus       506 irv~si  511 (944)
T KOG4307|consen  506 IRVDSI  511 (944)
T ss_pred             EEeech
Confidence            777653

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

Probab=92.62  E-value=0.031  Score=61.04  Aligned_cols=79  Identities=11%  Similarity=0.017  Sum_probs=63.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.|||++||+..+++.+|+..|..+|.|....      |+...-   +.-.-|+||.|.+...+..|...+.+..|...
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VD------iKtP~~---~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g  441 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVD------IKTPHI---KTESAYAFVSLLNTDMTPSAKFEESGPLIGNG  441 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhhhhhccccccc------cccCCC---CcccchhhhhhhccccCcccchhhcCCccccC
Confidence            578999999999999999999999999998843      333322   23346999999999999999998988888766


Q ss_pred             eEEEEecc
Q 016532           84 LIGVFIAE   91 (388)
Q Consensus        84 ~I~V~~a~   91 (388)
                      .+.+-+..
T Consensus       442 ~~r~glG~  449 (975)
T KOG0112|consen  442 THRIGLGQ  449 (975)
T ss_pred             cccccccc
Confidence            66666654

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

Probab=92.19  E-value=0.081  Score=56.57  Aligned_cols=12  Identities=17%  Similarity=0.047  Sum_probs=6.2

Q ss_pred             ecCceEEEEecc
Q 016532           80 FHGNLIGVFIAE   91 (388)
Q Consensus        80 i~Gr~I~V~~a~   91 (388)
                      |.|.+|.++...
T Consensus       633 ldgipm~~e~~s  644 (877)
T KOG0151|consen  633 LDGIPMMVETKS  644 (877)
T ss_pred             ccCceeeeeecc
Confidence            445555555443

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=92.18  E-value=0.82  Score=35.25  Aligned_cols=72  Identities=13%  Similarity=0.045  Sum_probs=41.0

Q ss_pred             EEEec-cCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            7 SVYVC-NLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         7 tlfV~-nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      +|||. +--..++..+|..+|...+.|....      |--+.-.     ..|+||+.... .|+.+|..|++..+.|+.|
T Consensus         2 rl~in~Gr~dg~~~~~iv~~i~~~~gi~~~~------IG~I~I~-----~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v   69 (74)
T PF03880_consen    2 RLFINVGRKDGLTPRDIVGAICNEAGIPGRD------IGRIDIF-----DNFSFVEVPEE-VAEKVLEALNGKKIKGKKV   69 (74)
T ss_dssp             EEEES-SGGGT--HHHHHHHHHTCTTB-GGG------EEEEEE------SS-EEEEE-TT--HHHHHHHHTT--SSS---
T ss_pred             EEEEEcccccCCCHHHHHHHHHhccCCCHHh------EEEEEEe-----eeEEEEEECHH-HHHHHHHHhcCCCCCCeeE
Confidence            45553 3346788899999998877676533      3222222     24899998754 7888999999999999999


Q ss_pred             EEEec
Q 016532           86 GVFIA   90 (388)
Q Consensus        86 ~V~~a   90 (388)
                      .|+.|
T Consensus        70 ~ve~A   74 (74)
T PF03880_consen   70 RVERA   74 (74)
T ss_dssp             -EEE-
T ss_pred             EEEEC
Confidence            99875

; PDB: 2G0C_A 3MOJ_B.

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=91.44  E-value=0.12  Score=54.92  Aligned_cols=71  Identities=13%  Similarity=0.157  Sum_probs=61.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+||...+.++-+..++..+|.|.+          +.+.+       |+|..|..+.-+..|+..+.-..+.+
T Consensus        38 ~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s----------~kr~~-------fgf~~f~~~~~~~ra~r~~t~~~~~~  100 (668)
T KOG2253|consen   38 PPRDTVFVGNISYLVSQEFWKSILAKSGFVPS----------WKRDK-------FGFCEFLKHIGDLRASRLLTELNIDD  100 (668)
T ss_pred             CCCceeEecchhhhhhHHHHHHHHhhCCcchh----------hhhhh-------hcccchhhHHHHHHHHHHhcccCCCc
Confidence            46689999999999999999999999999987          22322       99999999999999999999888888


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      ..+.+...
T Consensus       101 ~kl~~~~d  108 (668)
T KOG2253|consen  101 QKLIENVD  108 (668)
T ss_pred             chhhccch
Confidence            87777664

>KOG4574 consensus RNA-binding protein (contains RRM and Pumilio-like repeats) [General function prediction only]

Probab=91.22  E-value=0.17  Score=55.14  Aligned_cols=77  Identities=19%  Similarity=0.228  Sum_probs=64.9

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec--Cce
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH--GNL   84 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~--Gr~   84 (388)
                      +.++.|++...+-.-|..+|.+||.|.+        +|.+++-      ..|.|+|.+.+.|..|+.+|+|+++.  |-+
T Consensus       300 ~~~~~nn~v~~tSssL~~l~s~yg~v~s--------~wtlr~~------N~alvs~~s~~sai~a~dAl~gkevs~~g~P  365 (1007)
T KOG4574|consen  300 KQSLENNAVNLTSSSLATLCSDYGSVAS--------AWTLRDL------NMALVSFSSVESAILALDALQGKEVSVTGAP  365 (1007)
T ss_pred             hhhhhcccccchHHHHHHHHHhhcchhh--------heecccc------cchhhhhHHHHHHHHhhhhhcCCcccccCCc
Confidence            4456677778888999999999999998        7777765      47999999999999999999998754  788


Q ss_pred             EEEEecccCCCCC
Q 016532           85 IGVFIAESRGKDD   97 (388)
Q Consensus        85 I~V~~a~~~~~~~   97 (388)
                      .+|.+|+.-+...
T Consensus       366 s~V~~ak~~~~~e  378 (1007)
T KOG4574|consen  366 SRVSFAKTLPMYE  378 (1007)
T ss_pred             eeEEecccccccc
Confidence            9999998876654

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=91.07  E-value=0.78  Score=40.20  Aligned_cols=73  Identities=18%  Similarity=0.208  Sum_probs=52.2

Q ss_pred             CCCCcEEEeccCCCCCCH-H---HHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            2 TMANGSVYVCNLPHGTDE-D---MLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~te-e---dL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      .++=.||.|.=|..++.. +   .|...++.||.|.+        |.+.       .+.-|.|+|.+..+|=.|+.+++.
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~S--------VT~c-------GrqsavVvF~d~~SAC~Av~Af~s  147 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQS--------VTLC-------GRQSAVVVFKDITSACKAVSAFQS  147 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcce--------eeec-------CCceEEEEehhhHHHHHHHHhhcC
Confidence            345578888876655542 3   44566788999988        4332       245799999999999999999886


Q ss_pred             ceecCceEEEEec
Q 016532           78 KDFHGNLIGVFIA   90 (388)
Q Consensus        78 ~~i~Gr~I~V~~a   90 (388)
                       ..-|..+...+-
T Consensus       148 -~~pgtm~qCsWq  159 (166)
T PF15023_consen  148 -RAPGTMFQCSWQ  159 (166)
T ss_pred             -CCCCceEEeecc
Confidence             355666776654

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=90.47  E-value=0.17  Score=51.93  Aligned_cols=78  Identities=15%  Similarity=0.189  Sum_probs=59.3

Q ss_pred             CCCCcEEEeccCCCCCC-HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            2 TMANGSVYVCNLPHGTD-EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~t-eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      ..++..|-|.-+|+... .++|...|.+||.|..        |.|-..      --.|.|+|.+..+|-.|+. .++..|
T Consensus       369 ~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n--------~qv~~~------~~~a~vTF~t~aeag~a~~-s~~avl  433 (526)
T KOG2135|consen  369 VVDHSPLALEKSPFGLNTIADLNPHFAQFGEIEN--------IQVDYS------SLHAVVTFKTRAEAGEAYA-SHGAVL  433 (526)
T ss_pred             hcccchhhhhccCCCCchHhhhhhhhhhcCcccc--------ccccCc------hhhheeeeeccccccchhc-ccccee
Confidence            34455565666665554 5789999999999987        434322      3469999999999977776 889999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      +++.|+|.+-.+..
T Consensus       434 nnr~iKl~whnps~  447 (526)
T KOG2135|consen  434 NNRFIKLFWHNPSP  447 (526)
T ss_pred             cCceeEEEEecCCc
Confidence            99999999987743

>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]

Probab=90.22  E-value=0.82  Score=46.83  Aligned_cols=70  Identities=16%  Similarity=0.187  Sum_probs=56.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +++.|+|-.+|..+|--||..|...|-....       .|+|++|..  ..+-.++|.|.+.++|...+..+||+.|..
T Consensus        73 ~~~mLcilaVP~~mt~~Dll~F~~~~~~~I~-------~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNGk~Fn~  142 (493)
T KOG0804|consen   73 SSTMLCILAVPAYMTSHDLLRFCASFIKQIS-------DIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNGKQFNS  142 (493)
T ss_pred             CCcEEEEEeccccccHHHHHHHHHHHhhhhh-------eeEEeecCC--CceEEEEEEeccchhHHHHHHHcCCCcCCC
Confidence            3678999999999999999999887644333       288999653  334468999999999999999999998874

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=89.25  E-value=1.1  Score=41.02  Aligned_cols=63  Identities=19%  Similarity=0.276  Sum_probs=43.7

Q ss_pred             CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC--CceecCceEEEEecccCC
Q 016532           18 DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN--NKDFHGNLIGVFIAESRG   94 (388)
Q Consensus        18 teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln--g~~i~Gr~I~V~~a~~~~   94 (388)
                      ....|+.+|..|+.+..        +.++.      +-.-..|.|.+.++|+.|...|+  +..|.+..|.|.++....
T Consensus         8 ~~~~l~~l~~~~~~~~~--------~~~L~------sFrRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~~~~   72 (184)
T PF04847_consen    8 NLAELEELFSTYDPPVQ--------FSPLK------SFRRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQPTP   72 (184)
T ss_dssp             -HHHHHHHHHTT-SS-E--------EEEET------TTTEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE----SS
T ss_pred             hHHHHHHHHHhcCCceE--------EEEcC------CCCEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEccccc
Confidence            35788999999998865        32222      23568999999999999999999  999999999999986543

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG3973 consensus Uncharacterized conserved glycine-rich protein [Function unknown]

Probab=89.23  E-value=3.6  Score=41.02  Aligned_cols=12  Identities=25%  Similarity=0.280  Sum_probs=6.0

Q ss_pred             CCCCCccccCCC
Q 016532          137 DAVGKTWQQDGD  148 (388)
Q Consensus       137 ~g~g~~~~r~gD  148 (388)
                      .+++++|.+++-
T Consensus       378 ~GGGggyqqp~~  389 (465)
T KOG3973|consen  378 RGGGGGYQQPQQ  389 (465)
T ss_pred             CCCCCCCcCchh
Confidence            344556665543

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=86.84  E-value=0.36  Score=47.25  Aligned_cols=82  Identities=20%  Similarity=0.196  Sum_probs=65.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..++||++|...+.+.++..+|..+|.+..+        .+........+++++.|.|...+.+..|+.......+.+..
T Consensus        88 ~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~--------~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~  159 (285)
T KOG4210|consen   88 SSTFFVGELSENIEESEDDNFSSEAGLRVDA--------RSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNK  159 (285)
T ss_pred             cccccccccccchhhccccccchhhcCcccc--------hhhhhccccccccceeeccccHHHHHHHHHhhhcccccccc
Confidence            5689999999999999899999999977763        35555566789999999999999999999866555666666


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      +...+.....
T Consensus       160 ~~~dl~~~~~  169 (285)
T KOG4210|consen  160 GEKDLNTRRG  169 (285)
T ss_pred             ccCccccccc
Confidence            6666655443

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=86.67  E-value=2.2  Score=41.72  Aligned_cols=73  Identities=21%  Similarity=0.259  Sum_probs=52.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc-
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN-   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr-   83 (388)
                      .+=|-|-++|+..+ ..|..+|++||.|..          .+.-    ..-.|-+|-|.+..+|++||. .||..|.+. 
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvk----------hv~~----~ngNwMhirYssr~~A~KALs-kng~ii~g~v  260 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVK----------HVTP----SNGNWMHIRYSSRTHAQKALS-KNGTIIDGDV  260 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhCeeee----------eecC----CCCceEEEEecchhHHHHhhh-hcCeeeccce
Confidence            34466667877654 456678999999976          3222    223589999999999999998 889988874 


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|-|.....+
T Consensus       261 miGVkpCtDk  270 (350)
T KOG4285|consen  261 MIGVKPCTDK  270 (350)
T ss_pred             EEeeeecCCH
Confidence            4556554433

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=86.04  E-value=0.27  Score=49.37  Aligned_cols=71  Identities=14%  Similarity=-0.067  Sum_probs=39.5

Q ss_pred             CcEEEeccCCCCCCH-HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            5 NGSVYVCNLPHGTDE-DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         5 ~~tlfV~nLp~~~te-edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ..++||..|...++. .++...|-..+.+..        |..+.+.  -.+--|||+.|.+...+..+|. .+|+++...
T Consensus        52 sRtcyVkf~d~~sv~vaQhLtntvfvdrali--------v~p~~~~--~~p~r~af~~l~~~navprll~-pdg~Lp~~~  120 (479)
T KOG4676|consen   52 SRTCYVKFLDSQSVTVAQHLTNTVFVDRALI--------VRPYGDE--VIPDRFAFVELADQNAVPRLLP-PDGVLPGDR  120 (479)
T ss_pred             eeeEEEeccCCcceeHHhhhccceeeeeeEE--------EEecCCC--CCccHHHHHhcCcccccccccC-CCCccCCCC
Confidence            468999999765543 333333333333322        2122222  2444578898888777776665 566655555


Q ss_pred             eEE
Q 016532           84 LIG   86 (388)
Q Consensus        84 ~I~   86 (388)
                      +|.
T Consensus       121 ~lt  123 (479)
T KOG4676|consen  121 PLT  123 (479)
T ss_pred             ccc
Confidence            553

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

Probab=85.45  E-value=1.2  Score=46.86  Aligned_cols=56  Identities=14%  Similarity=0.183  Sum_probs=41.3

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHh--cCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGT--IGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~--~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      ..|+|.-||..+-+++|+.+|..  +-.+.+        +.+-.+-      + =||+|++..+|++|++.|.
T Consensus       176 cIvilREIpettp~e~Vk~lf~~encPk~is--------cefa~N~------n-WyITfesd~DAQqAykylr  233 (684)
T KOG2591|consen  176 CIVILREIPETTPIEVVKALFKGENCPKVIS--------CEFAHND------N-WYITFESDTDAQQAYKYLR  233 (684)
T ss_pred             eEEEEeecCCCChHHHHHHHhccCCCCCcee--------eeeeecC------c-eEEEeecchhHHHHHHHHH
Confidence            47888999999999999999975  444443        2232221      2 3899999999999987653

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=85.31  E-value=10  Score=41.27  Aligned_cols=73  Identities=7%  Similarity=0.098  Sum_probs=51.2

Q ss_pred             EEec-cCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            8 VYVC-NLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         8 lfV~-nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +||. +-...++..+|..++..-+.|....   .=.|.|+.        .|.||+... ..|...+..|+...+.|+.|.
T Consensus       489 ~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~---ig~i~i~~--------~~s~v~~~~-~~~~~~~~~~~~~~~~~~~~~  556 (629)
T PRK11634        489 YRIEVGRDDGVEVRHIVGAIANEGDISSRY---IGNIKLFA--------SHSTIELPK-GMPGEVLQHFTRTRILNKPMN  556 (629)
T ss_pred             EEEecccccCCCHHHHHHHHHhhcCCChhh---CCcEEEeC--------CceEEEcCh-hhHHHHHHHhccccccCCceE
Confidence            4443 3347788889988888766665421   11244432        478999875 457888889999999999999


Q ss_pred             EEeccc
Q 016532           87 VFIAES   92 (388)
Q Consensus        87 V~~a~~   92 (388)
                      |+.+..
T Consensus       557 ~~~~~~  562 (629)
T PRK11634        557 MQLLGD  562 (629)
T ss_pred             EEECCC
Confidence            998853

>KOG0796 consensus Spliceosome subunit [RNA processing and modification]

Probab=83.91  E-value=0.63  Score=45.77  Aligned_cols=14  Identities=21%  Similarity=0.453  Sum_probs=8.8

Q ss_pred             cccccccccCCCCC
Q 016532          226 WAKRTKCNICNTNK  239 (388)
Q Consensus       226 ~~~~~~c~~c~~~~  239 (388)
                      -.+-.+|-+|++=.
T Consensus       183 ~qkl~VCeVCGa~L  196 (319)
T KOG0796|consen  183 QQKLRVCEVCGAFL  196 (319)
T ss_pred             hhhhhHHHhhhHHH
Confidence            34566777777644

>PRK14559 putative protein serine/threonine phosphatase; Provisional

Probab=82.96  E-value=1.1  Score=48.55  Aligned_cols=50  Identities=28%  Similarity=0.700  Sum_probs=42.0

Q ss_pred             CCCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCccccccc
Q 016532          150 MCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKR  229 (388)
Q Consensus       150 ~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~n~~~~  229 (388)
                      +|+  .|+..|-..-..|.+|+++-..                                   +    .|+.|+..|...-
T Consensus         3 ~Cp--~Cg~~n~~~akFC~~CG~~l~~-----------------------------------~----~Cp~CG~~~~~~~   41 (645)
T PRK14559          3 ICP--QCQFENPNNNRFCQKCGTSLTH-----------------------------------K----PCPQCGTEVPVDE   41 (645)
T ss_pred             cCC--CCCCcCCCCCccccccCCCCCC-----------------------------------C----cCCCCCCCCCccc
Confidence            688  8999998888899999876421                                   0    4999999999999


Q ss_pred             cccccCCCCCC
Q 016532          230 TKCNICNTNKP  240 (388)
Q Consensus       230 ~~c~~c~~~~~  240 (388)
                      ..|..|+++-.
T Consensus        42 ~fC~~CG~~~~   52 (645)
T PRK14559         42 AHCPNCGAETG   52 (645)
T ss_pred             ccccccCCccc
Confidence            99999999754

>PF12773 DZR: Double zinc ribbon

Probab=82.41  E-value=1.7  Score=30.63  Aligned_cols=48  Identities=29%  Similarity=0.554  Sum_probs=37.5

Q ss_pred             CCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCccCCCCCcccccccccccc
Q 016532          155 SCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPNDWSCPMCGNINWAKRTKCNI  234 (388)
Q Consensus       155 ~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~dw~c~~c~~~n~~~~~~c~~  234 (388)
                      .|+..+-..-..|..|+++-+.                                  .....+.|+.|+..|-.....|..
T Consensus         3 ~Cg~~~~~~~~fC~~CG~~l~~----------------------------------~~~~~~~C~~Cg~~~~~~~~fC~~   48 (50)
T PF12773_consen    3 HCGTPNPDDAKFCPHCGTPLPP----------------------------------PDQSKKICPNCGAENPPNAKFCPN   48 (50)
T ss_pred             CcCCcCCccccCChhhcCChhh----------------------------------ccCCCCCCcCCcCCCcCCcCccCc
Confidence            6888887777888888887651                                  123458999999999999999988


Q ss_pred             CC
Q 016532          235 CN  236 (388)
Q Consensus       235 c~  236 (388)
                      |+
T Consensus        49 CG   50 (50)
T PF12773_consen   49 CG   50 (50)
T ss_pred             cc
Confidence            85

>PF13248 zf-ribbon_3: zinc-ribbon domain

Probab=81.79  E-value=0.89  Score=27.91  Aligned_cols=23  Identities=26%  Similarity=0.556  Sum_probs=21.2

Q ss_pred             ccCCCCCccccccccccccCCCC
Q 016532          216 WSCPMCGNINWAKRTKCNICNTN  238 (388)
Q Consensus       216 w~c~~c~~~n~~~~~~c~~c~~~  238 (388)
                      +.|+.|+..|-+--..|..|+++
T Consensus         3 ~~Cp~Cg~~~~~~~~fC~~CG~~   25 (26)
T PF13248_consen    3 MFCPNCGAEIDPDAKFCPNCGAK   25 (26)
T ss_pred             CCCcccCCcCCcccccChhhCCC
Confidence            68999999999999999999986

>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center

Probab=81.15  E-value=0.94  Score=29.43  Aligned_cols=25  Identities=32%  Similarity=0.817  Sum_probs=18.6

Q ss_pred             ccCCCCCcccccc--ccccccCCCCCC
Q 016532          216 WSCPMCGNINWAK--RTKCNICNTNKP  240 (388)
Q Consensus       216 w~c~~c~~~n~~~--~~~c~~c~~~~~  240 (388)
                      |.|..|+++-...  -..|-.|++++.
T Consensus         2 ~~C~~CGy~y~~~~~~~~CP~Cg~~~~   28 (33)
T cd00350           2 YVCPVCGYIYDGEEAPWVCPVCGAPKD   28 (33)
T ss_pred             EECCCCCCEECCCcCCCcCcCCCCcHH
Confidence            8899999884333  558999988763

The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

>KOG4246 consensus Predicted DNA-binding protein, contains SAP domain [General function prediction only]

Probab=81.11  E-value=0.93  Score=49.56  Aligned_cols=7  Identities=0%  Similarity=0.045  Sum_probs=2.9

Q ss_pred             EEEEEeC
Q 016532           57 DATVTYE   63 (388)
Q Consensus        57 ~aFVeF~   63 (388)
                      |+.+...
T Consensus        61 y~~t~~~   67 (1194)
T KOG4246|consen   61 YGSTSLS   67 (1194)
T ss_pred             ccccchh
Confidence            4444443

>PF13240 zinc_ribbon_2: zinc-ribbon domain

Probab=80.87  E-value=0.93  Score=27.13  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=20.0

Q ss_pred             cCCCCCccccccccccccCCCC
Q 016532          217 SCPMCGNINWAKRTKCNICNTN  238 (388)
Q Consensus       217 ~c~~c~~~n~~~~~~c~~c~~~  238 (388)
                      .|+.|++.+-+-...|..|+++
T Consensus         1 ~Cp~CG~~~~~~~~fC~~CG~~   22 (23)
T PF13240_consen    1 YCPNCGAEIEDDAKFCPNCGTP   22 (23)
T ss_pred             CCcccCCCCCCcCcchhhhCCc
Confidence            4899999999999999999986

>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase

Probab=80.01  E-value=1.1  Score=29.40  Aligned_cols=26  Identities=42%  Similarity=1.022  Sum_probs=20.1

Q ss_pred             CccCCCCCccccc--cccccccCCCCCC
Q 016532          215 DWSCPMCGNINWA--KRTKCNICNTNKP  240 (388)
Q Consensus       215 dw~c~~c~~~n~~--~~~~c~~c~~~~~  240 (388)
                      -|.|..||++--.  .-..|-.|++++.
T Consensus         2 ~~~C~~CG~i~~g~~~p~~CP~Cg~~~~   29 (34)
T cd00729           2 VWVCPVCGYIHEGEEAPEKCPICGAPKE   29 (34)
T ss_pred             eEECCCCCCEeECCcCCCcCcCCCCchH
Confidence            4999999999433  2469999999753

In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	388
2cpe_A	113	Solution Structure Of The Rna Recognition Motif Of		4e-18
2la6_A	99	Solution Nmr Structure Of Rrm Domain Of Rna-Binding		1e-15
2lcw_A	116	Solution Structure Of FusTLS RRM DOMAIN Length = 11		3e-15
3g9y_A	33	Crystal Structure Of The Second Zinc Finger From Zr		3e-04
1n0z_A	45	Solution Structure Of The First Zinc-Finger Domain		8e-04

>pdb|2CPE|A Chain A, Solution Structure Of The Rna Recognition Motif Of Ewing Sarcoma(Ews) Protein Length = 113

Iteration: 1
 Score = 89.0 bits (219), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 42/89 (47%), Positives = 59/89 (66%)
Query: 5   NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           N ++YV  L      D LA++F   G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct: 15  NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 74
Query: 65  PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
           P  A AAVEWF+ KDF G+ + V +A  +
Sbjct: 75  PPTAKAAVEWFDGKDFQGSKLKVSLARKK 103

>pdb|2LA6|A Chain A, Solution Nmr Structure Of Rrm Domain Of Rna-Binding Protein Fus From Homo Sapiens, Northeast Structural Genomics Consortium Target Hr6430a Length = 99

Iteration: 1
 Score = 80.9 bits (198), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 36/86 (41%), Positives = 59/86 (68%)
Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 13 NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 72
Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIA 90
          P +A AA++WF+ K+F GN I V  A
Sbjct: 73 PPSAKAAIDWFDGKEFSGNPIKVSFA 98

>pdb|2LCW|A Chain A, Solution Structure Of FusTLS RRM DOMAIN Length = 116

Iteration: 1
 Score = 79.3 bits (194), Expect = 3e-15,   Method: Composition-based stats.
 Identities = 37/90 (41%), Positives = 60/90 (66%)
Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N +++V  L      + +A+YF  IG++K +K+TG+P + LY D+ T + KG+ATV+++D
Sbjct: 7  NNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDD 66
Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRG 94
          P +A AA++WF+ K+F GN I V  A  R 
Sbjct: 67 PPSAKAAIDWFDGKEFSGNPIKVSFATRRA 96

>pdb|3G9Y|A Chain A, Crystal Structure Of The Second Zinc Finger From Zranb2ZNF265 BOUND To 6 Nt Ssrna Sequence Agguaa Length = 33

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 16/26 (61%), Positives = 21/26 (80%)
Query: 214 NDWSCPMCGNINWAKRTKCNICNTNK 239
           NDW C  C N+NWA+R++CN+CNT K
Sbjct: 5   NDWQCKTCSNVNWARRSECNMCNTPK 30

>pdb|1N0Z|A Chain A, Solution Structure Of The First Zinc-Finger Domain From Znf265 Length = 45

Iteration: 1
 Score = 41.6 bits (96), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 16/26 (61%), Positives = 19/26 (73%)
Query: 145 QDGDWMCPNTSCSNVNFAFRGVCNRC 170
            DGDW+CP+  C NVNFA R  C+RC
Sbjct: 11  SDGDWICPDKKCGNVNFARRTSCDRC 36

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	388
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.91
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.81
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.79
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.78
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.78
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.78
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.77
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.77
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.76
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.76
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.76
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.76
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.76
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.76
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.76
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.76
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.75
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.75
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.75
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.75
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.75
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.75
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.75
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.74
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.74
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.74
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.74
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.74
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.74
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.74
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.74
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.74
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.73
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.73
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.73
2div_A	99	TRNA selenocysteine associated protein; structural	99.73
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.73
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.73
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.73
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.73
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.73
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.73
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.73
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.73
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.72
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.72
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.72
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.72
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.72
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.72
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.72
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.71
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.71
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.71
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.71
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.71
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.7
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.7
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.7
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.7
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.7
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.7
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.7
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.7
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.69
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.53
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.69
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.69
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.69
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.69
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.69
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.69
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.69
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.69
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.68
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.68
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.68
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.68
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.68
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.68
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.68
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.68
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.68
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.68
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.68
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.68
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.67
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.67
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.67
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.67
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.67
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.66
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.66
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.66
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.66
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.65
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.65
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.65
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.65
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.65
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.65
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.65
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.65
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.65
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.64
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.64
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.64
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.64
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.64
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.64
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.63
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.63
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.63
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.63
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.63
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.63
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.63
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.63
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.63
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.62
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.62
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.62
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.62
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.62
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.62
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.62
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.61
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.61
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.61
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.61
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.61
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.61
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.61
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.6
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.6
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.6
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.6
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.6
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.6
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.6
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.6
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.6
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.59
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.59
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.58
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.58
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.58
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.57
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.57
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.57
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.57
1x5p_A	97	Negative elongation factor E; structure genomics,	99.57
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.57
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.56
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.56
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.55
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.55
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.55
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.55
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.53
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.53
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.53
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.53
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.52
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.52
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.52
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.52
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.52
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.51
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.51
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.51
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.5
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.5
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.5
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.49
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.49
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.48
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.48
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.48
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.44
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.44
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.42
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.42
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.41
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.4
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.4
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.39
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.39
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.39
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.38
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.37
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.35
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.35
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.34
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.33
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.33
3gj8_B	92	Nuclear pore complex protein NUP153; G protein, GD	99.32
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.32
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.3
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.3
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.29
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.28
2k1p_A	33	Zinc finger RAN-binding domain-containing protein	99.22
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.22
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.21
1n0z_A	45	ZNF265; zinc finger, RNA splicing, transcription;	99.1
2lk0_A	32	RNA-binding protein 5; zinc finger; NMR {Homo sapi	99.08
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.07
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.97
1n0z_A	45	ZNF265; zinc finger, RNA splicing, transcription;	98.91
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.87
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.76
2k1p_A	33	Zinc finger RAN-binding domain-containing protein	98.75
2lk0_A	32	RNA-binding protein 5; zinc finger; NMR {Homo sapi	98.68
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.58
3gj8_B	92	Nuclear pore complex protein NUP153; G protein, GD	98.46
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.04
3gj3_B	33	Nuclear pore complex protein NUP153; G protein, GD	97.8
3gj5_B	34	Nuclear pore complex protein NUP153; G protein, GD	97.73
3gj7_B	98	Nuclear pore complex protein NUP153; G protein, GD	97.58
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	97.42
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.2
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.15
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.09
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.06
2ebr_A	47	Nuclear pore complex protein NUP153; ZF-ranbp doma	96.99
2ebq_A	47	Nuclear pore complex protein NUP153; ZF-ranbp doma	96.92
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	96.78
2d9g_A	53	YY1-associated factor 2; ZF-ranbp domain, structur	96.77
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	96.28
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	96.25
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.21
3a9j_C	34	Mitogen-activated protein kinase kinase kinase 7-	95.86
2ebv_A	57	Nuclear pore complex protein NUP153; ZF-ranbp doma	95.86
1nj3_A	31	NPL4; NZF domain, rubredoxin knuckle, beta-ribbon,	95.82
2crc_A	52	Ubiquitin conjugating enzyme 7 interacting protein	95.38
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	95.02
3gj7_B	98	Nuclear pore complex protein NUP153; G protein, GD	94.96
2c6a_A	46	Ubiquitin-protein ligase E3 MDM2; zinc finger, hum	94.8
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	94.5
2ebr_A	47	Nuclear pore complex protein NUP153; ZF-ranbp doma	94.04
2ebq_A	47	Nuclear pore complex protein NUP153; ZF-ranbp doma	93.73
3b08_B	64	Ranbp-type and C3HC4-type zinc finger-containing;	93.7
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	92.94
3gj5_B	34	Nuclear pore complex protein NUP153; G protein, GD	92.83
3gj3_B	33	Nuclear pore complex protein NUP153; G protein, GD	92.75
2d9g_A	53	YY1-associated factor 2; ZF-ranbp domain, structur	91.81
1w7p_D	566	VPS36P, YLR417W; ESCRT-II complex, endosomal prote	87.07
3a9j_C	34	Mitogen-activated protein kinase kinase kinase 7-	84.89
1nj3_A	31	NPL4; NZF domain, rubredoxin knuckle, beta-ribbon,	84.43
2crc_A	52	Ubiquitin conjugating enzyme 7 interacting protein	84.14
2ebv_A	57	Nuclear pore complex protein NUP153; ZF-ranbp doma	83.94
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	83.84
3b08_B	64	Ranbp-type and C3HC4-type zinc finger-containing;	82.2
2cr8_A	53	MDM4 protein; ZF-ranbp domain, P53-binding protein	81.24

>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=99.91  E-value=5.3e-24  Score=216.81  Aligned_cols=84  Identities=21%  Similarity=0.300  Sum_probs=79.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +.++|||+|||+.||+++|..+|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.|+
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr  172 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKR--------IHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGR  172 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeE--------EEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCE
Confidence            4579999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus       173 ~i~V~~a~~~~~  184 (437)
T 3pgw_S          173 RVLVDVERGRTV  184 (437)
T ss_pred             EEEEEEeCCCCC
Confidence            999999987654

>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=99.81  E-value=1.1e-19  Score=147.96  Aligned_cols=82  Identities=26%  Similarity=0.329  Sum_probs=78.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.++|||+|||+++|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+.||+..|.|
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g   88 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVES--------AKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQS   88 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------eEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.+|+|
T Consensus        89 r~l~V~~AkP   98 (99)
T 4fxv_A           89 KTIKVSYARP   98 (99)
T ss_dssp             EECEEEECCB
T ss_pred             EEEEEEEeeC
Confidence            9999999975

>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=99.79  E-value=6.6e-19  Score=154.10  Aligned_cols=85  Identities=24%  Similarity=0.251  Sum_probs=80.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|.+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  108 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKK--------IIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDD  108 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            36789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.+...
T Consensus       109 ~~l~V~~a~~~~~  121 (156)
T 1h2v_Z          109 RIIRTDWDAGFKE  121 (156)
T ss_dssp             EECEEEEESCCCT
T ss_pred             eEEEEEECCCCCC
Confidence            9999999987554

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

Probab=99.78  E-value=1.9e-19  Score=144.12  Aligned_cols=85  Identities=20%  Similarity=0.280  Sum_probs=77.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC-CceecC
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN-NKDFHG   82 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln-g~~i~G   82 (388)
                      +++|||+|||+++|+++|+++|++|| .|..        |+|++++.|+.++|||||+|.+.++|++||+.|+ +..|.|
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~--------v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~g   72 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQARE--------VRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILG   72 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSB--------CCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEE--------EEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECC
Confidence            57999999999999999999999999 7877        7799999999999999999999999999999774 567999


Q ss_pred             ceEEEEecccCCCCC
Q 016532           83 NLIGVFIAESRGKDD   97 (388)
Q Consensus        83 r~I~V~~a~~~~~~~   97 (388)
                      +.|.|++|.++++..
T Consensus        73 r~i~V~~a~~~~~~~   87 (91)
T 2lxi_A           73 QKVSMHYSDPKPKIN   87 (91)
T ss_dssp             EEEEEECCCSCCCCS
T ss_pred             EEEEEEEcCCCCCCC
Confidence            999999999876543

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

Probab=99.78  E-value=1.2e-18  Score=144.66  Aligned_cols=84  Identities=18%  Similarity=0.189  Sum_probs=79.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+.||+..|.|
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~--------v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~g   75 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEE--------VEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMG   75 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeE--------EEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            57789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.+|....
T Consensus        76 r~i~V~~a~~~~   87 (110)
T 3s8s_A           76 NIIHAQLDIKGQ   87 (110)
T ss_dssp             EECEEEECSTTH
T ss_pred             eEEEEEECCCCc
Confidence            999999997543

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

Probab=99.78  E-value=1.5e-18  Score=143.52  Aligned_cols=93  Identities=45%  Similarity=0.751  Sum_probs=86.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|.++..++.|.|.|+.++.|+.+++||||+|.+.++|++||..||+..|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   92 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccCC
Confidence            36789999999999999999999999999997767777889999999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        93 ~~l~V~~a~~~~~  105 (113)
T 2cpe_A           93 SKLKVSLARKKPP  105 (113)
T ss_dssp             EECEEECSSCCCC
T ss_pred             CEEEEEECCCCCC
Confidence            9999999988654

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

Probab=99.77  E-value=1.8e-18  Score=140.22  Aligned_cols=88  Identities=27%  Similarity=0.384  Sum_probs=82.5

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |..++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.++.+++||||+|.+.++|++||+.||+..|
T Consensus         8 ~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~   79 (102)
T 1x5s_A            8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISE--------VVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSV   79 (102)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCE--------EEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCT
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEE
Confidence            4567899999999999999999999999999988        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .++.|.|.++.++...
T Consensus        80 ~g~~l~v~~a~~~~~~   95 (102)
T 1x5s_A           80 DGRQIRVDQAGKSSDN   95 (102)
T ss_dssp             TSCCCEEEEEECCCCC
T ss_pred             CCeEEEEEECCCCCCC
Confidence            9999999999887653

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

Probab=99.77  E-value=6.3e-19  Score=142.74  Aligned_cols=82  Identities=22%  Similarity=0.265  Sum_probs=75.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc----ee
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK----DF   80 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~----~i   80 (388)
                      =+||||+|||+.+|+++|+++|++||.|....      |+|++|+.|+.++|||||+|.+.++|++||+.||+.    .|
T Consensus         9 m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~------v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i   82 (95)
T 2lkz_A            9 MDTIILRNIAPHTVVDSIMTALSPYASLAVNN------IRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKI   82 (95)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHSTTTCCCCGGG------EECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEE
T ss_pred             cCEEEEeCCCCcCCHHHHHHHHHhhCCccEEE------EEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceE
Confidence            36899999999999999999999999765433      889999999999999999999999999999999986    58


Q ss_pred             cCceEEEEeccc
Q 016532           81 HGNLIGVFIAES   92 (388)
Q Consensus        81 ~Gr~I~V~~a~~   92 (388)
                      +|+.|.|++|++
T Consensus        83 ~Gr~i~V~~Aks   94 (95)
T 2lkz_A           83 DGKTIGVDFAKS   94 (95)
T ss_dssp             TTEEEEEEECCC
T ss_pred             CCEEEEEEEccC
Confidence            999999999975

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

Probab=99.76  E-value=1.9e-18  Score=140.16  Aligned_cols=89  Identities=25%  Similarity=0.333  Sum_probs=82.8

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |..+..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|
T Consensus         8 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~   79 (102)
T 2cqb_A            8 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITD--------IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESEL   79 (102)
T ss_dssp             SCCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCC--------EECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            4567889999999999999999999999999988        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCCCCC
Q 016532           81 HGNLIGVFIAESRGKDD   97 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~~   97 (388)
                      .++.|.|.++.++....
T Consensus        80 ~g~~l~V~~a~~~~~~~   96 (102)
T 2cqb_A           80 FGRTIRVNLAKPMRIKE   96 (102)
T ss_dssp             TTEEEEEEECCCCCCCC
T ss_pred             CCcEEEEEeCCCCCCCC
Confidence            99999999998876543

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

Probab=99.76  E-value=2.7e-18  Score=137.57  Aligned_cols=85  Identities=25%  Similarity=0.341  Sum_probs=80.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeE-EEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKV-WLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V-~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        | .|+.++.++.+++||||+|.+.++|++||..||+..|.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~   74 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQ--------TPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLC   74 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSS--------CCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            57889999999999999999999999999987        6 79999899999999999999999999999999999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      |+.|.|.++.++..
T Consensus        75 g~~l~v~~a~~~~~   88 (96)
T 1x5t_A           75 NRPITVSYAFKKDS   88 (96)
T ss_dssp             TEECEEEESCCCCC
T ss_pred             CEEEEEEEecccCC
Confidence            99999999988764

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

Probab=99.76  E-value=3.9e-18  Score=136.34  Aligned_cols=85  Identities=27%  Similarity=0.377  Sum_probs=80.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.|
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDN--------IVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAG   74 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeE--------EEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            57889999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        75 ~~l~V~~a~~~~~   87 (95)
T 2dnz_A           75 RPMRVGHVTERLD   87 (95)
T ss_dssp             SCCEEEESSCCCC
T ss_pred             cEEEEEEcccccC
Confidence            9999999988654

>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=99.76  E-value=3e-18  Score=134.63  Aligned_cols=83  Identities=19%  Similarity=0.230  Sum_probs=76.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|.|
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   75 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISD--------ARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGG   75 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcCCEeE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            46789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.|.+|.++
T Consensus        76 ~~l~v~~a~~k   86 (87)
T 3bs9_A           76 RQIRTNWATRK   86 (87)
T ss_dssp             EECEEEEEC--
T ss_pred             eEEEEEecCCC
Confidence            99999999875

>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=99.76  E-value=5.2e-18  Score=136.80  Aligned_cols=86  Identities=26%  Similarity=0.351  Sum_probs=81.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.++.+++||||+|.+.++|++||..||+..|.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   77 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSE--------LHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQG   77 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeE--------EEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999988        8899999899999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        78 ~~l~V~~a~~~~~~   91 (99)
T 1whw_A           78 RMLHVLPSTIKKEA   91 (99)
T ss_dssp             CEEEEEECCCCSTT
T ss_pred             cEEEEEEcCCCccc
Confidence            99999999887653

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

Probab=99.76  E-value=1.1e-17  Score=138.78  Aligned_cols=86  Identities=17%  Similarity=0.207  Sum_probs=81.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+.++.++.+++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   84 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPFGRISD--------ARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGG   84 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        85 ~~l~V~~a~~~~~~   98 (115)
T 2dgo_A           85 RQIRTNWATRKPPA   98 (115)
T ss_dssp             EECEEEESSCCCCC
T ss_pred             EEEEEEEccCCCCC
Confidence            99999999887654

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.76  E-value=4.8e-18  Score=132.31  Aligned_cols=82  Identities=17%  Similarity=0.232  Sum_probs=78.2

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      +.+|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|.|+.
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~   72 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLS--------GHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRP   72 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEE--------EEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEE
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcE
Confidence            468999999999999999999999999998        889999999999999999999999999999999999999999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      |.|.++.+++
T Consensus        73 l~v~~a~~~~   82 (83)
T 3md1_A           73 LRINWAAKLE   82 (83)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEecCcCC
Confidence            9999998764

>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=99.76  E-value=3.5e-18  Score=133.70  Aligned_cols=83  Identities=27%  Similarity=0.362  Sum_probs=78.7

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |..++.+|||+|||+.+++++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|
T Consensus         3 ~~~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~   74 (85)
T 3mdf_A            3 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITD--------IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESEL   74 (85)
T ss_dssp             CCCCSSEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHhccCCEEE--------EEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEE
Confidence            4567899999999999999999999999999998        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecc
Q 016532           81 HGNLIGVFIAE   91 (388)
Q Consensus        81 ~Gr~I~V~~a~   91 (388)
                      .|+.|.|++|+
T Consensus        75 ~g~~l~v~~ak   85 (85)
T 3mdf_A           75 FGRTIRVNLAK   85 (85)
T ss_dssp             TTEECEEEECC
T ss_pred             CCcEEEEEEcC
Confidence            99999999984

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

Probab=99.75  E-value=7.3e-18  Score=140.08  Aligned_cols=84  Identities=26%  Similarity=0.277  Sum_probs=78.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++ .|.+
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g   85 (116)
T 2cqd_A           15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDIEE--------AVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDG   85 (116)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTTSCEEE--------EEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCC
Confidence            46789999999999999999999999999998        88999999999999999999999999999999998 8999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus        86 ~~l~V~~a~~~~~   98 (116)
T 2cqd_A           86 RKANVNLAYLGAK   98 (116)
T ss_dssp             EECEEEESTTTCC
T ss_pred             EEEEEEEcccCCC
Confidence            9999999987654

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

Probab=99.75  E-value=4.3e-18  Score=138.40  Aligned_cols=86  Identities=26%  Similarity=0.355  Sum_probs=81.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   84 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPFGSISR--------IYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDH   84 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEE--------EEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEE--------EEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            45789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        85 ~~l~v~~a~~~~~~   98 (103)
T 2cq0_A           85 LILNVEWAKPSTNS   98 (103)
T ss_dssp             EECEEEESSCCCCS
T ss_pred             cEEEEEECCCCCCC
Confidence            99999999887653

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

Probab=99.75  E-value=7.5e-18  Score=135.99  Aligned_cols=85  Identities=27%  Similarity=0.443  Sum_probs=80.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||. |++..|.|
T Consensus         8 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~-~~~~~~~g   78 (99)
T 2dgs_A            8 SKSNKIFVGGIPHNCGETELREYFKKFGVVTE--------VVMIYDAEKQRPRGFGFITFEDEQSVDQAVN-MHFHDIMG   78 (99)
T ss_dssp             SSCCEEEEESCCSSCCHHHHHHHHSSSSCEEE--------EEECCCTTTCSCCSEEEEEESSHHHHHHHHH-HCCCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCCCCCCCCceEEEEECCHHHHHHHHH-hCCCEECC
Confidence            46789999999999999999999999999998        8899999999999999999999999999999 99999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        79 ~~l~V~~a~~~~~~   92 (99)
T 2dgs_A           79 KKVEVKRAEPRDSK   92 (99)
T ss_dssp             CBCEEEECCCCCCC
T ss_pred             eEEEEEECCCCccc
Confidence            99999999987653

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

Probab=99.75  E-value=4.7e-18  Score=137.34  Aligned_cols=89  Identities=40%  Similarity=0.777  Sum_probs=83.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..+..++.|.|.|+.++.|+.++|||||+|.+.++|++||+.||+..|.|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~g   90 (99)
T 2la6_A           11 SDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG   90 (99)
T ss_dssp             CCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            46789999999999999999999999999988666677778999999999999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|.+|+
T Consensus        91 ~~l~V~~A~   99 (99)
T 2la6_A           91 NPIKVSFAT   99 (99)
T ss_dssp             SBCEEEECC
T ss_pred             cEEEEEecC
Confidence            999999974

>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=99.75  E-value=7.7e-18  Score=139.76  Aligned_cols=86  Identities=22%  Similarity=0.323  Sum_probs=80.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.++
T Consensus        24 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   95 (115)
T 2cpz_A           24 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVS--------AKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMK   95 (115)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSE--------EEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            5689999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCCCC
Q 016532           84 LIGVFIAESRGKDD   97 (388)
Q Consensus        84 ~I~V~~a~~~~~~~   97 (388)
                      .|.|.++.++....
T Consensus        96 ~l~V~~a~~~~~~~  109 (115)
T 2cpz_A           96 RLKVQLKRSKNDSK  109 (115)
T ss_dssp             ECEEECCCCSCCCC
T ss_pred             EEEEEEcCCCCcCC
Confidence            99999998876533

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

Probab=99.75  E-value=6.6e-18  Score=135.93  Aligned_cols=86  Identities=23%  Similarity=0.342  Sum_probs=79.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCC---CCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT---TNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~---Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.   |+.+++||||+|.+.++|++||..|++..
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~   74 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKS--------CTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHT   74 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCe
Confidence            57789999999999999999999999999988        78888876   77999999999999999999999999999


Q ss_pred             ecCceEEEEecccCCCC
Q 016532           80 FHGNLIGVFIAESRGKD   96 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~~~   96 (388)
                      |.|+.|.|.++.++...
T Consensus        75 ~~g~~l~V~~a~~~~~~   91 (98)
T 2cpf_A           75 VDGHKLEVRISERATKP   91 (98)
T ss_dssp             ETTEECEEECSSCSSCC
T ss_pred             eCCeEEEEEEccCCCCC
Confidence            99999999999886653

>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=99.75  E-value=7.2e-19  Score=164.23  Aligned_cols=82  Identities=17%  Similarity=0.266  Sum_probs=76.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcC--ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIG--LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G--~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..++|||+|||+.||+++|+++|++||  .|..        |+|+.++.|++++|||||+|.+.++|++||+.||+..|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~--------v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~  138 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILE--------IKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELH  138 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEE--------EEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBT
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeEC
Confidence            457899999999999999999999999  8887        889999999999999999999999999999999999999


Q ss_pred             CceEEEEecccC
Q 016532           82 GNLIGVFIAESR   93 (388)
Q Consensus        82 Gr~I~V~~a~~~   93 (388)
                      |+.|.|.+|.+.
T Consensus       139 Gr~l~V~~a~~~  150 (229)
T 3q2s_C          139 GQNPVVTPVNKQ  150 (229)
T ss_dssp             TBCCEEEECCHH
T ss_pred             CEEeEEEECCCC
Confidence            999999998754

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

Probab=99.74  E-value=5.1e-18  Score=137.96  Aligned_cols=85  Identities=24%  Similarity=0.260  Sum_probs=80.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   82 (103)
T 2dnm_A           11 DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGD--------VYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDG   82 (103)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTT
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus        83 ~~l~V~~a~~~~~   95 (103)
T 2dnm_A           83 RELRVQVARYGRR   95 (103)
T ss_dssp             BCCEEEECSSCCS
T ss_pred             cEEEEEECCcCCC
Confidence            9999999987654

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

Probab=99.74  E-value=1.5e-17  Score=142.34  Aligned_cols=84  Identities=21%  Similarity=0.279  Sum_probs=79.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.|+
T Consensus        41 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~  112 (139)
T 1u6f_A           41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIES--------VKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNK  112 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEE--------EEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            4579999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus       113 ~l~v~~a~~~~~  124 (139)
T 1u6f_A          113 RLKVALAASGHQ  124 (139)
T ss_dssp             EEEEEESSCCCC
T ss_pred             EEEEEECCCCCC
Confidence            999999988654

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.74  E-value=5.7e-18  Score=142.67  Aligned_cols=85  Identities=28%  Similarity=0.361  Sum_probs=80.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||+.||+..|.|
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   91 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKN--------IHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMG   91 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            45679999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.++..
T Consensus        92 ~~l~v~~a~~~~~  104 (126)
T 3ex7_B           92 QPISVDWCFVRGP  104 (126)
T ss_dssp             SBCEEEESEESSS
T ss_pred             eEEEEEEecCCCC
Confidence            9999999988755

>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=99.74  E-value=8.6e-18  Score=135.02  Aligned_cols=84  Identities=17%  Similarity=0.269  Sum_probs=79.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++++|||+|||..+++++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|+
T Consensus         1 P~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   72 (96)
T 2x1f_A            1 PSRVVYLGSIPYDQTEEQILDLCSNVGPVIN--------LKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSR   72 (96)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhcCCEEE--------EEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            5789999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.+|.++..
T Consensus        73 ~l~V~~a~~~~~   84 (96)
T 2x1f_A           73 FLKCGYSSNSDI   84 (96)
T ss_dssp             ECEEEECSCSSG
T ss_pred             EEEEEEcCCCCC
Confidence            999999988654

>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=99.74  E-value=9.8e-18  Score=136.60  Aligned_cols=86  Identities=23%  Similarity=0.283  Sum_probs=80.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   84 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVN--------THMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYG   84 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            45789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        85 ~~l~v~~a~~~~~~   98 (105)
T 1x5u_A           85 KPIRVNKASAHNKN   98 (105)
T ss_dssp             CBCEEEETTTTSCC
T ss_pred             eEEEEEECCCCCcC
Confidence            99999999887653

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

Probab=99.74  E-value=1e-17  Score=136.69  Aligned_cols=85  Identities=28%  Similarity=0.361  Sum_probs=80.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   92 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKN--------IHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMG   92 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEE--------EEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECC
Confidence            35678999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.++..
T Consensus        93 ~~l~V~~a~~~~~  105 (106)
T 1p27_B           93 QPISVDWCFVRGP  105 (106)
T ss_dssp             SBCEEEESEESSC
T ss_pred             cEEEEEeecCCCC
Confidence            9999999988653

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

Probab=99.74  E-value=1.4e-17  Score=134.59  Aligned_cols=84  Identities=25%  Similarity=0.358  Sum_probs=79.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++ ++.+++||||+|.+.++|++||..|++..|.|
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   85 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAHGTVKD--------LRLVTNR-AGKPKGLAYVEYENESQASQAVMKMDGMTIKE   85 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTEESSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEE--------EEEEECC-CCCEEeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45789999999999999999999999999988        8899998 89999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        86 ~~l~v~~a~~~~~   98 (100)
T 2do4_A           86 NIIKVAISNSGPS   98 (100)
T ss_dssp             CEEEEEECCCCSC
T ss_pred             EEEEEEECCCCCC
Confidence            9999999988654

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

Probab=99.74  E-value=1.1e-17  Score=133.58  Aligned_cols=82  Identities=28%  Similarity=0.239  Sum_probs=77.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.|
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   84 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKYGPIAD--------VSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG   84 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEE--------EEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeeE--------EEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45679999999999999999999999999988        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.+|++
T Consensus        85 ~~l~v~~a~~   94 (95)
T 2cqc_A           85 RRIRVSGPSS   94 (95)
T ss_dssp             EEEEEECCSC
T ss_pred             EEEEEEecCC
Confidence            9999999865

>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=99.74  E-value=1.4e-17  Score=136.81  Aligned_cols=86  Identities=23%  Similarity=0.289  Sum_probs=80.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC------
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN------   76 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln------   76 (388)
                      .+..+|||+|||+.+|+++|+++|.+||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|+      
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~   84 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKY--------VRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGG   84 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccC
Confidence            35789999999999999999999999999988        8899999999999999999999999999999999      


Q ss_pred             CceecCceEEEEecccCCCC
Q 016532           77 NKDFHGNLIGVFIAESRGKD   96 (388)
Q Consensus        77 g~~i~Gr~I~V~~a~~~~~~   96 (388)
                      +..|.|+.|.|.++.++...
T Consensus        85 ~~~~~g~~l~v~~a~~~~~~  104 (111)
T 1x4h_A           85 GLKLDGRQLKVDLAVTRDEA  104 (111)
T ss_dssp             CEESSSCEEEEECCCCCCCC
T ss_pred             CcEEcCEEEEEEECCCCccC
Confidence            99999999999999887553

>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=99.73  E-value=2.6e-18  Score=136.71  Aligned_cols=82  Identities=17%  Similarity=0.255  Sum_probs=71.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcC--ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIG--LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G--~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+|||+|||+.+|+++|+++|++||  .|..        |.|+.++.|+.++|||||+|.+.++|++||+.||+..|.|+
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~--------v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr   73 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILE--------IKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQ   73 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCC--------EEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEE--------EEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCE
Confidence            4799999999999999999999999  7776        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.+...
T Consensus        74 ~i~V~~~~~~~~   85 (90)
T 3p5t_L           74 NPVVTPSNKLEH   85 (90)
T ss_dssp             CCEECCC-----
T ss_pred             EEEEEECCCCcc
Confidence            999999988654

>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=99.73  E-value=1.3e-17  Score=136.05  Aligned_cols=85  Identities=24%  Similarity=0.302  Sum_probs=79.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee--
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF--   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i--   80 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..|++..|  
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~   82 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYE--------LTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLP   82 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHHSCCCE--------EECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccC
Confidence            46789999999999999999999999999988        88999999999999999999999999999999999987  


Q ss_pred             -cCceEEEEecccCCC
Q 016532           81 -HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 -~Gr~I~V~~a~~~~~   95 (388)
                       .++.|.|.++.++..
T Consensus        83 ~~g~~l~v~~a~~~~~   98 (106)
T 2dgp_A           83 GMNRPIQVKPADSESR   98 (106)
T ss_dssp             TCSSCCEEEECCCCSC
T ss_pred             CCCceEEEEECCcccc
Confidence             889999999988654

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

Probab=99.73  E-value=1.7e-17  Score=135.55  Aligned_cols=86  Identities=22%  Similarity=0.268  Sum_probs=80.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEec-CCCCCcccEEEEEeCCHHHHHHHHHHh-CCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRD-KTTNEYKGDATVTYEDPHAALAAVEWF-NNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~d-k~Tg~srG~aFVeF~s~e~A~~Ai~~l-ng~~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+ +.++.+++||||+|.+.++|++||..| |+..|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~   84 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTFGELKT--------VRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHL   84 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBS
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHccCCeEE--------EEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeE
Confidence            46789999999999999999999999999998        788888 789999999999999999999999999 99999


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .|+.|.|.++.++...
T Consensus        85 ~g~~l~v~~a~~~~~~  100 (107)
T 2cph_A           85 YGRRLVLEWADSEVTV  100 (107)
T ss_dssp             SSCBCEEEECCCCCCC
T ss_pred             CCCEEEEEeCCCCCCC
Confidence            9999999999887653

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

Probab=99.73  E-value=1.5e-17  Score=134.14  Aligned_cols=84  Identities=23%  Similarity=0.270  Sum_probs=79.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCcee-ecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLK-KDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~-~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|. .        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   78 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMS--------VKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLP   78 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCE--------EEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEES
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceE--------EEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccC
Confidence            4678999999999999999999999999998 7        889999999999999999999999999999999999999


Q ss_pred             Cce----EEEEecccCC
Q 016532           82 GNL----IGVFIAESRG   94 (388)
Q Consensus        82 Gr~----I~V~~a~~~~   94 (388)
                      ++.    |.|.+|.+..
T Consensus        79 g~~~~~~l~v~~a~~~~   95 (99)
T 2div_A           79 GATPAKRFKLNYATYSG   95 (99)
T ss_dssp             SCSSCEECCEEETTCCS
T ss_pred             CCCcceeEEEeecCCCC
Confidence            999    9999997753

>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=99.73  E-value=2.8e-17  Score=137.26  Aligned_cols=84  Identities=32%  Similarity=0.470  Sum_probs=79.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++ |+.+++||||+|.+.++|++||..|++..|.|
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~-~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g   75 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISE--------VLLIKDR-TSKSRGFAFITFENPADAKNAAKDMNGKSLHG   75 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSE--------EEEECST-TTTCCCEEEEECSSHHHHHHHHHHCSSCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999988        8899998 89999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+++++..
T Consensus        76 ~~l~V~~a~~~~~   88 (116)
T 2fy1_A           76 KAIKVEQAKKPSF   88 (116)
T ss_dssp             SBCEEEECCCSSC
T ss_pred             EEEEEEECCCCCC
Confidence            9999999987654

>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=99.73  E-value=1.3e-17  Score=131.13  Aligned_cols=84  Identities=23%  Similarity=0.288  Sum_probs=78.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCC-cccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNE-YKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~-srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +.+++|||+|||..+|+++|.++|++||.|..        |.|+.++.|+. +++||||+|.+.++|++||..||+..|.
T Consensus         2 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   73 (88)
T 4a8x_A            2 MKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKM--------IDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQID   73 (88)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeEC
Confidence            56789999999999999999999999999998        78988887766 8999999999999999999999999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.++.+..
T Consensus        74 g~~l~v~~a~~~~   86 (88)
T 4a8x_A           74 GQEITATAVLAPW   86 (88)
T ss_dssp             TEECEEEEECCCC
T ss_pred             CeEEEEEECCCCC
Confidence            9999999997654

>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=99.73  E-value=2.2e-17  Score=134.51  Aligned_cols=85  Identities=18%  Similarity=0.229  Sum_probs=79.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++ ++.+++||||+|.+.++|++||..||+..|.+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   83 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDE--------CTVLRGP-DGSSKGCAFVKFSSHTEAQAAIHALHGSQTMP   83 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEEEECS-SSCEEEEEEEEESSHHHHHHHHHHHSSCCCCT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEECC-CCCcCcEEEEEeCCHHHHHHHHHHHcCCccCC
Confidence            35789999999999999999999999999998        8899988 79999999999999999999999999999998


Q ss_pred             ---ceEEEEecccCCCC
Q 016532           83 ---NLIGVFIAESRGKD   96 (388)
Q Consensus        83 ---r~I~V~~a~~~~~~   96 (388)
                         +.|.|.+|.++...
T Consensus        84 g~~~~l~V~~a~~~~~~  100 (105)
T 2dnh_A           84 GASSSLVVKFADTDKES  100 (105)
T ss_dssp             TCSSCCEEEESCSSCCC
T ss_pred             CCCccEEEEECccCccc
Confidence               99999999987653

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

Probab=99.73  E-value=3.5e-18  Score=138.95  Aligned_cols=83  Identities=16%  Similarity=0.151  Sum_probs=78.8

Q ss_pred             CCcEEEeccCCC------CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            4 ANGSVYVCNLPH------GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         4 ~~~tlfV~nLp~------~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      .+++|||+|||.      .+++++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~--------v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng   76 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVN--------MEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG   76 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEE--------EECCEETTTTEECSEEEEEESSHHHHHHHHHHHTT
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCC
Confidence            468999999999      9999999999999999998        88999999999999999999999999999999999


Q ss_pred             ceecC-ceEEEEecccCC
Q 016532           78 KDFHG-NLIGVFIAESRG   94 (388)
Q Consensus        78 ~~i~G-r~I~V~~a~~~~   94 (388)
                      ..|.| +.|.|.+|.++.
T Consensus        77 ~~~~g~r~l~V~~a~~~~   94 (100)
T 3ns6_A           77 KRLDLKHRLFLYTMKDVE   94 (100)
T ss_dssp             CBSSSSCBCEEEESHHHH
T ss_pred             cccCCCeEEEEEECchhh
Confidence            99999 999999998753

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

Probab=99.73  E-value=1.2e-17  Score=133.14  Aligned_cols=81  Identities=32%  Similarity=0.428  Sum_probs=77.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||+.+++++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||+.||+..|.|
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   85 (94)
T 2e5h_A           14 PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVK--------VTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFG   85 (94)
T ss_dssp             CCTTSEEEESCCTTSCHHHHHHHTTTTSCEEE--------EEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            45789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|.+|+
T Consensus        86 ~~l~v~~ak   94 (94)
T 2e5h_A           86 RVIKASIAI   94 (94)
T ss_dssp             EEEEEEECC
T ss_pred             cEEEEEecC
Confidence            999999984

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

Probab=99.73  E-value=5.1e-17  Score=134.27  Aligned_cols=84  Identities=25%  Similarity=0.320  Sum_probs=77.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|.+||.|..        |.|+.++ ++.+++||||+|.+.++|++||..|++..|.+
T Consensus        13 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~--------~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   83 (114)
T 2do0_A           13 RLGSTVFVANLDYKVGWKKLKEVFSMAGVVVR--------ADILEDK-DGKSRGIGTVTFEQSIEAVQAISMFNGQLLFD   83 (114)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEEEECT-TCSEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEECC-CCCeeeEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            35689999999999999999999999999998        7899988 59999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.....
T Consensus        84 ~~l~v~~a~~~~~   96 (114)
T 2do0_A           84 RPMHVKMDERALP   96 (114)
T ss_dssp             EECEEEECSCCCC
T ss_pred             CEEEEEEcccCCC
Confidence            9999999976544

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

Probab=99.73  E-value=2.2e-17  Score=134.35  Aligned_cols=83  Identities=27%  Similarity=0.388  Sum_probs=77.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++|+ |..        |.|+.++.|+.++|||||+|.+.++|++|| .|++..|.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g   82 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRS--------VRLVRDKDTDKFKGFCYVEFDEVDSLKEAL-TYDGALLGD   82 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTSC-EEE--------EEEEECSSSCSEEEEEEEEESSHHHHHHHG-GGTTCEETT
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceE--------EEEeecCCCCccceEEEEEECCHHHHHHHH-hhCCCeECC
Confidence            4578999999999999999999999997 777        889999999999999999999999999999 799999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        83 ~~l~V~~a~~~~~   95 (103)
T 2dng_A           83 RSLRVDIAEGRKQ   95 (103)
T ss_dssp             EECEEEECCCCCC
T ss_pred             eEEEEEEecCCCC
Confidence            9999999988654

>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=99.73  E-value=1.9e-17  Score=136.18  Aligned_cols=85  Identities=31%  Similarity=0.363  Sum_probs=80.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   95 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG   95 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            45678999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        96 ~~l~V~~a~~~~~  108 (110)
T 1oo0_B           96 QTIQVDWCFVKGP  108 (110)
T ss_dssp             EECEEEESEESSC
T ss_pred             cEEEEEEcccCCC
Confidence            9999999988654

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

Probab=99.72  E-value=1.9e-17  Score=134.53  Aligned_cols=85  Identities=22%  Similarity=0.305  Sum_probs=78.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.+  ++.+++||||+|.+.++|++||..||+..|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   82 (103)
T 2d9p_A           13 YQVVNLYVKNLDDGIDDERLRKAFSPFGTITS--------AKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNGRIVAT   82 (103)
T ss_dssp             SSCCCEEEECCCTTCCHHHHHHTTTTTSCEEE--------EEEEEC--SSSEEEEEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEcC--CCCcCEEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            46789999999999999999999999999998        778887  79999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCCC
Q 016532           83 NLIGVFIAESRGKDD   97 (388)
Q Consensus        83 r~I~V~~a~~~~~~~   97 (388)
                      +.|.|.++.++....
T Consensus        83 ~~l~V~~a~~~~~~~   97 (103)
T 2d9p_A           83 KPLYVALAQRKEERQ   97 (103)
T ss_dssp             SBCEEEECSSCCCCC
T ss_pred             cEEEEEEecccccCC
Confidence            999999999876533

>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=99.72  E-value=2.3e-17  Score=137.42  Aligned_cols=82  Identities=26%  Similarity=0.303  Sum_probs=75.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+|||+.+|+++|+++|++||.|..        |+|+.++  +.++|||||+|.+.++|++||..|++..|.|+
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~--------v~i~~d~--~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~   73 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILS--------CKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDR   73 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEEET--TEEEEEEEEEESCHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEE--------EEEeecC--CCCCceEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4678999999999999999999999999998        7899886  45899999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus        74 ~i~V~~a~~~~~   85 (115)
T 4f25_A           74 KVFVGRFKSRKE   85 (115)
T ss_dssp             ECEEEESSCCCC
T ss_pred             EEEEEECCCccc
Confidence            999999987654

>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=99.72  E-value=9.4e-18  Score=132.36  Aligned_cols=82  Identities=23%  Similarity=0.332  Sum_probs=77.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++|| .|++..|.|
T Consensus         4 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g   74 (89)
T 3ucg_A            4 ADARSIYVGNVDYGATAEELEAHFHGCGSVNR--------VTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRG   74 (89)
T ss_dssp             HHHTEEEEESCCTTCCHHHHHHHHGGGCCEEE--------EEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETT
T ss_pred             CcCCEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECC
Confidence            35679999999999999999999999999998        889999999999999999999999999999 899999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.|.++++.
T Consensus        75 ~~l~V~~a~~~   85 (89)
T 3ucg_A           75 RQIKVIPKRTN   85 (89)
T ss_dssp             EECEEEETTTT
T ss_pred             cEEEEEEccCC
Confidence            99999999774

>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=99.72  E-value=3e-17  Score=134.20  Aligned_cols=80  Identities=26%  Similarity=0.427  Sum_probs=76.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++ ++.+++||||+|.+.++|++||..|++..|.|
T Consensus        27 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   97 (107)
T 3ulh_A           27 ETGGKLLVSNLDFGVSDADIQELFAEFGTLKK--------AAVHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDG   97 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            35789999999999999999999999999988        8899998 89999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|.+|.
T Consensus        98 ~~l~V~~a~  106 (107)
T 3ulh_A           98 RPMNIQLVT  106 (107)
T ss_dssp             EECEEEEEC
T ss_pred             cEEEEEEeC
Confidence            999999985

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

Probab=99.72  E-value=2.2e-17  Score=134.27  Aligned_cols=85  Identities=19%  Similarity=0.179  Sum_probs=79.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHh-cCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce-e
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGT-IGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD-F   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~-~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~-i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++ ||.|..        |.|+.++ |+.+++||||+|.+.++|++||..|++.. |
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~--------v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   77 (104)
T 2dhg_A            7 GPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRG--------GKVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQGAVGL   77 (104)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEE--------EEEEECT-TCCEEEEEEEEESCHHHHHHHHHHTTTCCSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEE--------EEEEECC-CCCccceEEEEECCHHHHHHHHHHccCCccc
Confidence            46789999999999999999999999 999988        8899998 99999999999999999999999999999 9


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .|+.|.|.++.++...
T Consensus        78 ~g~~l~v~~a~~~~~~   93 (104)
T 2dhg_A           78 GSKPVRLSVAIPKASR   93 (104)
T ss_dssp             SSSCCCCCBCCCCCSC
T ss_pred             CCEeEEEEEccCCCcC
Confidence            9999999999876543

>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=99.72  E-value=2.2e-17  Score=134.54  Aligned_cols=83  Identities=23%  Similarity=0.370  Sum_probs=77.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC-CCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT-NEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T-g~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .+..+|||+|||+.+|+++|+++|++|| |..        |.|+.++.| +.++|||||+|.+.++|++|| .|++..|.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~--------v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~   82 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISA--------VRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG   82 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEE--------EECCBCSSCTTSBCSCEEEEESSHHHHHHHH-GGGTCEET
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceE--------EEEecCCCCCCCcCeEEEEEECCHHHHHHHH-hcCCCEeC
Confidence            4668999999999999999999999999 887        889999988 999999999999999999999 89999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      ++.|.|.++.++..
T Consensus        83 g~~l~V~~a~~~~~   96 (104)
T 1wi8_A           83 NKRIRVDVADQAQD   96 (104)
T ss_dssp             TEECEEEECCCCCC
T ss_pred             CcEEEEEEccCCCC
Confidence            99999999988755

>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=99.72  E-value=2.4e-17  Score=135.93  Aligned_cols=84  Identities=27%  Similarity=0.352  Sum_probs=79.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g   95 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPFGRIES--------IQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAG   95 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTTSCEEE--------EEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            45689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.++.
T Consensus        96 ~~l~V~~a~~k~  107 (108)
T 2jrs_A           96 RPMKVGHVTERT  107 (108)
T ss_dssp             SCCEEECSCSSC
T ss_pred             EEEEEEEcccCC
Confidence            999999998764

>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=99.71  E-value=1.4e-17  Score=133.09  Aligned_cols=81  Identities=19%  Similarity=0.204  Sum_probs=75.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+.+|+++|+++|++||.|..        |.++.++.++.+++||||+|.++++|++||..||+..|.|+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr   85 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPG--------SVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR   85 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTT--------CCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccc--------eEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCc
Confidence            4689999999999999999999999999987        55888889999999999999999999999999999999999


Q ss_pred             eEEEEeccc
Q 016532           84 LIGVFIAES   92 (388)
Q Consensus        84 ~I~V~~a~~   92 (388)
                      .|.|+++.+
T Consensus        86 ~l~v~~a~s   94 (95)
T 2ek1_A           86 KVKLSGPSS   94 (95)
T ss_dssp             ECEEECCC-
T ss_pred             EEEEEeccC
Confidence            999999864

>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=99.71  E-value=1.9e-17  Score=133.19  Aligned_cols=82  Identities=17%  Similarity=0.229  Sum_probs=76.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.+|||+|||+.+|+++|+++|.+||.|..        +.++.++.|+.+++||||+|.+.++|++||..||+..|.|+
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~--------~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~   85 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPG--------SVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSR   85 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTT--------TCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCccc--------eEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCe
Confidence            4678999999999999999999999999987        55888888999999999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|+++..+
T Consensus        86 ~l~V~~a~~~   95 (98)
T 2cqp_A           86 KVKLVLGSGP   95 (98)
T ss_dssp             ECEEEESSCS
T ss_pred             EEEEEEcCCC
Confidence            9999998764

>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=99.71  E-value=8.3e-17  Score=130.73  Aligned_cols=84  Identities=21%  Similarity=0.272  Sum_probs=76.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.+  +++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~--~~g~afV~f~~~~~a~~A~~~l~g~~~~g   82 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKS--------CKMITEHTS--NDPYCFVEFYEHRDAAAALAAMNGRKILG   82 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEE--------EEEECCCCS--SCCEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhcCCEeE--------EEEEecCCC--CCCEEEEEECCHHHHHHHHHHhCCCCcCC
Confidence            45689999999999999999999999999998        778888654  68999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        83 ~~l~V~~a~~~~~~   96 (103)
T 2cqi_A           83 KEVKVNWATTPSSQ   96 (103)
T ss_dssp             EEEEEEECCCTTCC
T ss_pred             CeEEEEECCCCccc
Confidence            99999999886543

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

Probab=99.71  E-value=3.2e-17  Score=133.66  Aligned_cols=84  Identities=25%  Similarity=0.381  Sum_probs=79.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||.. ++..|.|
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g   84 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEVVD--------CVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDG   84 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTTSCEEE--------EEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECC
Confidence            46789999999999999999999999999998        88999999999999999999999999999998 9999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        85 ~~l~V~~a~~~~~   97 (105)
T 2dh8_A           85 RNIDPKPCTPRGM   97 (105)
T ss_dssp             EEEBCCCSCCSSC
T ss_pred             EEEEEEEccCCCC
Confidence            9999999987754

>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=99.71  E-value=7.9e-17  Score=130.89  Aligned_cols=85  Identities=25%  Similarity=0.252  Sum_probs=77.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.  .+++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   82 (103)
T 2cq3_A           13 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILD--------VEIIFNER--GSKGFGFVTFENSADADRAREKLHGTVVEG   82 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEE--------EEEECCTT--TTCCEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCC--CCcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999998        77888864  389999999999999999999999999999


Q ss_pred             ceEEEEecccCCCCC
Q 016532           83 NLIGVFIAESRGKDD   97 (388)
Q Consensus        83 r~I~V~~a~~~~~~~   97 (388)
                      +.|.|.++.++....
T Consensus        83 ~~l~v~~a~~~~~~~   97 (103)
T 2cq3_A           83 RKIEVNNATARVMTN   97 (103)
T ss_dssp             EECEEEECCSSCCCC
T ss_pred             EEEEEEEcccCCCCC
Confidence            999999999876544

>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=99.70  E-value=6.4e-17  Score=130.21  Aligned_cols=82  Identities=23%  Similarity=0.181  Sum_probs=75.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHH----HHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            3 MANGSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~----~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .+..+|||+|||+.+++++|+    ++|++||.|..        |.|+.++.+   ++||||+|.+.++|++||+.||+.
T Consensus         7 ~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~--------v~i~~~~~~---rg~afV~f~~~~~A~~Ai~~l~g~   75 (96)
T 2dgx_A            7 GNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKS--------VELSPHTDY---QLKAVVQMENLQDAIGAVNSLHRY   75 (96)
T ss_dssp             SSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEE--------EEECSCCST---TCCEEEEESSHHHHHHHHHHHTTE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEE--------EEEEeCCCC---CeEEEEEECCHHHHHHHHHHhCCC
Confidence            356799999999999999999    99999999998        889988876   789999999999999999999999


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .|.|+.|.|.+|++...
T Consensus        76 ~~~gr~l~V~~a~~~~~   92 (96)
T 2dgx_A           76 KIGSKKILVSLATGASG   92 (96)
T ss_dssp             EETTEEEEEEECCCSSC
T ss_pred             EECCeEEEEEEcCCCCC
Confidence            99999999999987654

>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=99.70  E-value=5.5e-17  Score=129.60  Aligned_cols=81  Identities=28%  Similarity=0.350  Sum_probs=76.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+++++|+++|++||.|..        |.|+.++. +.+++||||+|.+.++|++||..||+..|.|
T Consensus        14 ~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~--------v~i~~~~~-g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   84 (95)
T 2ywk_A           14 EADRTVFVGNLEARVREEILYELFLQAGPLTK--------VTICKDRE-GKPKSFGFVCFKHPESVSYAIALLNGIRLYG   84 (95)
T ss_dssp             TGGGEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTT-SCEEEEEEEEESSTHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEE--------EEEEECCC-CCCceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35689999999999999999999999999998        88999885 8999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.+++.
T Consensus        85 ~~l~V~~a~~   94 (95)
T 2ywk_A           85 RPINVSGPSS   94 (95)
T ss_dssp             EECEEECCCC
T ss_pred             CEEEEEEcCC
Confidence            9999999864

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.70  E-value=8.4e-17  Score=126.60  Aligned_cols=79  Identities=19%  Similarity=0.309  Sum_probs=74.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ +++..|.|
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g   79 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVD--------CTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDG   79 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTTSCEEE--------EEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECC
Confidence            46789999999999999999999999999998        8899999999999999999999999999996 68889999


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      +.|.|.+|
T Consensus        80 ~~i~v~~A   87 (87)
T 3s7r_A           80 RVIDPKKA   87 (87)
T ss_dssp             EEEEEEEC
T ss_pred             EEEEEEeC
Confidence            99999876

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

Probab=99.70  E-value=4.4e-17  Score=143.44  Aligned_cols=83  Identities=19%  Similarity=0.266  Sum_probs=77.2

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcC--ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIG--LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G--~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +..+|||+|||+.+|+++|+++|++||  .|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.
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 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVE--------LKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLN  125 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEE--------EEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            457999999999999999999999999  7877        889999999999999999999999999999999999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.+|.++.
T Consensus       126 Gr~l~V~~a~~~~  138 (156)
T 3n9u_C          126 GEKVDVRPATRQN  138 (156)
T ss_dssp             TEECEEEECCHHH
T ss_pred             CeEeEEEEcCCCc
Confidence            9999999997643

>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=99.70  E-value=2.8e-17  Score=133.54  Aligned_cols=84  Identities=30%  Similarity=0.437  Sum_probs=79.4

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +.++|||+|||..+|+++|+++|++||.|..        |.|+.++.++.+++||||+|.+.++|++||..|++..|.|+
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~--------~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   78 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVS--------FRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGR   78 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSE--------EEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSS
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhcCCeeE--------EEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCc
Confidence            4579999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus        79 ~l~v~~a~~~~~   90 (104)
T 1p1t_A           79 ALRVDNAASEKN   90 (104)
T ss_dssp             CBEEEETTCTTH
T ss_pred             EEEEEeCCCccc
Confidence            999999987654

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

Probab=99.70  E-value=8.4e-17  Score=127.79  Aligned_cols=83  Identities=24%  Similarity=0.300  Sum_probs=76.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.  .++.+++||||+|.+.++|++||..|++..|.|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~--------~~i~~--~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g   75 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLY--------ADIKM--ENGKSKGCGVVKFESPEVAERACRMMNGMKLSG   75 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEE--------EEEEE--SSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEc--cCCCcceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            56789999999999999999999999999998        76776  478999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus        76 ~~l~v~~a~~~~~   88 (92)
T 2dgv_A           76 REIDVRIDRNASG   88 (92)
T ss_dssp             BCCCCEECSCCSS
T ss_pred             cEEEEEEcCCCCC
Confidence            9999999987654

>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=99.70  E-value=1.5e-16  Score=129.15  Aligned_cols=84  Identities=23%  Similarity=0.313  Sum_probs=77.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|.+||.|..        |.|+.++.|+.++|||||+|.+.++|++||.  ++..|.|
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g   82 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLM--------VQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDG   82 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEE--------EEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETT
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEE--------EEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCC
Confidence            45689999999999999999999999999998        8899999999999999999999999999998  4778999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        83 ~~l~v~~a~~~~~~   96 (103)
T 2cqg_A           83 RWCDCKLPNSKQSQ   96 (103)
T ss_dssp             EEEEEECCCTTCCC
T ss_pred             eEEEEEecCCCCcC
Confidence            99999999887653

>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=99.70  E-value=7.6e-17  Score=142.56  Aligned_cols=86  Identities=30%  Similarity=0.361  Sum_probs=79.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|..+|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.|
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g  141 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG  141 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEE--------EEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35678999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus       142 ~~l~V~~a~~~~~~  155 (165)
T 1rk8_A          142 QTIQVDWCFVKGPK  155 (165)
T ss_dssp             EECEEEESEECC--
T ss_pred             EEEEEEEecCCCCC
Confidence            99999999887653

>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=99.69  E-value=3.2e-17  Score=139.73  Aligned_cols=84  Identities=26%  Similarity=0.245  Sum_probs=79.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        44 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g  115 (129)
T 2kxn_B           44 DPNCCLGVFGLSLYTTERDLREVFSKYGPIAD--------VSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDG  115 (129)
T ss_dssp             CCSSCBCEETCTTSCCHHHHHHHHTTTSCEEE--------EEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.++.
T Consensus       116 ~~l~V~~a~~~~  127 (129)
T 2kxn_B          116 RRIRVDFSITKR  127 (129)
T ss_dssp             SCCEESCCSSSS
T ss_pred             EEEEEEEecCCC
Confidence            999999998764

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

Probab=99.53  E-value=1.3e-18  Score=144.70  Aligned_cols=94  Identities=39%  Similarity=0.757  Sum_probs=86.8

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..++.+|||+|||..+|+++|+++|++||.|..+..++.|.|.|+.++.|+.+++||||+|.+.++|++||..||+..|.
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   83 (116)
T 2lcw_A            4 NSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   83 (116)
Confidence            45788999999999999999999999999998866667777889999999999999999999999999999999999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      |+.|.|.++.++..
T Consensus        84 g~~l~V~~a~~~~~   97 (116)
T 2lcw_A           84 GNPIKVSFATRRAD   97 (116)
Confidence            99999999988654

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

Probab=99.69  E-value=1.4e-16  Score=126.56  Aligned_cols=82  Identities=17%  Similarity=0.255  Sum_probs=76.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++| .|..        |.|+.+ .++.++|||||+|.+.++|++||. |++..|.|
T Consensus         8 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~--------v~i~~~-~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~g   76 (91)
T 2dgw_A            8 TTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVA--------IRIVRN-AHGNKTGYIFVDFSNEEEVKQALK-CNREYMGG   76 (91)
T ss_dssp             CCCCEEEEECCCSSCCHHHHHHHHTTS-CCSE--------EEEEEC-TTSCEEEEEEEECSSHHHHHHHHH-SCSEEETT
T ss_pred             CCccEEEEECCCCCCCHHHHHHHHhhC-CceE--------EEEEEC-CCCCCceEEEEEECCHHHHHHHHH-hCCceeCC
Confidence            356899999999999999999999999 7877        889998 689999999999999999999999 99999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+++.
T Consensus        77 r~i~v~~a~~~~~   89 (91)
T 2dgw_A           77 RYIEVFREKSGPS   89 (91)
T ss_dssp             EEEEEEEESSCCC
T ss_pred             cEEEEEECCcCCC
Confidence            9999999988643

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

Probab=99.69  E-value=3.9e-17  Score=135.93  Aligned_cols=81  Identities=20%  Similarity=0.270  Sum_probs=76.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||+.||+..|.|
T Consensus        38 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  109 (118)
T 2khc_A           38 PEGCNLFIYHLPQEFTDTDLASTFLPFGNVIS--------AKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGT  109 (118)
T ss_dssp             CCSEEEEEECSCTTCCHHHHHHHTTTSCEEEE--------EEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            34689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|.|++++
T Consensus       110 ~~l~V~~ak  118 (118)
T 2khc_A          110 KRLKVQLKK  118 (118)
T ss_dssp             EECCEEEC-
T ss_pred             EEEEEEecC
Confidence            999999874

>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=99.69  E-value=5.9e-17  Score=132.83  Aligned_cols=87  Identities=21%  Similarity=0.228  Sum_probs=79.3

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCc-eeecCCCCCCeEEEE-ecCCCCCcccEEEEEeCCHHHHHHHHHHhC--C
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGL-LKKDKRTGRPKVWLY-RDKTTNEYKGDATVTYEDPHAALAAVEWFN--N   77 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~-i~~~~~tg~p~V~i~-~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln--g   77 (388)
                      ..++++|||+|||+.+|+++|+++|.+||. |..        |.|+ .++.|+.++|||||+|.+.++|++||..|+  +
T Consensus         5 s~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~--------v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~   76 (109)
T 2dis_A            5 SSGNCRLFIGGIPKMKKREEILEEIAKVTEGVLD--------VIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGR   76 (109)
T ss_dssp             CCCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEE--------EECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCC
T ss_pred             ccCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceE--------EEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCC
Confidence            356789999999999999999999999998 887        7787 788899999999999999999999999996  5


Q ss_pred             ceecCceEEEEecccCCCC
Q 016532           78 KDFHGNLIGVFIAESRGKD   96 (388)
Q Consensus        78 ~~i~Gr~I~V~~a~~~~~~   96 (388)
                      ..|.|+.|.|.+|.++...
T Consensus        77 ~~~~g~~l~V~~a~~~~~~   95 (109)
T 2dis_A           77 IQLWGHQIAVDWAEPEIDV   95 (109)
T ss_dssp             SCBTTBCCEEEESCSSCST
T ss_pred             ceecCCeEEEEEcCCCCCc
Confidence            8999999999999987654

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

Probab=99.69  E-value=9.4e-17  Score=133.35  Aligned_cols=82  Identities=21%  Similarity=0.289  Sum_probs=77.7

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+.+|+++|+++|.+||.|..        |.|+.++.|+.++|||||+|.+.++|++||.. ++..|.|+.
T Consensus        27 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~   97 (116)
T 1x4b_A           27 FRKLFIGGLSFETTEESLRNYYEQWGKLTD--------CVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRV   97 (116)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSE--------EEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEE
Confidence            479999999999999999999999999988        88999999999999999999999999999997 999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.++.++..
T Consensus        98 l~V~~a~~~~~  108 (116)
T 1x4b_A           98 VEPKRAVAREE  108 (116)
T ss_dssp             EEEECCSSCCC
T ss_pred             EEEEECCCCcc
Confidence            99999988765

>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=99.69  E-value=5.4e-17  Score=134.22  Aligned_cols=85  Identities=24%  Similarity=0.337  Sum_probs=77.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHH---HHHHhcCceeecCCCCCCeEEEEecCCCC---CcccEEEEEeCCHHHHHHHHHHhC
Q 016532            3 MANGSVYVCNLPHGTDEDMLA---EYFGTIGLLKKDKRTGRPKVWLYRDKTTN---EYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~---~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg---~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      .+.++|||+|||+.+++++|.   ++|++||.|..        |.|+.++.|+   .++|||||+|.+.++|++||+.||
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~--------v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~ln   84 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHK--------VVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVN   84 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEE--------EEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHT
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEE--------EEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhC
Confidence            467899999999999999999   99999999998        7788888754   456999999999999999999999


Q ss_pred             CceecCceEEEEecccCCC
Q 016532           77 NKDFHGNLIGVFIAESRGK   95 (388)
Q Consensus        77 g~~i~Gr~I~V~~a~~~~~   95 (388)
                      +..|.|+.|.|.+|.++..
T Consensus        85 g~~~~gr~l~V~~a~~k~~  103 (111)
T 2cpi_A           85 NVVVDGRTLKASLGTTKYC  103 (111)
T ss_dssp             TEEETTEEEEEESCCCCSC
T ss_pred             CCEECCEEEEEEecccccc
Confidence            9999999999999988763

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

Probab=99.69  E-value=2.3e-17  Score=140.42  Aligned_cols=86  Identities=20%  Similarity=0.238  Sum_probs=79.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc----
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK----   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~----   78 (388)
                      .++++|||+|||+.+|+++|+++|++||.|....      |+|+.++.|+.++|||||+|.+. +|++||..||+.    
T Consensus        21 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~------v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~   93 (131)
T 2m2b_A           21 NANDTIILRNLNPHSTMDSILGALAPYAVLSSSN------VRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPL   93 (131)
T ss_dssp             CCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTT------EECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceee------EEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCc
Confidence            3568999999999999999999999999996543      78999999999999999999999 999999999999    


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .|.|+.|.|.++.+...
T Consensus        94 ~~~gr~l~V~~a~~~~~  110 (131)
T 2m2b_A           94 TIDGKTINVEFAKGSKR  110 (131)
T ss_dssp             CGGGCCCCCEECCCSCC
T ss_pred             cCCCEEEEEEECCCCCC
Confidence            99999999999987654

>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=99.69  E-value=2.6e-16  Score=128.05  Aligned_cols=79  Identities=25%  Similarity=0.403  Sum_probs=71.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||+.+|+++|+++|++||.|..        |.|+        ++||||+|.+.++|++||..|++..|.+
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~--------v~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g   72 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLER--------VKKL--------KDYAFIHFDERDGAVKAMEEMNGKDLEG   72 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEE--------EEEC--------SSCEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEE--------CCEEEEEeCCHHHHHHHHHHHCCCccCC
Confidence            45689999999999999999999999999987        5554        4699999999999999999999999999


Q ss_pred             ceEEEEecccCCCCC
Q 016532           83 NLIGVFIAESRGKDD   97 (388)
Q Consensus        83 r~I~V~~a~~~~~~~   97 (388)
                      +.|.|.++.++....
T Consensus        73 ~~l~v~~a~~~~~~~   87 (103)
T 2dgu_A           73 ENIEIVFAKPPDQKR   87 (103)
T ss_dssp             EEEEEEECCCCCCCC
T ss_pred             CEEEEEEcCCCcccc
Confidence            999999998876544

>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=99.69  E-value=5.9e-17  Score=134.17  Aligned_cols=82  Identities=18%  Similarity=0.297  Sum_probs=77.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++|| .|++..|.|+.
T Consensus        25 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~   95 (114)
T 2cq4_A           25 ARTVFCMQLAARIRPRDLEDFFSAVGKVRD--------VRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVP   95 (114)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEeE--------EEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeE
Confidence            469999999999999999999999999998        889999999999999999999999999999 89999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.++.++..
T Consensus        96 l~V~~a~~~~~  106 (114)
T 2cq4_A           96 IIVQASQAEKN  106 (114)
T ss_dssp             EEEEEHHHHHH
T ss_pred             EEEEecCCCcc
Confidence            99999987543

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

Probab=99.68  E-value=6.1e-17  Score=132.78  Aligned_cols=80  Identities=19%  Similarity=0.342  Sum_probs=75.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+++|+++|.++|++||.|..        |.|+.++. +.++|||||+|.+.++|++||. +++..|.|
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~--------v~i~~d~~-g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~g   78 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLN--------IQMRRTLH-KAFKGSIFVVFDSIESAKKFVE-TPGQKYKE   78 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSSCEEE--------EEEECCCT-TSCCCEEEEEESSHHHHHHHHT-SSCCCCTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCEEE--------EEEEECCC-CCCccEEEEEECCHHHHHHHHH-cCCCEECC
Confidence            46789999999999999999999999999998        88999987 9999999999999999999999 99999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.++..
T Consensus        79 r~l~V~~~~~   88 (103)
T 1s79_A           79 TDLLILFKDD   88 (103)
T ss_dssp             TTCEEEEHHH
T ss_pred             EEEEEEEchH
Confidence            9999998764

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

Probab=99.68  E-value=9.5e-17  Score=132.51  Aligned_cols=84  Identities=23%  Similarity=0.321  Sum_probs=76.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..+ +..|.|
T Consensus        23 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g   93 (109)
T 2rs2_A           23 SSGCKMFIGGLSWQTTQEGLREYFGQFGEVKE--------CLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDS   93 (109)
T ss_dssp             ---CCEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHccCCeEE--------EEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCC
Confidence            46789999999999999999999999999998        889999999999999999999999999999976 499999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        94 ~~l~V~~a~~~~~  106 (109)
T 2rs2_A           94 KTIDPKVAFPRRA  106 (109)
T ss_dssp             EEEEEEECCCCCC
T ss_pred             EEEEEEEccCCCC
Confidence            9999999987654

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

Probab=99.68  E-value=1.3e-17  Score=130.74  Aligned_cols=81  Identities=23%  Similarity=0.288  Sum_probs=75.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+++++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.+
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVS--------TKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQA   74 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEE--------EEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEee
Confidence            57889999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|+|.++.
T Consensus        75 ~~~~~~~~~   83 (85)
T 1x4e_A           75 QMAKQSGPS   83 (85)
T ss_dssp             ESCCSSCCC
T ss_pred             EEEeecCCC
Confidence            988776543

>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=99.68  E-value=2.5e-16  Score=129.32  Aligned_cols=82  Identities=24%  Similarity=0.259  Sum_probs=73.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.   ++.+++||||+|.+.++|++||+.||+..|.+
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------~~i~~---~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   88 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRD--------IDLKN---RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDG   88 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEECC---SSSSSCCEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEE---CCCCCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35689999999999999999999999999987        66644   35689999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++++...
T Consensus        89 ~~l~V~~a~~~~~  101 (109)
T 1x4a_A           89 YRLRVEFPRSGRG  101 (109)
T ss_dssp             EECEEECCCCCCC
T ss_pred             eEEEEEEcccCCC
Confidence            9999999987654

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=1.5e-16  Score=128.72  Aligned_cols=81  Identities=21%  Similarity=0.328  Sum_probs=73.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|.           |+.+ .++.+++||||+|.+.++|++||..|++..|.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~-----------~~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   80 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKATFIK-----------VPQN-QNGKSKGYAFIEFASFEDAKEALNSCNKREIEG   80 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSCSEEE-----------CCBC-SSSCBCSEEEEECSSHHHHHHHHHHTSSEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCEEE-----------EEEC-CCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            4678999999999999999999999999774           5555 578999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        81 ~~l~v~~a~~~~~   93 (101)
T 2fc9_A           81 RAIRLELQGPRGS   93 (101)
T ss_dssp             EEEEEEECSSCCC
T ss_pred             eEEEEEEcCCCCC
Confidence            9999999988654

>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=99.68  E-value=2.7e-17  Score=136.67  Aligned_cols=82  Identities=16%  Similarity=0.208  Sum_probs=76.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCce-eecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLL-KKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i-~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .+..+|||+|||+.+|+++|+++|++||.| ..        |.|+.++ |+.++|||||+|.+.++|++||.. ++..|.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~--------v~i~~d~-~g~~~G~afV~F~~~~~a~~Al~~-~~~~~~   82 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENA--------VHVLVDN-NGQGLGQALVQFKNEDDARKSERL-HRKKLN   82 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTT--------EEECCCT-TSSCSSCEEEECSSHHHHHHHGGG-CSEEET
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCe--------EEEEECC-CCCcceEEEEEECCHHHHHHHHHh-CCCccC
Confidence            467899999999999999999999999999 65        8899998 899999999999999999999996 999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      ++.|.|.++.++.
T Consensus        83 gr~i~v~~a~~~~   95 (114)
T 2cpy_A           83 GREAFVHVVTLED   95 (114)
T ss_dssp             TEEEEEEEECHHH
T ss_pred             CeEEEEEECCHHH
Confidence            9999999998765

>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=99.68  E-value=1.6e-16  Score=138.81  Aligned_cols=84  Identities=27%  Similarity=0.312  Sum_probs=79.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..||+..|.|+
T Consensus        69 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~--------~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~  140 (158)
T 2kn4_A           69 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGR  140 (158)
T ss_dssp             BCCEEEEESCCTTCCHHHHHHHHHHHSCEEE--------EECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            4689999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.+...
T Consensus       141 ~l~v~~a~~~~~  152 (158)
T 2kn4_A          141 ELRVQMARYGRP  152 (158)
T ss_dssp             EEEEEEECCSSC
T ss_pred             EEEEEECCCCCC
Confidence            999999987644

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

Probab=99.68  E-value=2.3e-16  Score=132.69  Aligned_cols=84  Identities=24%  Similarity=0.357  Sum_probs=78.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++++|||+|||..+++++|+++|++||.|..        |.|+.++ ++.++|||||+|.+.++|++||..|++..|.|+
T Consensus        34 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------v~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~  104 (124)
T 2kt5_A           34 TGAKLLVSNLDFGVSDADIQELFAEFGTLKK--------AAVDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGR  104 (124)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHHHTTSCCSE--------EEEECCS-SSSCCSEEEEEESSHHHHHHHHHHHTTEESSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEECC-CCCEeeEEEEEECCHHHHHHHHHHcCCCEECCc
Confidence            5679999999999999999999999999988        8899998 899999999999999999999999999999999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      .|.|.+|.+....
T Consensus       105 ~l~V~~a~~~~~~  117 (124)
T 2kt5_A          105 PMDIQLVASQIDL  117 (124)
T ss_dssp             EEEEEEECCTTCC
T ss_pred             EEEEEEeCCCCCC
Confidence            9999999876543

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

Probab=99.68  E-value=1.3e-16  Score=133.96  Aligned_cols=82  Identities=26%  Similarity=0.358  Sum_probs=77.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||..+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++|| .|++..|.|+.
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~  106 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINR--------ITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRT  106 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEE--------EEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeE
Confidence            579999999999999999999999999998        889999999999999999999999999999 79999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.++.+...
T Consensus       107 l~V~~a~~~~~  117 (124)
T 2jwn_A          107 IKVLPKRTNMP  117 (124)
T ss_dssp             CEEEESSCCCS
T ss_pred             EEEEECCCCCC
Confidence            99999986543

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

Probab=99.68  E-value=4.4e-17  Score=124.63  Aligned_cols=75  Identities=24%  Similarity=0.347  Sum_probs=71.4

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ |++..|.|+.|.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~   71 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDD--------AMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVE   71 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSE--------ECCCBCSSSTTSCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCE
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCCcCcEEEEEECCHHHHHHHHH-CCCCEECCEEEE
Confidence            5999999999999999999999999988        7799999899999999999999999999998 999999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |.+|
T Consensus        72 v~~A   75 (75)
T 2mss_A           72 CKKA   75 (75)
T ss_dssp             EECC
T ss_pred             EEeC
Confidence            9875

>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=99.68  E-value=8.6e-17  Score=131.45  Aligned_cols=81  Identities=17%  Similarity=0.356  Sum_probs=74.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.+ .        |.|+.++ |++++|||||+|.+.++|++||+ +|+..|.+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~--------v~i~~d~-~g~~~G~afV~F~~~~~a~~Al~-~~~~~~~g   81 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNPM-R--------VHIEIGP-DGRVTGEADVEFATHEDAVAAMA-KDKANMQH   81 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCS-E--------EEEEESS-SSCEEEEEEEECSSSHHHHHHHT-TSSCCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCce-E--------EEEEECC-CCCEeeEEEEEECCHHHHHHHHH-hCCCeECC
Confidence            456799999999999999999999999954 5        8899998 89999999999999999999995 79999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.+..
T Consensus        82 r~i~V~~~~~~~   93 (102)
T 1wez_A           82 RYVELFLNSTAG   93 (102)
T ss_dssp             SCCEEEEECCCC
T ss_pred             cEEEEEECCCCC
Confidence            999999987654

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=1.4e-16  Score=129.01  Aligned_cols=82  Identities=24%  Similarity=0.341  Sum_probs=75.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|+.|.   .        |.|+.++.++.+++||||+|.+.++|++||..|++..|.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~--------~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   81 (102)
T 2fc8_A           13 QPSKTLFVKGLSEDTTEETLKESFDGSV---R--------ARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDG   81 (102)
T ss_dssp             CCCSSEEEECCCTTCCHHHHHHTSTTCS---E--------EEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCccCHHHHHHHhcCCe---E--------EEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            4678999999999999999999999774   2        5688898899999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+++++..
T Consensus        82 ~~l~V~~a~~~~~   94 (102)
T 2fc8_A           82 NKVTLDWAKPKGE   94 (102)
T ss_dssp             EECEEEECCCCCS
T ss_pred             eEEEEEEecCCCC
Confidence            9999999988654

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

Probab=99.67  E-value=1.5e-16  Score=135.69  Aligned_cols=80  Identities=26%  Similarity=0.350  Sum_probs=75.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||+.|++..|.|
T Consensus        61 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  132 (140)
T 2ku7_A           61 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITD--------IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG  132 (140)
T ss_dssp             SSCCEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETT
T ss_pred             CCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEE--------EEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45789999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      +.|.|.+|
T Consensus       133 ~~l~v~~A  140 (140)
T 2ku7_A          133 RTIRVNLA  140 (140)
T ss_dssp             EEEEEEC-
T ss_pred             EEEEEEeC
Confidence            99999986

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

Probab=99.67  E-value=1.6e-16  Score=131.03  Aligned_cols=81  Identities=14%  Similarity=0.223  Sum_probs=72.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC--cee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN--KDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng--~~i   80 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.+      +|||||+|.+.++|++||+.|++  ..|
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~--------v~i~~~------kGfaFVeF~~~~~A~~Ai~~l~~~~~~l   79 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTN--------LLMLKG------KNQAFIEMNTEEAANTMVNYYTSVTPVL   79 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHTTSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEcC------CCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            46789999999999999999999999999998        777764      69999999999999999998864  789


Q ss_pred             cCceEEEEecccCCCCC
Q 016532           81 HGNLIGVFIAESRGKDD   97 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~~   97 (388)
                      .|+.|.|.+|+++....
T Consensus        80 ~Gr~l~V~~A~~~~~~~   96 (105)
T 1sjq_A           80 RGQPIYIQFSNHKELKT   96 (105)
T ss_dssp             TTEECCBCCCSSSSCCC
T ss_pred             CCEEEEEEEcCCCCCCc
Confidence            99999999998876544

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

Probab=99.67  E-value=6.6e-17  Score=124.01  Aligned_cols=76  Identities=24%  Similarity=0.355  Sum_probs=72.6

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..++ ..|.|+.|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l   71 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKE--------CLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTI   71 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCC--------EEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEE
Confidence            47999999999999999999999999987        8899999999999999999999999999999999 99999999


Q ss_pred             EEEec
Q 016532           86 GVFIA   90 (388)
Q Consensus        86 ~V~~a   90 (388)
                      .|.+|
T Consensus        72 ~v~~a   76 (77)
T 1uaw_A           72 DPKVA   76 (77)
T ss_dssp             EEEEC
T ss_pred             EEEec
Confidence            99987

>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=99.67  E-value=4.5e-17  Score=132.12  Aligned_cols=82  Identities=23%  Similarity=0.364  Sum_probs=74.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK-TTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk-~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ....+|||+|||..+|+++|+++|++|| |..        |.|+.++ .++.++|||||+|.+.++|++|| .|++..|.
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~--------v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai-~l~g~~~~   86 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISA--------VRLPREPSNPERLKGFGYAEFEDLDSLLSAL-SLNEESLG   86 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSSC-EEE--------EECSCCTTTTCCCCSCEEEEECCHHHHHHHH-HTTTCCBT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeE--------EEEEecCCcCCccCeEEEEEECCHHHHHHHH-hcCCCEEC
Confidence            4568999999999999999999999999 887        8899888 68999999999999999999999 89999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.++.+++
T Consensus        87 g~~l~V~~a~~~~   99 (100)
T 2j76_E           87 NRRIRVDVADQAQ   99 (100)
T ss_dssp             TBCCCCEECCCSC
T ss_pred             CeEEEEEeccCCC
Confidence            9999999998764

>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=99.67  E-value=8.1e-17  Score=133.28  Aligned_cols=86  Identities=19%  Similarity=0.258  Sum_probs=74.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|.++|++||.|..+.        +..+..|+.+++||||+|.+.++|++||..|++..|.|
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~--------~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   94 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPP--------IQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYG   94 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSC--------CEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceE--------EEEEcCCCccceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            3568999999999999999999999999986521        22222278999999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        95 ~~l~v~~a~~~~~~  108 (115)
T 2cpx_A           95 KILVIEFGKNKKQR  108 (115)
T ss_dssp             CBCEEEECCCCSCC
T ss_pred             cEEEEEEccCCCCC
Confidence            99999999887653

>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=99.66  E-value=6.9e-16  Score=126.83  Aligned_cols=77  Identities=23%  Similarity=0.292  Sum_probs=71.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG-   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G-   82 (388)
                      ...+|||+|||+++|+++|+++|++||.|..        |.|+.+       +||||+|.+.++|++||+.||+..|.+ 
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g~~~~g~   78 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCY--------ADVYRD-------GTGVVEFVRKEDMTYAVRKLDNTKFRSH   78 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEE--------EEEETT-------TEEEEEESSHHHHHHHHHHSSSEEEECT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeE--------EEEecC-------CEEEEEECCHHHHHHHHHHHCcCCccCC
Confidence            4679999999999999999999999999988        667765       899999999999999999999999999 


Q ss_pred             ----ceEEEEecccCCC
Q 016532           83 ----NLIGVFIAESRGK   95 (388)
Q Consensus        83 ----r~I~V~~a~~~~~   95 (388)
                          +.|.|.+|.++..
T Consensus        79 ~~~~~~i~V~~a~~~~~   95 (108)
T 1x4c_A           79 EGETAYIRVKVDGPRSP   95 (108)
T ss_dssp             TSCEEEEEEEESSCCSC
T ss_pred             cCcceEEEEEeCCCCCC
Confidence                9999999988654

>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=99.66  E-value=3.8e-17  Score=129.37  Aligned_cols=81  Identities=27%  Similarity=0.362  Sum_probs=73.6

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||+|||..+++++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.+ |++||..||+..|.|+.|
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l   72 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFN--------VKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTI   72 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSE--------EEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSC
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEE--------EEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEE
Confidence            58999999999999999999999999988        889999999999999999999999 999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.+|.+...
T Consensus        73 ~V~~a~~~~~   82 (90)
T 2ki2_A           73 RVTEANPKKS   82 (90)
T ss_dssp             SEEEC-----
T ss_pred             EEEEcCCCCC
Confidence            9999988654

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

Probab=99.66  E-value=5.8e-16  Score=122.77  Aligned_cols=77  Identities=23%  Similarity=0.296  Sum_probs=71.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+        ++||||+|.+.++|++||..|++..|.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~~~--------~g~afV~f~~~~~A~~A~~~l~g~~~~g   69 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLE--------CDII--------KNYGFVHIEDKTAAEDAIRNLHHYKLHG   69 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEE--------EEEE--------TTEEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEE--------CCEEEEEECCHHHHHHHHHHhcCCccCC
Confidence            46789999999999999999999999999988        6665        5899999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        70 ~~l~v~~a~~~~~   82 (90)
T 2dnq_A           70 VNINVEASKNKSK   82 (90)
T ss_dssp             CBCEEECSSCCCC
T ss_pred             cEEEEEECCCCCC
Confidence            9999999988765

>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=99.66  E-value=2.8e-16  Score=129.94  Aligned_cols=82  Identities=20%  Similarity=0.275  Sum_probs=76.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee--
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF--   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i--   80 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.++ ++.+++||||+|.+.++|++||..||+..|  
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~   93 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPFGQVIS--------TRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKT   93 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEE--------EEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCCCEEcC
Confidence            45689999999999999999999999999998        8899998 899999999999999999999999999999  


Q ss_pred             ------cCceEEEEecccC
Q 016532           81 ------HGNLIGVFIAESR   93 (388)
Q Consensus        81 ------~Gr~I~V~~a~~~   93 (388)
                            .++.|.|.+|.++
T Consensus        94 ~~~~~~~~~~l~v~~a~p~  112 (114)
T 1x5o_A           94 PPGVSAPTEPLLCKFSGPS  112 (114)
T ss_dssp             CTTSCCCSSCBEEEECCCS
T ss_pred             CccccCCCCceeEEccCCC
Confidence                  5788999999854

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

Probab=99.65  E-value=1e-16  Score=137.55  Aligned_cols=84  Identities=27%  Similarity=0.312  Sum_probs=79.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|+
T Consensus        46 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~  117 (135)
T 2lea_A           46 GMTSLKVDNLTYRTSPDTLRRVFEKYGRVGD--------VYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGR  117 (135)
T ss_dssp             GCCCEEEECCCSSCHHHHHHHHHGGGSCCSE--------EECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4578999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++++...
T Consensus       118 ~l~V~~a~~~~~  129 (135)
T 2lea_A          118 ELRVQMARYGRP  129 (135)
T ss_dssp             CCEEEECCCCCC
T ss_pred             EEEEEECCCCCC
Confidence            999999987654

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

Probab=99.65  E-value=4e-16  Score=127.44  Aligned_cols=79  Identities=27%  Similarity=0.231  Sum_probs=71.0

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce--
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD--   79 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~--   79 (388)
                      ..++.+|||+|||+.+|+++|.++|++||.|..        |.|++      ++|||||+|++.++|++||..|++..  
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~--------v~i~~------~kg~AFVef~~~~~A~~Av~~ln~~~~~   83 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISY--------VVVMP------KKRQALVEFEDVLGACNAVNYAADNQIY   83 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEET------TTTEEEEEESSHHHHHHHHHHHHHSCEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEE--------EEEEc------CCCEEEEEECCHHHHHHHHHHhcCCCce
Confidence            357889999999999999999999999999988        66664      46899999999999999999999875  


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|+.|.|++|+++.
T Consensus        84 i~Gr~i~V~~S~~k~   98 (100)
T 3r27_A           84 IAGHPAFVNYSTSQK   98 (100)
T ss_dssp             ETTEEEEEEECSCSC
T ss_pred             eCCcEEEEEeccccc
Confidence            779999999998764

>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=99.65  E-value=8.6e-17  Score=135.49  Aligned_cols=82  Identities=16%  Similarity=0.276  Sum_probs=75.2

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|+++|.+||.|..        +.++.+..|+.++|||||+|.+.++|++||. ||+..|.|+
T Consensus        24 ~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~--------~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr   94 (124)
T 1wel_A           24 AGFCVYLKGLPFEAENKHVIDFFKKLDIVED--------SIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNR   94 (124)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTT--------TCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCccc--------eEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCc
Confidence            4579999999999999999999999999986        3467777799999999999999999999999 999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.++..+.
T Consensus        95 ~i~V~~a~~~~  105 (124)
T 1wel_A           95 FIQVHPITKKG  105 (124)
T ss_dssp             CBEEEEECHHH
T ss_pred             EEEEEECCHHH
Confidence            99999997654

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

Probab=99.65  E-value=2.9e-16  Score=128.49  Aligned_cols=82  Identities=17%  Similarity=0.244  Sum_probs=74.2

Q ss_pred             CCcEEEeccCCCCC------CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            4 ANGSVYVCNLPHGT------DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         4 ~~~tlfV~nLp~~~------teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      .+++|||+|||+.+      |+++|..+|++||.|..        |.|+  +.|+.++|||||+|.+.++|++||..||+
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~--------v~i~--~~~g~~~G~afV~f~~~~~A~~Ai~~l~g   83 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITN--------DFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADG   83 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEE--------EECC--CBTTBSCCEEEEEECSSSHHHHHHHHCSS
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEE--------EEee--CCCCCeeeEEEEEECCHHHHHHHHHHhCC
Confidence            35799999999999      78999999999999988        6666  56899999999999999999999999999


Q ss_pred             ceecCc-eEEEEecccCCC
Q 016532           78 KDFHGN-LIGVFIAESRGK   95 (388)
Q Consensus        78 ~~i~Gr-~I~V~~a~~~~~   95 (388)
                      ..|.|+ .|.|.++....+
T Consensus        84 ~~~~g~~~l~V~~a~~~~k  102 (105)
T 2nlw_A           84 YKLDKQHTFRVNLFTDFDK  102 (105)
T ss_dssp             EECSTTCEEEEECSCCCCC
T ss_pred             cccCCCceEEEEEcchHhh
Confidence            999998 999999976543

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

Probab=99.65  E-value=6e-17  Score=131.14  Aligned_cols=82  Identities=16%  Similarity=0.106  Sum_probs=74.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+.+|+++|+++|++||.|.. .        ++.++.|+.++|||||+|.+.++|++||+ |++..|.|+
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~--------~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~   85 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISELFAKND-L--------AVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGN   85 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-C--------CCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-E--------EEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCc
Confidence            5679999999999999999999999999875 2        56666788999999999999999999999 999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus        86 ~l~V~~a~~~~~   97 (101)
T 1fj7_A           86 EIKLEKPKGRDG   97 (101)
T ss_dssp             CCEEECCSCCCC
T ss_pred             EEEEEEcCCCCC
Confidence            999999987654

>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=99.65  E-value=3.3e-16  Score=127.97  Aligned_cols=84  Identities=18%  Similarity=0.309  Sum_probs=75.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|.+||.|...       |.|+.+ .|++++|||||+|.++++|++||.. ++..|.+
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~-------v~i~~~-~~g~~~G~afV~F~~~~~a~~A~~~-~~~~~~g   83 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNG-------MTLPVD-FQGRSTGEAFVQFASQEIAEKALKK-HKERIGH   83 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEE-------EECCBC-SSSCBCSEEEEEESSHHHHHHHHTT-TTCCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCccee-------EEEEEC-CCCCcceEEEEEECCHHHHHHHHHh-CcchhCC
Confidence            356899999999999999999999999998752       667777 6899999999999999999999996 9999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++..+..
T Consensus        84 r~i~v~~~~~~~~   96 (104)
T 1wg5_A           84 RYIEIFKSSRAEV   96 (104)
T ss_dssp             SCCEEEEECTTTS
T ss_pred             cEEEEEECCHHHH
Confidence            9999999877554

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.65  E-value=2.7e-16  Score=131.69  Aligned_cols=81  Identities=15%  Similarity=0.208  Sum_probs=75.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCc---eeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGL---LKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~---i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      +..+|||+|||+++|+++|+++|+.||.   |..        |.|+.++. ++++|||||+|.+.++|++||. |++..|
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~--------v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~g~~~   85 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAG--------VHFIYTRE-GRQSGEAFVELESEDDVKLALK-KDRESM   85 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGG--------EEEEECSS-SCEEEEEEEEBSSHHHHHHHGG-GTTEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCccCcee--------EEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCeE
Confidence            4678999999999999999999999999   666        88999987 9999999999999999999999 999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .++.|.|.++..+.
T Consensus        86 ~gr~i~V~~a~~~~   99 (118)
T 2db1_A           86 GHRYIEVFKSHRTE   99 (118)
T ss_dssp             TTEEEEEEEECHHH
T ss_pred             CCeEEEEEECCHHH
Confidence            99999999987654

>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=99.65  E-value=6.7e-16  Score=126.29  Aligned_cols=81  Identities=12%  Similarity=0.196  Sum_probs=72.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l--ng~~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+      ++||||+|.+.++|++||..|  ++..|
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~--------v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~~   78 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFGKVTN--------ILMLKG------KNQAFLELATEEAAITMVNYYSAVTPHL   78 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEECC------CCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            46789999999999999999999999999987        666653      699999999999999999977  46789


Q ss_pred             cCceEEEEecccCCCCC
Q 016532           81 HGNLIGVFIAESRGKDD   97 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~~   97 (388)
                      .|+.|.|.+|+++....
T Consensus        79 ~Gr~l~V~~a~~~~~~~   95 (101)
T 2cq1_A           79 RNQPIYIQYSNHKELKT   95 (101)
T ss_dssp             TTEECEEEECSCSSCCC
T ss_pred             CCcEEEEEEcCcccCcC
Confidence            99999999999876544

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

Probab=99.65  E-value=4.2e-16  Score=128.49  Aligned_cols=82  Identities=26%  Similarity=0.257  Sum_probs=75.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |.|+.++  +.++|||||+|.+.++|++||..|++..|.|
T Consensus        27 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~~--~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g   96 (109)
T 2err_A           27 SQPKRLHVSNIPFRFRDPDLRQMFGQFGKILD--------VEIIFNE--RGSKGFGFVTFENSADADRAREKLHGTVVEG   96 (109)
T ss_dssp             TCCCEEEEESCCTTCCHHHHHHHGGGTCCCSC--------EEECCBT--TBCTTEEEEECCCSHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCEEE--------EEEEECC--CCCceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            45789999999999999999999999999988        7788876  3589999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.++.
T Consensus        97 ~~l~V~~a~~~~  108 (109)
T 2err_A           97 RKIEVNNATARV  108 (109)
T ss_dssp             EECEEEECCCSC
T ss_pred             EEEEEEECCCCc
Confidence            999999998763

>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=99.64  E-value=5.6e-16  Score=124.56  Aligned_cols=79  Identities=22%  Similarity=0.180  Sum_probs=71.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-   81 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+      ++||||+|.+.++|++||+.||+..|. 
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------v~~~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~~   80 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRT--------IDHVKG------DSFAYIQYESLDAAQAACAKMRGFPLGG   80 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEE--------EEECSS------SCCEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEeCC------CCEEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            46789999999999999999999999999988        666543      689999999999999999999999999 


Q ss_pred             -CceEEEEecccCCC
Q 016532           82 -GNLIGVFIAESRGK   95 (388)
Q Consensus        82 -Gr~I~V~~a~~~~~   95 (388)
                       ++.|.|.+++++..
T Consensus        81 ~g~~l~V~~a~~~~~   95 (97)
T 1why_A           81 PDRRLRVDFAKSGPS   95 (97)
T ss_dssp             SSCBCEEEECCCCCC
T ss_pred             CCcEEEEEECCCCCC
Confidence             99999999988643

>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=99.64  E-value=5.6e-16  Score=130.52  Aligned_cols=81  Identities=14%  Similarity=0.223  Sum_probs=72.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC--cee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN--KDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng--~~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+      +|||||+|.+.++|++||..|++  ..|
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~--------v~i~~~------kG~AFVeF~~~e~A~~Ai~~l~~~~~~l   94 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTN--------LLMLKG------KNQAFIEMNTEEAANTMVNYYTSVTPVL   94 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSCCCE--------EEEEGG------GTEEEEECSCHHHHHHHHHHHHHHCCCB
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEeCC------CCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            46789999999999999999999999999998        778764      69999999999999999998874  589


Q ss_pred             cCceEEEEecccCCCCC
Q 016532           81 HGNLIGVFIAESRGKDD   97 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~~   97 (388)
                      .|+.|.|.+|+++....
T Consensus        95 ~Gr~l~V~~a~~k~~~~  111 (119)
T 2ad9_A           95 RGQPIYIQFSNHKELKT  111 (119)
T ss_dssp             TTBCCEEEECSSSSCCC
T ss_pred             CCeEEEEEEccCCCCCc
Confidence            99999999998876654

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

Probab=99.64  E-value=1.3e-15  Score=121.15  Aligned_cols=77  Identities=23%  Similarity=0.274  Sum_probs=70.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+        ++||||+|.+.++|++||..||+..|.|
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------v~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g   71 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEYGPVIE--------CDIV--------KDYAFVHMERAEDAVEAIRGLDNTEFQG   71 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTTSCCCE--------EEEC--------SSEEEEEESCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEE--------CCEEEEEECCHHHHHHHHHHhCCCeeCC
Confidence            46789999999999999999999999999987        6565        3499999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        72 ~~l~V~~a~~~~~   84 (92)
T 2dgt_A           72 KRMHVQLSTSRLR   84 (92)
T ss_dssp             EEEEEEESSCCCS
T ss_pred             cEEEEEEccCCCC
Confidence            9999999988654

>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=99.64  E-value=1.1e-15  Score=125.50  Aligned_cols=80  Identities=16%  Similarity=0.363  Sum_probs=73.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||..+|+++|+.+|++||.|..        |.|+.+      ++||||+|.+.++|++||..|++..|.|
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~--------v~i~~~------~g~afV~f~~~~~a~~A~~~l~g~~~~g   88 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIME--------IRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEG   88 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeCC------CCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            45689999999999999999999999999988        777765      6899999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        89 ~~l~v~~a~~~~~~  102 (109)
T 1x4g_A           89 HVVKCYWGKESPDM  102 (109)
T ss_dssp             EECEEECCCCCCSS
T ss_pred             cEEEEEecCCCCCC
Confidence            99999999887653

>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=99.64  E-value=3.1e-16  Score=128.62  Aligned_cols=80  Identities=13%  Similarity=0.221  Sum_probs=70.9

Q ss_pred             CCCCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC--c
Q 016532            2 TMANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN--K   78 (388)
Q Consensus         2 ~~~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng--~   78 (388)
                      ..++.+|||+|||+ .+|+++|+++|++||.|..        |+|+.+      ++||||+|++.++|++||+.|++  .
T Consensus        12 ~~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~--------v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~   77 (102)
T 1x4d_A           12 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISN--------HLILNK------INEAFIEMATTEDAQAAVDYYTTTPA   77 (102)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEE--------EEECSS------SSCEEEEESSHHHHHHHHHHHHHSCC
T ss_pred             CCCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEE--------EEEEcC------CCEEEEEECCHHHHHHHHHHHcCCCc
Confidence            34678999999999 9999999999999999998        777754      47999999999999999999886  4


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .|.|+.|.|.+|+....
T Consensus        78 ~~~Gr~l~V~~a~~~~~   94 (102)
T 1x4d_A           78 LVFGKPVRVHLSQKYKR   94 (102)
T ss_dssp             EETTEECEEEEECCCTT
T ss_pred             eECCcEEEEEECCCCCC
Confidence            59999999999986544

>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=99.64  E-value=3.5e-16  Score=134.75  Aligned_cols=81  Identities=14%  Similarity=0.178  Sum_probs=75.2

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCc---eeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGL---LKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~---i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      +..+|||+|||+++|+++|+++|++||.   |..        |.|+.++. ++++|||||+|.+.++|++||. |++..|
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~--------v~i~~d~~-g~srG~aFV~F~~~e~a~~Al~-~~g~~l  112 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAG--------VHFIYTRE-GRQSGEAFVELGSEDDVKMALK-KDRESM  112 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTT--------EEEEECSS-SCEEEEEEEECSSHHHHHHHHT-TTEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeE--------EEEEECCC-CCCCeEEEEEECCHHHHHHHHh-cCCCEE
Confidence            4679999999999999999999999999   565        88999987 9999999999999999999999 999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .++.|.|.++..+.
T Consensus       113 ~gr~i~V~~a~~~e  126 (136)
T 2hgl_A          113 GHRYIEVFKSHRTE  126 (136)
T ss_dssp             SSSEEEEEECCHHH
T ss_pred             CCEEEEEEECChHH
Confidence            99999999987653

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

Probab=99.63  E-value=1.8e-16  Score=123.37  Aligned_cols=73  Identities=18%  Similarity=0.287  Sum_probs=67.0

Q ss_pred             CcEEEeccCCCCC------CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            5 NGSVYVCNLPHGT------DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         5 ~~tlfV~nLp~~~------teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      +++|||+|||..+      |+++|+++|++||.|..        |.|+  +.|+.++|||||+|.+.++|++||..||+.
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~--------v~i~--~~~g~~~g~afV~f~~~~~A~~Ai~~lng~   70 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITN--------DFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADGY   70 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEE--------EECC--CBTTBCCCEEEEEESSHHHHHHHHTTSSSC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEE--------EEec--CCCCcEeEEEEEEECCHHHHHHHHHHhcCc
Confidence            4789999999999      78999999999999988        6565  568999999999999999999999999999


Q ss_pred             eecCc-eEEE
Q 016532           79 DFHGN-LIGV   87 (388)
Q Consensus        79 ~i~Gr-~I~V   87 (388)
                      .|.|+ +|.|
T Consensus        71 ~~~g~~~l~V   80 (81)
T 2krb_A           71 KLDKQHTFRV   80 (81)
T ss_dssp             CCSSSSCCCC
T ss_pred             ccCCceeEEe
Confidence            99999 8876

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.63  E-value=1.7e-16  Score=121.15  Aligned_cols=75  Identities=23%  Similarity=0.352  Sum_probs=70.7

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||. +++..|.|+.|.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~   71 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVES--------IELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCE   71 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSE--------ECCCCSCCCSSSCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCCcCCEEEEEECCHHHHHHHHH-hCCCeECCEEEE
Confidence            6999999999999999999999999988        7799999999999999999999999999999 588999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |.+|
T Consensus        72 v~~a   75 (75)
T 1iqt_A           72 IKVA   75 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9875

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

Probab=99.63  E-value=8.7e-16  Score=122.19  Aligned_cols=74  Identities=20%  Similarity=0.081  Sum_probs=68.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.-|||+||++.+|+++|+++|.+||.|..        +.|+.      ++|||||+|.+.++|++||+.||+..|.|+
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~--------~~l~~------~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr   71 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVS--------FHPYL------NQGIALCKYTTREEANKAQMALNNCVLANT   71 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEE--------EEEET------TTTEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEE--------EEEcC------CCcEEEEEECCHHHHHHHHHHhcCCEECCc
Confidence            4678999999999999999999999999998        66654      689999999999999999999999999999


Q ss_pred             eEEEEecc
Q 016532           84 LIGVFIAE   91 (388)
Q Consensus        84 ~I~V~~a~   91 (388)
                      +|.|.+|.
T Consensus        72 ~I~V~~A~   79 (89)
T 2wbr_A           72 TIFAESPS   79 (89)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEECC
Confidence            99999984

>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=99.63  E-value=1e-15  Score=121.95  Aligned_cols=78  Identities=28%  Similarity=0.362  Sum_probs=69.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCc-eeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC-cee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGL-LKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN-KDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~-i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng-~~i   80 (388)
                      .+.++|||+|||+.+|+++|+++|++||. |..        +.|       .+++||||+|.+.++|++||+.||+ ..|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~--------~~~-------~~~g~afV~f~~~~~A~~A~~~l~g~~~~   70 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAG--------QVL-------LKSGYAFVDYPDQNWAIRAIETLSGKVEL   70 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSS--------CEE-------EETTEEEECCSCHHHHHHHHHHHTTTCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEE--------EEE-------cCCCEEEEEECCHHHHHHHHHHccCCeeE
Confidence            46689999999999999999999999999 444        333       2478999999999999999999999 999


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      .|+.|.|.++.++..
T Consensus        71 ~g~~l~v~~a~~~~~   85 (93)
T 2cqh_A           71 HGKIMEVDYSVSKKL   85 (93)
T ss_dssp             TTEECEEEECCCCCC
T ss_pred             CCEEEEEEEccCccc
Confidence            999999999988654

>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=99.63  E-value=7.7e-16  Score=126.55  Aligned_cols=80  Identities=20%  Similarity=0.121  Sum_probs=70.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc--ee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK--DF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~--~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+      ++||||+|.+.++|++||..|++.  .|
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~--------v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~i   78 (104)
T 1wex_A           13 SVSPVVHVRGLCESVVEADLVEALEKFGTICY--------VMMMPF------KRQALVEFENIDSAKECVTFAADVPVYI   78 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEECC------CCEEEEEECCHHHHHHHHHHhccCCceE
Confidence            46789999999999999999999999999988        666643      689999999999999999988654  58


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .|+.|.|.++..+...
T Consensus        79 ~Gr~l~V~~a~~~~~~   94 (104)
T 1wex_A           79 AGQQAFFNYSTSKRIT   94 (104)
T ss_dssp             SSSBCEEEECSSSSCC
T ss_pred             CCEEEEEEEccCcccc
Confidence            9999999999876553

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

Probab=99.63  E-value=5.7e-16  Score=124.02  Aligned_cols=80  Identities=20%  Similarity=0.268  Sum_probs=72.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|+++|++||.|..        |     ..++.++|||||+|.+.++|++||..|++..|.|
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~--------~-----~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   80 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDALEIRL--------V-----SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECC--------E-----EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEE--------e-----CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35689999999999999999999999998865        2     3468899999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        81 ~~l~v~~a~~~~~   93 (96)
T 1fjc_A           81 RSVSLYYTGEKGG   93 (96)
T ss_dssp             EEEEEEECSSSCC
T ss_pred             eEEEEEEcCCCCC
Confidence            9999999987654

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.63  E-value=4e-16  Score=129.33  Aligned_cols=78  Identities=21%  Similarity=0.299  Sum_probs=71.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+.+|+++|+++|++| .|..        |.|+.++. ++++|||||+|.+.++|++|| .|++..|.++.
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~--------v~i~~d~~-g~~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~   84 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDA--------VHLLKDHV-GRNNGNGLVKFLSPQDTFEAL-KRNRMLMIQRY   84 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCE--------EEECCCTT-CCCCSEEEEECSSHHHHHHHH-HTTTEEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeE--------EEEEECCC-CCCCeEEEEEECCHHHHHHHH-hcCCCeECCeE
Confidence            4699999999999999999999999 7766        88999985 999999999999999999999 59999999999


Q ss_pred             EEEEecccC
Q 016532           85 IGVFIAESR   93 (388)
Q Consensus        85 I~V~~a~~~   93 (388)
                      |.|..+..+
T Consensus        85 i~V~~a~~~   93 (109)
T 2dnn_A           85 VEVSPATER   93 (109)
T ss_dssp             EEEEECCHH
T ss_pred             EEEEECCcc
Confidence            999998764

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.63  E-value=1.2e-15  Score=122.79  Aligned_cols=79  Identities=23%  Similarity=0.282  Sum_probs=70.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.+|||+|||+.+|+++|+++|++||.|.         +.|+.+    .+++||||+|.+.++|++||..||+..|.|+
T Consensus        18 ~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~---------~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~   84 (97)
T 2e5j_A           18 LAADVYVGNLPRDARVSDLKRALRELGSVP---------LRLTWQ----GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTD   84 (97)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHHTTCCC---------SEEEEE----TTTTEEEEECSSHHHHHHHHHHHTTCCSSSS
T ss_pred             CCCEEEEeCCCCcCcHHHHHHHHHhcCCEE---------EEEEcC----CCCcEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            468999999999999999999999999985         235543    5789999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus        85 ~l~V~~a~~~~~   96 (97)
T 2e5j_A           85 TLRVALARQQRD   96 (97)
T ss_dssp             CCEEEECCCCCC
T ss_pred             EEEEEEcCCCCC
Confidence            999999987643

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

Probab=99.63  E-value=2.9e-15  Score=120.79  Aligned_cols=77  Identities=29%  Similarity=0.377  Sum_probs=69.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhc--CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTI--GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~--G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++|  |.|..        |.+        +++||||+|.+.++|++||..||+..|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~--------~~~--------~~g~afV~f~~~~~A~~A~~~l~g~~~   76 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVER--------VKK--------IRDYAFVHFSNREDAVEAMKALNGKVL   76 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEE--------EEE--------CSSEEEEEESSHHHHHHHHHHHSSEEE
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEE--------EEE--------eCCeEEEEeCCHHHHHHHHHHhCCCEe
Confidence            467899999999999999999999999  88876        443        357999999999999999999999999


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      .|+.|.|.+++++..
T Consensus        77 ~g~~l~v~~a~~~~~   91 (99)
T 2cpd_A           77 DGSPIEVTLAKPVDK   91 (99)
T ss_dssp             TTEEEEEECCCCCCC
T ss_pred             CCcEEEEEECCCCCC
Confidence            999999999988654

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

Probab=99.62  E-value=1e-15  Score=130.37  Aligned_cols=82  Identities=18%  Similarity=0.271  Sum_probs=72.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHH----HHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            3 MANGSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~----~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .++.+|||+|||+.+++++|+    ++|++||.|..        |.|.   .|+.++|||||+|.+.++|+.||..||+.
T Consensus        27 ~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~--------v~i~---~~~~~rG~aFV~F~~~~~A~~Ai~~lng~   95 (127)
T 2a3j_A           27 EPSQVVLITNINPEVPKEKLQALLYALASSQGDILD--------IVVD---LSDDNSGKAYIVFATQESAQAFVEAFQGY   95 (127)
T ss_dssp             SCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEE--------EEEC---CCCSSCCCEEEEESSHHHHHHHHHHSTTC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEE--------EEec---cCCCcCCEEEEEECCHHHHHHHHHHHCCC
Confidence            356899999999999999876    69999999987        5453   36789999999999999999999999999


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .|.|+.|.|.+|..+..
T Consensus        96 ~l~gr~l~V~~a~~~~~  112 (127)
T 2a3j_A           96 PFQGNPLVITFSETPQS  112 (127)
T ss_dssp             CCTTSCCEEEECCCCCH
T ss_pred             EeCCCEEEEEEccCcch
Confidence            99999999999987643

>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=99.62  E-value=5.3e-16  Score=124.33  Aligned_cols=83  Identities=20%  Similarity=0.337  Sum_probs=74.3

Q ss_pred             CCCCcEEEeccCCCCCCHHHHH----HHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            2 TMANGSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~----~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      ..++.+|||+|||..+++++|+    ++|++||.|..        |.|+.   ++.+++||||+|.+.++|++||..|++
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~--------v~i~~---~~~~~g~afV~f~~~~~A~~A~~~l~g   73 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILD--------ILVSR---SLKMRGQAFVIFKEVSSATNALRSMQG   73 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEE--------EECCH---HHHHTTCEEEEESSHHHHHHHHHHHTT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEE--------EEEEc---CCCcCcEEEEEeCCHHHHHHHHHHhCC
Confidence            3567899999999999999999    99999999987        55553   577899999999999999999999999


Q ss_pred             ceecCceEEEEecccCCC
Q 016532           78 KDFHGNLIGVFIAESRGK   95 (388)
Q Consensus        78 ~~i~Gr~I~V~~a~~~~~   95 (388)
                      ..|.|+.|.|.++.++..
T Consensus        74 ~~~~g~~l~v~~a~~~~~   91 (97)
T 1nu4_A           74 FPFYDKPMRIQYAKTDSD   91 (97)
T ss_dssp             CEETTEECEEEECSSCCT
T ss_pred             CEECCcEEEEEEccCCCc
Confidence            999999999999987653

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

Probab=99.62  E-value=9.5e-16  Score=124.00  Aligned_cols=77  Identities=32%  Similarity=0.454  Sum_probs=71.7

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||+|||+.+|+++|+++|++||.|..        |.|+.+     +++||||+|.+.++|++||..|++..|.|+.|
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l   67 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRT--------VWIARN-----PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRV   67 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSE--------EEEESS-----SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeeC-----CCCEEEEEECCHHHHHHHHHHHCCCeECCcEE
Confidence            58999999999999999999999999987        778776     67999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.++.++..
T Consensus        68 ~V~~a~~~~~   77 (101)
T 2hvz_A           68 RVELSTGMPR   77 (101)
T ss_dssp             EEEESSSCCC
T ss_pred             EEEEccCCCC
Confidence            9999988764

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.62  E-value=1e-15  Score=127.39  Aligned_cols=79  Identities=18%  Similarity=0.245  Sum_probs=69.2

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ...+|||+|||+++|+++|+++|++|| .|..        |.|+.    ..++|||||+|.+.++|++||+.||+..|.|
T Consensus        27 ~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~--------v~i~~----~~~rGfaFV~F~~~e~A~~Ai~~lng~~l~G   94 (111)
T 2jvr_A           27 KRYRITMKNLPEGCSWQDLKDLARENSLETTF--------SSVNT----RDFDGTGALEFPSEEILVEALERLNNIEFRG   94 (111)
T ss_dssp             CCEEEEEECSSCCCCHHHHHHHHHHHTCCCSE--------EECSS----CSSSCCEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCeeEE--------EEEEc----CCCCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            456999999999999999999999999 7876        54543    3478999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++...+
T Consensus        95 r~i~V~~a~~~p  106 (111)
T 2jvr_A           95 SVITVERDDNPP  106 (111)
T ss_dssp             EEEEEEESCC--
T ss_pred             eEEEEEECCCCC
Confidence            999999997643

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

Probab=99.62  E-value=1e-15  Score=137.35  Aligned_cols=82  Identities=24%  Similarity=0.380  Sum_probs=77.4

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++++|||+|||+.+|+++|+++|++||.|..        |.|+.++ |+.+++||||+|.+.++|++||..|++..|.|+
T Consensus        87 ~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~--------v~i~~d~-~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr  157 (177)
T 2f3j_A           87 TGAKLLVSNLDFGVSDADIQELFAEFGTLKK--------AAVDYDR-SGRSLGTADVHFERRADALKAMKQYKGVPLDGR  157 (177)
T ss_dssp             TCEEEEEECCCSCCCHHHHHHHHHHTSCCSE--------EEECCCT-TSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEEECC-CCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCE
Confidence            4679999999999999999999999999988        8899998 899999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+|....
T Consensus       158 ~l~V~~a~~~~  168 (177)
T 2f3j_A          158 PMDIQLVASQI  168 (177)
T ss_dssp             BCEEEEESSGG
T ss_pred             EEEEEEecCCC
Confidence            99999998654

>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=99.62  E-value=1.5e-15  Score=122.48  Aligned_cols=79  Identities=23%  Similarity=0.303  Sum_probs=71.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+      ++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------v~~~~~------kg~afV~f~~~~~a~~a~~~l~g~~~~g   78 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGE--------VFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRG   78 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCSE--------EEEETT------TTEEEEECSSSHHHHHHHHHHTTCCBTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEE--------EEEecC------CCEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            45679999999999999999999999999987        667643      6899999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        79 ~~l~v~~a~~~~~   91 (99)
T 2cpj_A           79 KQLRVRFACHSAS   91 (99)
T ss_dssp             BCCEEEESSCCSC
T ss_pred             ceEEEEEcCCCCC
Confidence            9999999988654

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

Probab=99.62  E-value=2e-15  Score=138.40  Aligned_cols=84  Identities=25%  Similarity=0.338  Sum_probs=78.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.++|||+|||+++|+++|+++|++||.|..        |+|++++.|+.++|||||+|.+.++|++||..|++..+.+
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~--------v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g   84 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILS--------IRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKG   84 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEE--------EEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCC
Confidence            35689999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++....
T Consensus        85 ~~i~~~~~~~~~   96 (213)
T 4f02_A           85 KPVRIMWSQRDP   96 (213)
T ss_dssp             EECEEEECCCCT
T ss_pred             cccccccccccc
Confidence            999999887543

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

Probab=99.61  E-value=2.6e-15  Score=119.01  Aligned_cols=77  Identities=23%  Similarity=0.233  Sum_probs=70.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+.+|++||.|..        |.|+        ++||||+|.+.++|++||..|++..|.|
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------~~~~--------~~~afV~f~~~~~a~~A~~~l~g~~~~g   70 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERRGRVIE--------CDVV--------KDYAFVHMEKEADAKAAIAQLNGKEVKG   70 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHHSCEEE--------EEEC--------SSCEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEE--------EEEE--------CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999987        6665        3499999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus        71 ~~l~v~~a~~~~~   83 (90)
T 2dnp_A           71 KRINVELSTKGQK   83 (90)
T ss_dssp             EECEEEESCCCCC
T ss_pred             cEEEEEECCCCCC
Confidence            9999999988644

>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=99.61  E-value=1.8e-16  Score=137.12  Aligned_cols=81  Identities=19%  Similarity=0.329  Sum_probs=73.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+++|+++|+++|++|| |..        |.|+.++. ++++|||||+|.+.++|++|| .+++..|.++
T Consensus        45 ~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~--------v~i~~d~~-g~srGfaFV~F~~~e~A~~Al-~~~g~~l~gR  113 (139)
T 2hgn_A           45 TGHCVHMRGLPYKATENDIYNFFSPLN-PVR--------VHIEIGPD-GRVTGEADVEFATHEEAVAAM-SKDRANMQHR  113 (139)
T ss_dssp             CCCCEECCSCCTTCCHHHHHHHHCSCC-CSE--------EECCCSSS-SCSSCCCEEECSHHHHHHHHT-TCCSCSSSSC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcC-CeE--------EEEEECCC-CCCceEEEEEeCCHHHHHHHH-hhCCCEECCE
Confidence            457999999999999999999999999 555        88999986 999999999999999999999 6999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.+...
T Consensus       114 ~i~V~~a~~~~~  125 (139)
T 2hgn_A          114 YIELFLNSTTGA  125 (139)
T ss_dssp             CCCCEECCCSCC
T ss_pred             EEEEEECCCCCC
Confidence            999999887543

>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=99.61  E-value=3.1e-15  Score=120.82  Aligned_cols=77  Identities=14%  Similarity=0.279  Sum_probs=70.2

Q ss_pred             CCCCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            2 TMANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         2 ~~~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      ..++.+|||+|||+ .+++++|+++|++||.|..        |.|        ++|||||+|.+.++|++||..|++..|
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~--------v~i--------~~g~afV~f~~~~~A~~Ai~~l~g~~~   82 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--------INI--------KNAFGFIQFDNPQSVRDAIEXESQEMN   82 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEE--------EEE--------CSSEEEEEESSHHHHHHHHHHHTTSEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEE--------EEE--------eCCEEEEEECCHHHHHHHHHHcCCCEE
Confidence            35688999999998 9999999999999999987        555        268999999999999999999999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .|+.|.|++++++.
T Consensus        83 ~g~~l~V~~a~~~~   96 (97)
T 2xnq_A           83 FGKKLILEVSSSNA   96 (97)
T ss_dssp             TTEECEEEECCCCC
T ss_pred             CCEEEEEEecCCCC
Confidence            99999999997753

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

Probab=99.61  E-value=1.3e-15  Score=123.20  Aligned_cols=76  Identities=22%  Similarity=0.326  Sum_probs=69.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+|||..+|+++|+.+|++||.|..        |.|+      .+++||||+|.+.++|++||..|++..|.|+
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~--------~~~~------~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   91 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNFGFILD--------FKHY------PEKGCCFIKYDTHEQAAVCIVALANFPFQGR   91 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTTSCCSE--------EEEE------TTTTEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhCCCEEE--------EEEe------cCCCEEEEEECCHHHHHHHHHHhCCCeECCe
Confidence            4679999999999999999999999999987        6666      3579999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.+++++
T Consensus        92 ~l~V~~a~~~  101 (101)
T 2la4_A           92 NLRTGWGKER  101 (101)
T ss_dssp             ECCCCBCCCC
T ss_pred             EEEEEeccCC
Confidence            9999998763

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

Probab=99.61  E-value=1.6e-15  Score=121.90  Aligned_cols=77  Identities=14%  Similarity=0.288  Sum_probs=70.3

Q ss_pred             CCCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||+ .+|+++|..+|++||.|..        |.|.        ++||||+|.+.++|+.||..|++..|.
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~--------v~i~--------~g~afV~f~~~~~A~~A~~~l~g~~~~   71 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQ--------INIK--------NAFGFIQFDNPQSVRDAIECESQEMNF   71 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCE--------EEEE--------TTEEEEEESCHHHHHHHHHHHTCSSCB
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEE--------EEEe--------CCEEEEEECCHHHHHHHHHHcCCCeeC
Confidence            4678999999998 9999999999999999988        5552        689999999999999999999999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      |+.|.|.++.+...
T Consensus        72 g~~l~V~~a~~~~~   85 (96)
T 2kvi_A           72 GKKLILEVSSSNAR   85 (96)
T ss_dssp             TTTBCEEEEECCCC
T ss_pred             CcEEEEEEcCcCCC
Confidence            99999999987654

>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=99.61  E-value=2.5e-15  Score=124.33  Aligned_cols=81  Identities=23%  Similarity=0.370  Sum_probs=73.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|..+|++||.|..        |.|+.+.   .++|||||+|.+.++|++||..||+..|.|
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------v~i~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   74 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQ--------IRVGNTP---ETRGTAYVVYEDIFDAKNAVDHLSGFNVSN   74 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEECST---TTTTCEEEEESSHHHHHHHHHHHTTCBSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEeeCC---CCCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35789999999999999999999999999998        7787654   468999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.+..
T Consensus        75 ~~l~v~~a~~~~   86 (115)
T 3lqv_A           75 RYLVVLYYNANR   86 (115)
T ss_dssp             CBCEEEECCHHH
T ss_pred             eEEEEEEecCCh
Confidence            999999998654

>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=99.61  E-value=3.7e-16  Score=128.30  Aligned_cols=82  Identities=12%  Similarity=0.184  Sum_probs=75.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCc---eeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGL---LKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~---i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      .+..+|||+|||+++|+++|+++|+.||.   |..        |.|+.++. +.++|||||+|.+.++|++||. |++..
T Consensus         9 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~--------v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~-~~~~~   78 (107)
T 2lmi_A            9 DDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENG--------IHFLLNRD-GKRRGDALIEMESEQDVQKALE-KHRMY   78 (107)
T ss_dssp             SSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTT--------EECCCCTT-STTCSEEEEEBSSHHHHHHHHT-TTTCC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcce--------EEEEECCC-CCEeeEEEEEECCHHHHHHHHH-hCcce
Confidence            35679999999999999999999999998   666        88999987 9999999999999999999999 99999


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.++.|.|.++.++.
T Consensus        79 ~~gr~i~V~~a~~~~   93 (107)
T 2lmi_A           79 MGQRYVEVYEINNED   93 (107)
T ss_dssp             SSSSCCCCEECCHHH
T ss_pred             eCCeEEEEEECCHHH
Confidence            999999999988654

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

Probab=99.60  E-value=2.6e-15  Score=123.76  Aligned_cols=77  Identities=29%  Similarity=0.448  Sum_probs=70.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+        +|||||+|.+.++|++||..|++..|.|
T Consensus        29 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~--------v~i~--------kg~afV~f~~~~~A~~Ai~~l~g~~~~g   92 (108)
T 2jvo_A           29 LSNTRLFVRPFPLDVQESELNEIFGPFGPMKE--------VKIL--------NGFAFVEFEEAESAAKAIEEVHGKSFAN   92 (108)
T ss_dssp             CSCSEEEECSSCTTCCHHHHHHHHTTTSCCCE--------EEEE--------TTEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEE--------EEEE--------CCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            46789999999999999999999999999987        6665        6899999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        93 ~~l~V~~a~~~~~  105 (108)
T 2jvo_A           93 QPLEVVYSKLPAK  105 (108)
T ss_dssp             EECEEESCSCCC-
T ss_pred             eEEEEEEecCCCC
Confidence            9999999987654

>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=99.60  E-value=3.2e-15  Score=122.96  Aligned_cols=76  Identities=24%  Similarity=0.271  Sum_probs=69.1

Q ss_pred             CCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.+|||+|||+. +|+++|+++|++||.|..        |.|        +++||||+|.+.++|++||..|++..|.|
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~--------v~i--------~~g~afV~f~~~~~A~~A~~~l~g~~~~g   89 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAG--------CSV--------HKGYAFVQYSNERHARAAVLGENGRVLAG   89 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSE--------EEE--------ETTEEEEECSSSHHHHHHHHHHTTCEETT
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEE--------EEE--------eCCEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            3479999999999 999999999999999988        555        57999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.....
T Consensus        90 ~~l~V~~a~~~~~  102 (110)
T 1wf1_A           90 QTLDINMAGEPKP  102 (110)
T ss_dssp             EECCEEESCCCCS
T ss_pred             eEEEEEECCCCCC
Confidence            9999999986443

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.60  E-value=9.9e-16  Score=129.72  Aligned_cols=84  Identities=17%  Similarity=0.197  Sum_probs=73.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCcee--ecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLK--KDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~--~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .+..+|||+|||+++|+++|+++|++||.|.  ...      |.|+.++ |++++|||||+|.+.++|++||.. ++..|
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~------v~i~~d~-~gr~~G~aFV~F~~~~~A~~Al~~-~~~~l   92 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEG------ILFVTYP-DGRPTGDAFVLFACEEYAQNALRK-HKDLL   92 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGG------EEEEECT-TSCEEEEEEECCSSHHHHHHHHTT-TTEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcce------EEEEECC-CCCEeeEEEEEECCHHHHHHHHHh-CCCee
Confidence            3568999999999999999999999999863  111      8898885 899999999999999999999995 99999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .++.|.|..+..+.
T Consensus        93 ~gR~i~V~~a~~~e  106 (123)
T 2dha_A           93 GKRYIELFRSTAAE  106 (123)
T ss_dssp             SSCEECCEEECHHH
T ss_pred             CCeEEEEEECCHHH
Confidence            99999999987643

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

Probab=99.60  E-value=2.6e-15  Score=120.10  Aligned_cols=79  Identities=27%  Similarity=0.315  Sum_probs=71.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||+.+|+++|+.+|++||.|..          |+.++.|+.   ||||+|.+.++|++||. |++..|.|
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~----------v~~~~~~g~---~afV~f~~~~~a~~ai~-l~g~~~~g   71 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVAS----------VVMDKDKGV---FAIVEMGDVGAREAVLS-QSQHSLGG   71 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEE----------EEECSSSCC---EEEEEESSHHHHHHHHT-CSCCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEE----------EEEcCCCCc---EEEEEECCHHHHHHHHh-cCCeEECC
Confidence            35679999999999999999999999999987          477777766   99999999999999999 99999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        72 ~~l~V~~a~~~~~   84 (94)
T 2e5g_A           72 HRLRVRPREQKEF   84 (94)
T ss_dssp             EECCCBCSCCSCC
T ss_pred             EEEEEEECCcCCC
Confidence            9999998876544

>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=99.60  E-value=4.4e-15  Score=128.77  Aligned_cols=83  Identities=28%  Similarity=0.387  Sum_probs=78.4

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++++|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.++++|++||..|++..|.++
T Consensus         1 s~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~--------v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~   72 (167)
T 1fxl_A            1 SKTNLIVNYLPQNMTQEEFRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTK   72 (167)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CcceEEEcCCCCCCCHHHHHHHHHhcCCeEE--------EEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCc
Confidence            3689999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.++.+..
T Consensus        73 ~l~v~~~~~~~   83 (167)
T 1fxl_A           73 TIKVSYARPSS   83 (167)
T ss_dssp             ECEEEECCCCC
T ss_pred             eEEEEecCCCc
Confidence            99999987654

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

Probab=99.60  E-value=1.2e-15  Score=123.70  Aligned_cols=82  Identities=23%  Similarity=0.320  Sum_probs=75.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+.+|+++|.++|++||.|..        |.|+.++ ++.++|||||+|.+.++|++||.  ++..|.|+
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~-~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~   76 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARYGSVKE--------VKIITDR-TGVSKGYGFVSFYNDVDVQKIVE--SQINFHGK   76 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EEEEECT-TSCEEEEEEEEESSCCCHHHHTT--CCCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCeEE--------EEEEECC-CCCccceEEEEECCHHHHHHHHh--CCCeECCE
Confidence            4679999999999999999999999999988        8899998 89999999999999999999998  99999999


Q ss_pred             eEEEEecccCCCC
Q 016532           84 LIGVFIAESRGKD   96 (388)
Q Consensus        84 ~I~V~~a~~~~~~   96 (388)
                      .|.|.++.++...
T Consensus        77 ~l~v~~a~~~~~~   89 (102)
T 2xs2_A           77 KLKLGPAIRKQNL   89 (102)
T ss_dssp             ECEEEEEEECC--
T ss_pred             EEEEEECCcCcch
Confidence            9999999876543

>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=99.60  E-value=2.8e-15  Score=117.12  Aligned_cols=75  Identities=20%  Similarity=0.181  Sum_probs=68.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh-CCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF-NNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l-ng~~i~   81 (388)
                      .++.+|||+|||..+|+++|+++|++||.|..        |.|+.      +++||||+|.+.++|++||..| ++..|.
T Consensus        10 ~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~--------~~~~~------~kg~afV~f~~~~~A~~a~~~l~~~~~~~   75 (85)
T 2ytc_A           10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRT--------ITVVQ------RQQCAFIQFATRQAAEVAAEKSFNKLIVN   75 (85)
T ss_dssp             SSCCCEEEECCTTTSCHHHHHHHHHTTSCEEE--------EEEEG------GGTEEEEEESSHHHHHHHHHTTTTTCEET
T ss_pred             CCccEEEEcCCCCCCCHHHHHHHHHhCCCEeE--------EEEEC------CCCEEEEEECCHHHHHHHHHHhcCCeeEC
Confidence            45679999999999999999999999999988        66775      3689999999999999999988 999999


Q ss_pred             CceEEEEecc
Q 016532           82 GNLIGVFIAE   91 (388)
Q Consensus        82 Gr~I~V~~a~   91 (388)
                      |+.|.|.+|+
T Consensus        76 g~~l~v~~ak   85 (85)
T 2ytc_A           76 GRRLNVKWGR   85 (85)
T ss_dssp             TEECCEEECC
T ss_pred             CCEEEEEecC
Confidence            9999999974

>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=99.60  E-value=1.1e-15  Score=131.54  Aligned_cols=90  Identities=23%  Similarity=0.215  Sum_probs=73.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|..+|++||.|..+...   .+.-+....|+.++|||||+|.+.++|++||..||+..|.|
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~---~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g  119 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQR---IMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFG  119 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHH---HHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccc---ceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCC
Confidence            367899999999999999999999999998752100   00012223468899999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|++...
T Consensus       120 ~~l~V~~a~~~~~  132 (143)
T 3egn_A          120 KPMVVQFARSARP  132 (143)
T ss_dssp             EECEEEECCCSCC
T ss_pred             cEEEEEECCCCCC
Confidence            9999999987543

>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=3.1e-15  Score=130.25  Aligned_cols=83  Identities=23%  Similarity=0.290  Sum_probs=78.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++++|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.++
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~   73 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINT--------CRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNK   73 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeE--------EEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCc
Confidence            5789999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.++.+..
T Consensus        74 ~l~v~~~~~~~   84 (168)
T 1b7f_A           74 RLKVSYARPGG   84 (168)
T ss_dssp             ECEEEECCCCS
T ss_pred             EEEEEecCCCc
Confidence            99999998654

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

Probab=99.59  E-value=6.2e-15  Score=127.69  Aligned_cols=82  Identities=17%  Similarity=0.231  Sum_probs=77.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|.++|++||.|..        |.|+.++.++.++|||||+|.+.++|++||..||+..|.|
T Consensus        85 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  156 (166)
T 3md3_A           85 DDTFNLFVGDLNVNVDDETLRNAFKDFPSYLS--------GHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNG  156 (166)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHTTSTTEEE--------EEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCceEEECCCCCCCCHHHHHHHHhccCCeeE--------EEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCC
Confidence            35679999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.+|+.
T Consensus       157 ~~i~v~~a~~  166 (166)
T 3md3_A          157 RPLRINWAAK  166 (166)
T ss_dssp             EECEEEESCC
T ss_pred             cEEEEEecCC
Confidence            9999999863

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

Probab=99.59  E-value=3.2e-15  Score=119.59  Aligned_cols=79  Identities=16%  Similarity=0.180  Sum_probs=71.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeE-EEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKV-WLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V-~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.+|||+|||+.+|+++|+.+|++||.|..        | .|+.++.++.    |||+|.+.++|++||..||+..|.|
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~--------~~~i~~~~~~~~----afV~f~~~~~a~~Ai~~l~g~~~~g   81 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVES--------CEQVNTDSETAV----VNVTYSSKDQARQALDKLNGFQLEN   81 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEE--------EEEECCSSSSEE----EEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEE--------EEEeecCCCCCE----EEEEECCHHHHHHHHHHhCCCEECC
Confidence            4679999999999999999999999999988        7 4777776543    9999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.++.
T Consensus        82 ~~l~V~~a~~~~   93 (96)
T 2e44_A           82 FTLKVAYIPDEM   93 (96)
T ss_dssp             CBCEEEECCCCC
T ss_pred             cEEEEEEcCccc
Confidence            999999998863

>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=99.58  E-value=2.8e-15  Score=124.09  Aligned_cols=77  Identities=25%  Similarity=0.223  Sum_probs=69.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+|||+.+|+++|+++|++||.|..        |.|+.      +++||||+|.+.++|+.||..||+..|.++
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~--------v~i~~------~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~   74 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGR--------VLLPE------GGITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCS------SSSCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEE--------EEEeC------CCCEEEEEeCCHHHHHHHHHHhCCCEECCe
Confidence            4579999999999999999999999999987        55543      568999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+|....
T Consensus        75 ~l~V~~a~~~~   85 (111)
T 1whx_A           75 PLYLEWAPIGV   85 (111)
T ss_dssp             BCEEEEEETTT
T ss_pred             EEEEEECCCCc
Confidence            99999997643

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

Probab=99.58  E-value=9.1e-15  Score=132.60  Aligned_cols=84  Identities=27%  Similarity=0.337  Sum_probs=79.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||..+|+++|.++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||..||+..|.|+
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~  195 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKS--------ATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQ  195 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSS
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeE--------EEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCc
Confidence            4579999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.++.++..
T Consensus       196 ~i~V~~a~~~~~  207 (216)
T 2qfj_A          196 YLRVGKAVTPPM  207 (216)
T ss_dssp             BCEEEECSSCSS
T ss_pred             EEEEEEecCCCC
Confidence            999999988754

>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=99.58  E-value=4.2e-15  Score=128.93  Aligned_cols=79  Identities=30%  Similarity=0.459  Sum_probs=72.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|+++|++||.|..        |.|+.+     ++|||||+|.+.++|+.||..||+..|.|
T Consensus        71 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~--------v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g~~~~g  137 (150)
T 2i2y_A           71 PLDCKVYVGNLGNNGNKTELERAFGYYGPLRS--------VWVARN-----PPGFAFVEFEDPRDAADAVRELDGRTLCG  137 (150)
T ss_dssp             TTSCEEEEESCCSCCSCHHHHHHHHHHSCEEE--------EEECSS-----SCSEEEEEESSHHHHHHHHHHHSSSCSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEE--------EEEeeC-----CCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35689999999999999999999999999988        777765     57999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++.++.
T Consensus       138 ~~l~v~~a~~~~  149 (150)
T 2i2y_A          138 CRVRVELSNGEK  149 (150)
T ss_dssp             SCCEEEECCCCC
T ss_pred             eEEEEEEcCCCC
Confidence            999999998753

>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=99.57  E-value=3.8e-15  Score=124.10  Aligned_cols=80  Identities=24%  Similarity=0.273  Sum_probs=70.4

Q ss_pred             CCCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC--Cce
Q 016532            3 MANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN--NKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln--g~~   79 (388)
                      .++.+|||+|||++ +|+++|+++|++||.|..        |.|++      +++||||+|.+.++|++||+.|+  +..
T Consensus        23 ~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~--------v~i~~------~kg~aFVef~~~~~A~~Ai~~l~~~~~~   88 (112)
T 1x4f_A           23 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKN--------YILMR------MKSQAFIEMETREDAMAMVDHCLKKALW   88 (112)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSE--------EEEET------TTTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEE--------EEEec------CCCEEEEEECCHHHHHHHHHHhccCCce
Confidence            46789999999998 999999999999999988        66763      46999999999999999999886  456


Q ss_pred             ecCceEEEEecccCCCC
Q 016532           80 FHGNLIGVFIAESRGKD   96 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~~~   96 (388)
                      |.|+.|.|.+|+.+...
T Consensus        89 l~Gr~l~V~~a~~~~~~  105 (112)
T 1x4f_A           89 FQGRCVKVDLSEKYKKL  105 (112)
T ss_dssp             SSSSCCEEEEECSCSSS
T ss_pred             ECCEEEEEEECcccccc
Confidence            99999999999876543

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

Probab=99.57  E-value=4.9e-15  Score=125.72  Aligned_cols=79  Identities=14%  Similarity=0.135  Sum_probs=71.3

Q ss_pred             CcEEEeccC----CCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCC----HHH----HHHHH
Q 016532            5 NGSVYVCNL----PHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED----PHA----ALAAV   72 (388)
Q Consensus         5 ~~tlfV~nL----p~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s----~e~----A~~Ai   72 (388)
                      +++|||+||    |+.|++.+|+.+|++||.|.+        |.++.|+.||.|+|||||+|.+    +++    |.+||
T Consensus         2 p~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~--------~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi   73 (136)
T 2j8a_A            2 SCEIVVYPAQDSTTTNIQDISIKNYFKKYGEISH--------FEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAV   73 (136)
T ss_dssp             CCEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSE--------EEEEECTTTCCEEEEEEEECC------CCHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEE--------EEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHH
Confidence            378999999    999999999999999999998        8899999999999999999996    333    78888


Q ss_pred             H--HhCCceecCceEEEEecc
Q 016532           73 E--WFNNKDFHGNLIGVFIAE   91 (388)
Q Consensus        73 ~--~lng~~i~Gr~I~V~~a~   91 (388)
                      .  .|++..|+|+.|.|.+..
T Consensus        74 ~~~~lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           74 RKHESSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             HHTTTTCEEETTEEEEEEECC
T ss_pred             HHhhhcCCeecCcEEEEEECc
Confidence            8  789999999999999864

>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=99.57  E-value=4.8e-15  Score=123.39  Aligned_cols=75  Identities=24%  Similarity=0.295  Sum_probs=64.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+++|+++|+++|++||.|..        |.|+.+       +||||+|.+.++|++||+.||+..|.|+
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g~~~~gr   79 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCY--------ADVYRD-------GTGVVEFVRKEDMTYAVRKLDNTKFRSH   79 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEE--------EEECTT-------SEEEEEESSHHHHHHHHHHHTTCBCCCT
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEE--------EEEecC-------CEEEEEECCHHHHHHHHHHhCCCEECCc
Confidence            4579999999999999999999999999988        667654       8999999999999999999999999998


Q ss_pred             e-----EEEEecccC
Q 016532           84 L-----IGVFIAESR   93 (388)
Q Consensus        84 ~-----I~V~~a~~~   93 (388)
                      .     |.|..+.++
T Consensus        80 ~~~~~~i~v~~~~~~   94 (115)
T 3beg_B           80 EGETAYIRVKVDGPR   94 (115)
T ss_dssp             TSCCCBCEEEECC--
T ss_pred             EeeeEEEEeccCCCC
Confidence            8     666666554

>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=99.57  E-value=6.4e-15  Score=116.44  Aligned_cols=77  Identities=21%  Similarity=0.270  Sum_probs=69.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||+.+++++|+++|++| .|..        |.|.      .++|||||+|.+.++|++||..||+..|.|
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~--------~~i~------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   67 (88)
T 1wg1_A            3 SGSSGILVKNLPQDSNCQEVHDLLKDY-DLKY--------CYVD------RNKRTAFVTLLNGEQAQNAIQMFHQYSFRG   67 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSS-CCCC--------EEEE------GGGTEEEECCSCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CeEE--------EEEe------CCCcEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            356799999999999999999999999 8877        5563      578999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|+++....
T Consensus        68 ~~l~V~~a~~~~   79 (88)
T 1wg1_A           68 KDLIVQLQPTDA   79 (88)
T ss_dssp             EEEEEEECCCCC
T ss_pred             cEEEEEEcCCCc
Confidence            999999987654

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

Probab=99.57  E-value=2.1e-14  Score=115.35  Aligned_cols=78  Identities=22%  Similarity=0.195  Sum_probs=69.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+||  .+|+++|+++|++||.|..        |.|.      .+++||||+|.+.++|++||..|++..|.|
T Consensus        13 ~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~--------v~i~------~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   76 (97)
T 1x5p_A           13 RKGNTLYVYGE--DMTPTLLRGAFSPFGNIID--------LSMD------PPRNCAFVTYEKMESADQAVAELNGTQVES   76 (97)
T ss_dssp             CCCSEEEEECS--SCCHHHHHHHHTTTSCEEE--------EEEE------TTTTEEEEEESSHHHHHHHHHHTTTEEETT
T ss_pred             CCCCEEEEcCC--CCCHHHHHHHHhhCCCEEE--------EEec------CCCCEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            35689999996  8999999999999999987        5563      467999999999999999999999999999


Q ss_pred             ceEEEEecccCCCC
Q 016532           83 NLIGVFIAESRGKD   96 (388)
Q Consensus        83 r~I~V~~a~~~~~~   96 (388)
                      +.|.|.++.++...
T Consensus        77 ~~l~v~~a~~~~~~   90 (97)
T 1x5p_A           77 VQLKVNIARKQPML   90 (97)
T ss_dssp             EEEEEECCSSCCCC
T ss_pred             eEEEEEECCCCCCC
Confidence            99999999887553

>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=99.57  E-value=2.1e-15  Score=128.30  Aligned_cols=79  Identities=20%  Similarity=0.330  Sum_probs=71.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCcee--ecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLK--KDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~--~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +..+|||+|||+++|+++|+++|++| .|.  .        |.|+.++. ++++|||||+|.+.++|++||. +++..|.
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~--------v~i~~d~~-GrsrGfaFV~F~~~e~A~~Al~-~~~~~l~  109 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNG--------ITLPVDPE-GKITGEAFVQFASQELAEKALG-KHKERIG  109 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEE--------EECCCCSS-SSSCSEEEEEESSTTHHHHHHT-TTTCCBT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeE--------EEEEECCC-CCCceEEEEEECCHHHHHHHHH-HCCCEEC
Confidence            46799999999999999999999999 455  4        88999987 9999999999999999999998 5779999


Q ss_pred             CceEEEEecccC
Q 016532           82 GNLIGVFIAESR   93 (388)
Q Consensus        82 Gr~I~V~~a~~~   93 (388)
                      ++.|.|.++..+
T Consensus       110 gR~I~V~~a~~~  121 (126)
T 2hgm_A          110 HRYIEVFKSSQE  121 (126)
T ss_dssp             TBCCCCEEECHH
T ss_pred             CEEEEEEECCHH
Confidence            999999998654

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

Probab=99.56  E-value=1.4e-14  Score=129.63  Aligned_cols=85  Identities=24%  Similarity=0.263  Sum_probs=79.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||..+|+++|.++|++||.|..        |.|+.++.++.++|||||+|.+.++|++||..|++..|.|
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~--------~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  183 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGD  183 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEE--------EEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccE--------EEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            35689999999999999999999999999988        8899999899999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus       184 ~~l~v~~a~~~~~  196 (198)
T 2yh0_A          184 KKLLVQRASVGAK  196 (198)
T ss_dssp             EECEEEESCCCCC
T ss_pred             EEEEEEECCCCCC
Confidence            9999999988654

>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=99.56  E-value=5.1e-15  Score=128.91  Aligned_cols=81  Identities=25%  Similarity=0.340  Sum_probs=76.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||..+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ +++..|.|+
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~--------~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~  156 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIID--------AQLMLDKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDR  156 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTSCCSE--------EECCCSSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSS
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCccEEE--------EEEEEcCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCe
Confidence            3568999999999999999999999999988        7899999899999999999999999999998 899999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.+|.++
T Consensus       157 ~i~V~~a~pk  166 (167)
T 2cjk_A          157 KIEIKRAEPR  166 (167)
T ss_dssp             CEEEEECCCC
T ss_pred             EEEEeecCCC
Confidence            9999999876

>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=99.55  E-value=1.3e-14  Score=126.98  Aligned_cols=79  Identities=24%  Similarity=0.284  Sum_probs=75.7

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||..+|+++|.++|++||.|..        |.|+.++.++.++|||||+|.+.++|++||..||+..|.|+.
T Consensus        94 ~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~  165 (172)
T 2g4b_A           94 AHKLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKK  165 (172)
T ss_dssp             TTCEEEECCCTTCCHHHHHHHHHTTSCEEE--------EEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEEcCCCcCCHHHHHHHHHhcCCceE--------EEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeE
Confidence            579999999999999999999999999988        889999989999999999999999999999999999999999


Q ss_pred             EEEEecc
Q 016532           85 IGVFIAE   91 (388)
Q Consensus        85 I~V~~a~   91 (388)
                      |.|.+|.
T Consensus       166 l~V~~As  172 (172)
T 2g4b_A          166 LLVQRAS  172 (172)
T ss_dssp             CEEEECC
T ss_pred             EEEEeCC
Confidence            9999873

>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=99.55  E-value=1.3e-14  Score=129.50  Aligned_cols=85  Identities=21%  Similarity=0.288  Sum_probs=75.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||.. ++..|.|+
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~  173 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGH  173 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTE
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEE--------EEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCcEECCE
Confidence            4579999999999999999999999999998        88999999999999999999999999999985 79999999


Q ss_pred             eEEEEecccCCCCC
Q 016532           84 LIGVFIAESRGKDD   97 (388)
Q Consensus        84 ~I~V~~a~~~~~~~   97 (388)
                      .|.|.+|.++....
T Consensus       174 ~i~v~~a~~k~~~~  187 (196)
T 1l3k_A          174 NCEVRKALSKQEMA  187 (196)
T ss_dssp             ECEEEECC------
T ss_pred             EEEEEecCChhHhc
Confidence            99999999876543

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

Probab=99.55  E-value=4.5e-15  Score=135.99  Aligned_cols=81  Identities=26%  Similarity=0.289  Sum_probs=74.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+.+|+++|.++|++||.|..        |.|+.++  +.++|||||+|.+.++|++||+.||+..|.|+
T Consensus       102 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~--------~~i~~d~--~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~  171 (213)
T 4f02_A          102 GVGNIFIKNLDKSIDNKALYDTFSAFGNILS--------CKVVCDE--NGSKGYGFVHFETQEAAERAIEKMNGMLLNDR  171 (213)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEEET--TEEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             ccccceECCcccccHHHHHHHHHhhcCCeEE--------EEeeccC--CCCceEEEEEeCCHHHHHHHHHHhCCCEECCE
Confidence            3568999999999999999999999999998        7788886  45899999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+|.++.
T Consensus       172 ~i~V~~a~~~~  182 (213)
T 4f02_A          172 KVFVGRFKSRK  182 (213)
T ss_dssp             ECEEEECCCHH
T ss_pred             EEEEEEcCCCc
Confidence            99999998754

>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=99.55  E-value=1.6e-14  Score=128.99  Aligned_cols=82  Identities=23%  Similarity=0.272  Sum_probs=75.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||.. ++..|.|+
T Consensus        12 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~   82 (196)
T 1l3k_A           12 QLRKLFIGGLSFETTDESLRSHFEQWGTLTD--------CVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGR   82 (196)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCE
Confidence            4679999999999999999999999999998        88999999999999999999999999999985 88999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.++.+..
T Consensus        83 ~l~v~~~~~~~   93 (196)
T 1l3k_A           83 VVEPKRAVSRE   93 (196)
T ss_dssp             ECEEEECCC--
T ss_pred             EeeeecccCcc
Confidence            99999987654

>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=99.53  E-value=1.7e-14  Score=120.50  Aligned_cols=79  Identities=18%  Similarity=0.153  Sum_probs=69.3

Q ss_pred             CCCcEEEe--ccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYV--CNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV--~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .++.+|||  +||++.+|+++|+++|++||.|..        |.|+.      .++||||+|.+.++|++||+.|||..|
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~--------v~i~~------~rgfaFV~f~~~~~A~~Ai~~lnG~~~   88 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDA--------LLMPP------NKPYSFARYRTTEESKRAYVTLNGKEV   88 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEE--------EECCT------TCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEE--------EEEeC------CCCEEEEEECCHHHHHHHHHHhCCCEE
Confidence            46789999  779999999999999999999987        55542      368999999999999999999999988


Q ss_pred             -----cCceEEEEecccCCC
Q 016532           81 -----HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 -----~Gr~I~V~~a~~~~~   95 (388)
                           .+.+|.|.++...+.
T Consensus        89 ~~~lg~g~~l~v~~a~~~p~  108 (114)
T 2cq2_A           89 VDDLGQKITLYLNFVEKVQW  108 (114)
T ss_dssp             ECTTSCEEECEEEEESCCCC
T ss_pred             ccccCCCcEEEEEecccCcc
Confidence                 688999999986554

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

Probab=99.53  E-value=4.1e-14  Score=120.84  Aligned_cols=76  Identities=18%  Similarity=0.209  Sum_probs=68.6

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccE-EEEEeCCHHHHHHHHHHhCCceecC--c
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGD-ATVTYEDPHAALAAVEWFNNKDFHG--N   83 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~-aFVeF~s~e~A~~Ai~~lng~~i~G--r   83 (388)
                      .|||+||++.+|+++|.++|++||.|..        |.|+..     +++| |||+|.+.++|+.||+.|||..|.+  .
T Consensus        30 ~I~V~NL~~~vte~~L~~lFs~yG~V~~--------V~i~~~-----~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~   96 (130)
T 3zzy_A           30 RIIVENLFYPVTLDVLHQIFSKFGTVLK--------IITFTK-----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACC   96 (130)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTSSCEEE--------EEEEEE-----TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEE
T ss_pred             EEEECCCCCCCCHHHHHHHHhCcCCEEE--------EEEEcC-----CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCc
Confidence            5779999999999999999999999998        767653     3578 9999999999999999999999998  8


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|+|++|++...
T Consensus        97 ~LrI~~ak~~~l  108 (130)
T 3zzy_A           97 TLRIDFSKLTSL  108 (130)
T ss_dssp             EEEEEECSCSSC
T ss_pred             EEEEEecCCCce
Confidence            999999987643

>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=99.53  E-value=2.5e-14  Score=113.80  Aligned_cols=76  Identities=20%  Similarity=0.336  Sum_probs=61.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee--
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF--   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i--   80 (388)
                      .+..+|||+|||+++|+++|+++|++||.|..        |.|+.+     ++|||||+|.+.++|++    |++..+  
T Consensus         9 ~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~--------v~i~~~-----srGfaFV~F~~~~~A~~----~~~~~~~~   71 (89)
T 3d2w_A            9 HHGSKVFVGRCTEDMTAEELQQFFCQYGEVVD--------VFIPKP-----FRAFAFVTFADDKVAQS----LCGEDLII   71 (89)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EECCSS-----CCSEEEEEESCHHHHHH----HTTCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCEEE--------EEEeeC-----CCCEEEEEECCHHHHHH----HcCCCccc
Confidence            46789999999999999999999999999998        667653     78999999999999983    455554  


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      .++.|.|.+|.++..
T Consensus        72 ~g~~v~v~~a~~k~~   86 (89)
T 3d2w_A           72 KGISVHISNAEPKHN   86 (89)
T ss_dssp             TTEEEEEEECC----
T ss_pred             CCEEEEEEEcCCCCc
Confidence            589999999987643

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.53  E-value=2.6e-14  Score=114.89  Aligned_cols=76  Identities=24%  Similarity=0.282  Sum_probs=67.4

Q ss_pred             CCCcE-EEeccCCCCCCHHH----HHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            3 MANGS-VYVCNLPHGTDEDM----LAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         3 ~~~~t-lfV~nLp~~~teed----L~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      +++.| |||.|||+.+++++    |.++|++|| .|..          |     |+   |||||+|.+.++|+.||+.|+
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 SGCHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLS----------I-----TG---CSAILRFINQDSAERAQKRME   67 (96)
T ss_dssp             CCSSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEE----------C-----CT---TCEEEEESSHHHHHHHHHHHT
T ss_pred             CCcceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEE----------E-----ec---CEEEEEECCHHHHHHHHHHhc
Confidence            45666 99999999999988    558999994 9976          3     34   999999999999999999999


Q ss_pred             CceecCceEEEEecccCCCC
Q 016532           77 NKDFHGNLIGVFIAESRGKD   96 (388)
Q Consensus        77 g~~i~Gr~I~V~~a~~~~~~   96 (388)
                      |..|.|+.|.|++|+.+...
T Consensus        68 G~~l~gr~i~v~~A~~~sd~   87 (96)
T 2diu_A           68 NEDVFGNRIIVSFTPKNREL   87 (96)
T ss_dssp             TCCSSSSCCEEESSCCSCCC
T ss_pred             CCccCCceEEEEecCCCcce
Confidence            99999999999999987654

>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=99.52  E-value=3.9e-14  Score=123.87  Aligned_cols=85  Identities=26%  Similarity=0.294  Sum_probs=76.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCC--CcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTN--EYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg--~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      +++.+|||+|||+++|+++|.++|++||.|..        |.|+.++.++  .++|||||+|.+.++|++||+.|++..+
T Consensus         1 s~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~   72 (175)
T 3nmr_A            1 SDAIKMFVGQVPRTWSEKDLRELFEQYGAVYE--------INVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKV   72 (175)
T ss_dssp             CCCEEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCC
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEE
Confidence            36789999999999999999999999999998        8899999887  8999999999999999999999999877


Q ss_pred             c---CceEEEEecccCCC
Q 016532           81 H---GNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~---Gr~I~V~~a~~~~~   95 (388)
                      .   +..|.|.++.+...
T Consensus        73 ~~~~~~~~~~~~~~~~~~   90 (175)
T 3nmr_A           73 LPGMHHPIQMKPADSEKN   90 (175)
T ss_dssp             CTTCSSCCEEEECGGGCC
T ss_pred             ccCCccceEEcccccccc
Confidence            6   67888888876543

>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=99.52  E-value=4e-14  Score=123.12  Aligned_cols=80  Identities=31%  Similarity=0.439  Sum_probs=75.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||.|||..+|+++|.++|++||.|..        |.|+.++.++.++|||||+|.+.++|++||..||+..|.|
T Consensus        87 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  158 (168)
T 1b7f_A           87 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQ--------KNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG  158 (168)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEE--------EEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecC
Confidence            35689999999999999999999999999998        8899999899999999999999999999999999999988


Q ss_pred             --ceEEEEec
Q 016532           83 --NLIGVFIA   90 (388)
Q Consensus        83 --r~I~V~~a   90 (388)
                        ++|.|.+|
T Consensus       159 ~~~~l~V~~A  168 (168)
T 1b7f_A          159 GSQPLSVRLA  168 (168)
T ss_dssp             CSSCCEEEEC
T ss_pred             CCeEEEEEeC
Confidence              99999986

>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=99.52  E-value=3.7e-14  Score=125.58  Aligned_cols=77  Identities=18%  Similarity=0.209  Sum_probs=69.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC--c
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG--N   83 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G--r   83 (388)
                      .+|||+||++.+|+++|+++|++||.|..        |.|+..    .+++||||+|.+.++|++||+.|||..|.+  +
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~--------V~i~~k----~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~  114 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLK--------IITFTK----NNQFQALLQYADPVSAQHAKLSLDGQNIYNACC  114 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEE--------EEEEES----SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEE--------EEEEeC----CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCc
Confidence            36899999999999999999999999998        767643    257899999999999999999999999976  9


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|+|++|+++.
T Consensus       115 ~L~V~~Ak~~~  125 (164)
T 1sjr_A          115 TLRIDFSKLTS  125 (164)
T ss_dssp             CEEEEECSSSS
T ss_pred             EEEEEEecCCc
Confidence            99999999864

>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=99.52  E-value=1.1e-14  Score=114.81  Aligned_cols=78  Identities=22%  Similarity=0.289  Sum_probs=65.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.|+.+     ++|||||+|.+.++|++|+..  ...+.+
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~~-----~~g~afV~f~~~~~a~~~~~~--~~~~~g   67 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMD--------VFIPKP-----FRAFAFVTFADDQIAQSLCGE--DLIIKG   67 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCE--------EECCSS-----CCSCCEEECSCHHHHHHTTTC--EEEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeE--------EEEecC-----CCCEEEEEECCHHHHHHHhcC--CceeCC
Confidence            56789999999999999999999999999987        666653     689999999999999865331  344589


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      ..|.|.++.++..
T Consensus        68 ~~l~v~~a~~~~~   80 (88)
T 1wf0_A           68 ISVHISNAEPKHN   80 (88)
T ss_dssp             EEEEEECCCCCCC
T ss_pred             EEEEEEecCCCCC
Confidence            9999999987654

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

Probab=99.52  E-value=2e-14  Score=130.28  Aligned_cols=82  Identities=30%  Similarity=0.295  Sum_probs=74.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||.++|+++|+++|++||.|..        |.|+.++.|+.+++||||+|.+.++|++||+.|++..|.++
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~   98 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKS--------IDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGR   98 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-C
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEE--------EEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCe
Confidence            3579999999999999999999999999998        88999998999999999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++...
T Consensus        99 ~l~v~~~~~~  108 (216)
T 2qfj_A           99 NIKVGRPSNI  108 (216)
T ss_dssp             CCEEECCSCC
T ss_pred             eEEEecCCCc
Confidence            9999887654

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

Probab=99.51  E-value=6.1e-14  Score=115.32  Aligned_cols=83  Identities=16%  Similarity=0.131  Sum_probs=73.9

Q ss_pred             CCCCcEEEeccCCC-----CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC-CCcccEEEEEeCCHHHHHHHHHHh
Q 016532            2 TMANGSVYVCNLPH-----GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT-NEYKGDATVTYEDPHAALAAVEWF   75 (388)
Q Consensus         2 ~~~~~tlfV~nLp~-----~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T-g~srG~aFVeF~s~e~A~~Ai~~l   75 (388)
                      ..++.+|+|.||..     +.++++|+++|++||.|..        |.|+.++.+ +.++|||||+|.++++|++||..|
T Consensus         5 ~~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~--------v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~l   76 (105)
T 2pe8_A            5 KCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGK--------CVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDL   76 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEE--------EEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHH
T ss_pred             CCCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEE--------EEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHH
Confidence            46788999999963     3478999999999999998        889988754 689999999999999999999999


Q ss_pred             CCceecCceEEEEeccc
Q 016532           76 NNKDFHGNLIGVFIAES   92 (388)
Q Consensus        76 ng~~i~Gr~I~V~~a~~   92 (388)
                      ||..|.|+.|.|.++..
T Consensus        77 nG~~~~Gr~i~v~~a~~   93 (105)
T 2pe8_A           77 NGRYFGGRVVKACFYNL   93 (105)
T ss_dssp             TTCEETTEECEEEECCH
T ss_pred             CCCEECCcEEEEEEcCH
Confidence            99999999999999975

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

Probab=99.51  E-value=5e-14  Score=121.91  Aligned_cols=81  Identities=28%  Similarity=0.391  Sum_probs=74.3

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+++|+++|.++|++||.|..        |.|+.++. +.++|||||+|.+.++|++||..|++..|.++.|
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~--------v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i   71 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIAN--------IKIMIDKN-NKNVNYAFVEYHQSHDANIALQTLNGKQIENNIV   71 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEE--------EEEECCCC--CCEEEEEEEESSHHHHHHHHHHHTTCEETTEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEE--------EEEEECCC-CCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCee
Confidence            48999999999999999999999999998        88988874 7799999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.++.+...
T Consensus        72 ~v~~~~~~~~   81 (166)
T 3md3_A           72 KINWAFQSQQ   81 (166)
T ss_dssp             EEEECCCCCC
T ss_pred             EEEEcCCCCC
Confidence            9999876543

>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=99.51  E-value=3.9e-14  Score=110.94  Aligned_cols=72  Identities=21%  Similarity=0.347  Sum_probs=63.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhc----C-------ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHH
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTI----G-------LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAA   71 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~----G-------~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~A   71 (388)
                      .+..+|||+|||+.+|+++|+++|++|    |       .|..        |.++.      +++||||+|.+.++|++|
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~--------~~~~~------~kg~afV~f~~~~~a~~A   69 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLA--------VQINQ------DKNFAFLEFRSVDETTQA   69 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEE--------EEECS------SSSEEEEEESSHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceE--------EEecC------CCcEEEEEcCCHHHHHHH
Confidence            357899999999999999999999999    7       6665        55543      369999999999999999


Q ss_pred             HHHhCCceecCceEEEEe
Q 016532           72 VEWFNNKDFHGNLIGVFI   89 (388)
Q Consensus        72 i~~lng~~i~Gr~I~V~~   89 (388)
                      | .||+..|.|+.|.|+.
T Consensus        70 ~-~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           70 M-AFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             G-GGTTCEETTEECEEEC
T ss_pred             H-hcCCCEECCeEEEEeC
Confidence            9 8999999999999873

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

Probab=99.50  E-value=2.8e-14  Score=118.35  Aligned_cols=78  Identities=22%  Similarity=0.238  Sum_probs=65.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCC---CCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT---NEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T---g~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|.         +.++.++.|   +.++|||||+|.+.++|++||+.|+  .
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~---------~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~   74 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV---------VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--E   74 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC---------EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--E
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE---------EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--h
Confidence            4578999999999999999999999999987         346777766   7999999999999999999999883  3


Q ss_pred             ecCceEEEEecc
Q 016532           80 FHGNLIGVFIAE   91 (388)
Q Consensus        80 i~Gr~I~V~~a~   91 (388)
                      |+|+.|.|..+.
T Consensus        75 ~~G~~~~~~~~~   86 (114)
T 2dnl_A           75 EDGKLYLCVSSP   86 (114)
T ss_dssp             ETTEEEEEECCS
T ss_pred             cCCcEEEeccCC
Confidence            566666555443

>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=99.50  E-value=7e-14  Score=121.09  Aligned_cols=79  Identities=22%  Similarity=0.335  Sum_probs=73.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||..+|+++|.++|++||.|..        |.|+.++.++.++|||||+|.+.++|++||..||+..|.|+
T Consensus        87 ~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  158 (167)
T 1fxl_A           87 RDANLYVSGLPKTMTQKELEQLFSQYGRIIT--------SRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGA  158 (167)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTC
T ss_pred             CCCcEEECCCCCcCCHHHHHHHHHhcCCEeE--------EEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCC
Confidence            4578999999999999999999999999998        88999998999999999999999999999999999999996


Q ss_pred             e--EEEEec
Q 016532           84 L--IGVFIA   90 (388)
Q Consensus        84 ~--I~V~~a   90 (388)
                      .  |.|.+|
T Consensus       159 ~~~i~v~~A  167 (167)
T 1fxl_A          159 TEPITVKFA  167 (167)
T ss_dssp             SSCCEEEEC
T ss_pred             ccceEEEeC
Confidence            5  888775

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

Probab=99.50  E-value=8.6e-14  Score=117.96  Aligned_cols=75  Identities=17%  Similarity=0.199  Sum_probs=66.7

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccE-EEEEeCCHHHHHHHHHHhCCceecC--c
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGD-ATVTYEDPHAALAAVEWFNNKDFHG--N   83 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~-aFVeF~s~e~A~~Ai~~lng~~i~G--r   83 (388)
                      .|||+||++.+|+++|.++|++||.|..        |+|+. +     .|| |||+|.+.++|+.||+.|||..|.+  .
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~--------v~i~~-~-----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~   92 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQR--------IVIFK-R-----NGIQAMVEFESVLCAQKAKAALNGADIYAGCC   92 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEE--------EEEEE-S-----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBS
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEE--------EEEEe-C-----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCe
Confidence            3679999999999999999999999998        66754 2     276 9999999999999999999999988  6


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.+|+++..
T Consensus        93 ~l~V~~Ak~~~l  104 (124)
T 2e5i_A           93 TLKIEYARPTRL  104 (124)
T ss_dssp             EEEEECCSCSCC
T ss_pred             EEEEEEecCCcc
Confidence            899999988753

>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=99.49  E-value=6.8e-14  Score=128.16  Aligned_cols=79  Identities=22%  Similarity=0.246  Sum_probs=72.2

Q ss_pred             CCCcEEEeccCC-CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp-~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+||| ..+|+++|.++|++||.|..        |+|+.+     .+|||||+|.+.++|+.||+.||+..|.
T Consensus         2 ~~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~--------v~i~~~-----~~g~afV~f~~~~~A~~Ai~~lng~~~~   68 (205)
T 3tyt_A            2 ADSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEK--------VKFMKS-----KPGAAMVEMADGYAVDRAITHLNNNFMF   68 (205)
T ss_dssp             CCCSEEEEECCCTTTCCHHHHHHHHTTTSCEEE--------EEECTT-----STTCEEEEESSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhcCCeEE--------EEEecC-----CCCEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            467899999999 89999999999999999998        777764     3699999999999999999999999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.+++.+.
T Consensus        69 g~~l~v~~s~~~~   81 (205)
T 3tyt_A           69 GQKMNVCVSKQPA   81 (205)
T ss_dssp             TEECEEEECSCSC
T ss_pred             CceEEEEEccCCc
Confidence            9999999997654

>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=99.48  E-value=1.1e-13  Score=120.98  Aligned_cols=79  Identities=15%  Similarity=0.245  Sum_probs=72.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec--
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH--   81 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~--   81 (388)
                      +..+|||+|||+.+|+++|+++|++||.|..        |.|+.++ ++.++|||||+|.+.++|++||..||+..+.  
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~--------v~~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g  164 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEE--------CRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEG  164 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTT
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEE--------EEEEECC-CCCEEEEEEEEECCHHHHHHHHHHhcCCcccCC
Confidence            5679999999999999999999999999998        7888886 5899999999999999999999999998776  


Q ss_pred             -CceEEEEecc
Q 016532           82 -GNLIGVFIAE   91 (388)
Q Consensus        82 -Gr~I~V~~a~   91 (388)
                       +++|.|.+|.
T Consensus       165 ~~~~l~V~~ad  175 (175)
T 3nmr_A          165 CSSPMVVKFAD  175 (175)
T ss_dssp             CSSCCEEEECC
T ss_pred             CCCCeEEEecC
Confidence             3999999873

>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=99.48  E-value=5e-14  Score=122.55  Aligned_cols=80  Identities=25%  Similarity=0.398  Sum_probs=73.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..  +..|.|+
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~--------v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~--~~~~~g~   71 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTD--------LKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT--QHILDGK   71 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEE--------EECCCCTTTSSCCSCEEEEESSTHHHHHHHHS--CCEETTE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEE--------EEEEECCCCCCccceEEEEEccHHHHHHHHhc--ccccCCe
Confidence            5789999999999999999999999999998        88999999999999999999999999999984  5688999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++.+.
T Consensus        72 ~i~v~~~~~~   81 (167)
T 2cjk_A           72 VIDPKRAIPR   81 (167)
T ss_dssp             ECCCEECCCH
T ss_pred             Ecccccccch
Confidence            9999988654

>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=99.48  E-value=7.5e-14  Score=122.72  Aligned_cols=78  Identities=19%  Similarity=0.268  Sum_probs=71.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||..+|+++|+++|++||.|..           +  ..++.++|||||+|.+.++|++||..|++..|.|+
T Consensus        98 ~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~-----------~--~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~  164 (175)
T 1fje_B           98 AARTLLAKNLSFNITEDELKEVFEDALEIRL-----------V--SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGR  164 (175)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHCTTCSEEEE-----------E--CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTE
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhcCeEEE-----------e--cCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            4579999999999999999999999998764           3  56789999999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+|.+++
T Consensus       165 ~i~v~~a~~k~  175 (175)
T 1fje_B          165 SVSLYYTGEKG  175 (175)
T ss_dssp             EEEEEECSSCC
T ss_pred             EEEEEecCCCC
Confidence            99999998763

>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=99.44  E-value=1.8e-13  Score=130.46  Aligned_cols=83  Identities=20%  Similarity=0.274  Sum_probs=75.6

Q ss_pred             CCCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCC-CCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT-TNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~-Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .+..+|||.|||+. +|+++|.++|++||.|..        |.|+.+.. |+.++|||||+|.+.++|++|| .||+..|
T Consensus       208 ~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~--------v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~  278 (292)
T 2ghp_A          208 LEGREIMIRNLSTELLDENLLRESFEGFGSIEK--------INIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLL  278 (292)
T ss_dssp             CTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEE--------EECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEE
T ss_pred             CCCceEEEECCCcccCCHHHHHHHHhccCCeeE--------EEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEE
Confidence            35689999999999 999999999999999998        77888876 6999999999999999999999 9999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .|+.|.|.+|.+++
T Consensus       279 ~g~~i~V~~a~~k~  292 (292)
T 2ghp_A          279 GNREISVSLADKKP  292 (292)
T ss_dssp             TTEEEEEEECCCCC
T ss_pred             CCcEEEEEEecCCC
Confidence            99999999998763

>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=99.44  E-value=3.1e-13  Score=128.12  Aligned_cols=81  Identities=20%  Similarity=0.333  Sum_probs=73.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHH----HHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            3 MANGSVYVCNLPHGTDEDMLA----EYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~----~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      .++.+|||+|||..+|+++|+    ++|++||.|..        |.|+.   ++.++|||||+|.+.++|++||..||+.
T Consensus         7 ~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~--------v~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g~   75 (282)
T 3pgw_A            7 RPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILD--------ILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGF   75 (282)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEE--------EEEcC---CCCcceEEEEEECCHHHHHHHHHHhcCC
Confidence            467899999999999999976    89999999987        66664   6889999999999999999999999999


Q ss_pred             eecCceEEEEecccCC
Q 016532           79 DFHGNLIGVFIAESRG   94 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~   94 (388)
                      .|.|+.|.|.++....
T Consensus        76 ~~~g~~l~v~~a~~~~   91 (282)
T 3pgw_A           76 PFYDKPMRIQYAKTDS   91 (282)
T ss_pred             eeCCcEEEEEEeccCc
Confidence            9999999999997654

>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=99.42  E-value=4.7e-13  Score=121.55  Aligned_cols=78  Identities=19%  Similarity=0.328  Sum_probs=71.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+.+|+++|+++|++||.|..        |.|+.+. ++.++|||||+|.+.++|++||..++ ..|.|+.
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~--------v~i~~~~-~~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~Gr~  178 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLN--------IQMRRTL-HKAFKGSIFVVFDSIESAKKFVETPG-QKYKETD  178 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEE--------EEEEECT-TCCEEEEEEEEESSHHHHHHHHHCTT-CEETTEE
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEE--------EEEEECC-CCCcccEEEEEECCHHHHHHHHHhCC-CeECCEE
Confidence            478999999999999999999999999998        8888887 58999999999999999999998554 5899999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|.++..
T Consensus       179 l~V~~~~~  186 (193)
T 2voo_A          179 LLILFKDD  186 (193)
T ss_dssp             CEEEETTT
T ss_pred             EEEEEhHH
Confidence            99998764

>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=99.42  E-value=7.6e-13  Score=125.59  Aligned_cols=85  Identities=19%  Similarity=0.219  Sum_probs=79.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||..|++..|.|
T Consensus        93 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~--------~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g  164 (284)
T 3smz_A           93 PTDALLCVANLPPSLTQQQFEELVRPFGSLER--------CFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGP  164 (284)
T ss_dssp             CCSCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHHhcCCeeE--------EEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            45679999999999999999999999999998        7899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus       165 ~~i~v~~a~~~~~  177 (284)
T 3smz_A          165 RTLYVHWTDAGQL  177 (284)
T ss_dssp             EECEEEECCGGGC
T ss_pred             cEEEEEECCCCCC
Confidence            9999999987643

>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=99.41  E-value=4.6e-13  Score=123.93  Aligned_cols=79  Identities=25%  Similarity=0.358  Sum_probs=72.6

Q ss_pred             CCCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||+ .+|+++|+++|++||.|..        |.|+.++     ++||||+|.+.++|++||+.|++..|.
T Consensus        32 ~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~--------v~i~~~~-----~g~afV~F~~~~~A~~Ai~~l~g~~~~   98 (229)
T 2adc_A           32 AGNSVLLVSNLNPERVTPQSLFILFGVYGDVQR--------VKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLH   98 (229)
T ss_dssp             CCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEE--------EEECCTT-----SCCEEEEESCHHHHHHHHHHHTTCBCS
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEE--------EEEEECC-----CCEEEEEECCHHHHHHHHHHhCCCeEC
Confidence            3578999999999 9999999999999999988        7788765     689999999999999999999999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.++....
T Consensus        99 g~~l~v~~a~~~~  111 (229)
T 2adc_A           99 GKPIRITLSKHQN  111 (229)
T ss_dssp             SSBCEEECCSCCC
T ss_pred             CeEEEEEEecCcc
Confidence            9999999998654

>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=99.40  E-value=1.5e-13  Score=120.69  Aligned_cols=83  Identities=16%  Similarity=0.099  Sum_probs=72.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||..+|+++|+++|.+||.+...         ++.+..++.++|||||+|.+.++|++||+ |++..|.|
T Consensus        11 ~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~---------~~~~~~~~~~~g~afV~f~~~~~a~~A~~-l~g~~~~g   80 (175)
T 1fje_B           11 TTPFNLFIGNLNPNKSVAELKVAISELFAKNDL---------AVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFG   80 (175)
T ss_dssp             SSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTC---------CCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGEEETT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceE---------EEEECCCCccccEEEEEECCHHHHHHHHh-cCCCEeCC
Confidence            357899999999999999999999999987641         34445578899999999999999999995 99999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        81 ~~l~v~~~~~~~~   93 (175)
T 1fje_B           81 NEIKLEKPKGRDS   93 (175)
T ss_dssp             EEEEEECCCCSSC
T ss_pred             eEEEEecCCCccc
Confidence            9999999987543

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

Probab=99.40  E-value=3.7e-13  Score=126.34  Aligned_cols=79  Identities=19%  Similarity=0.175  Sum_probs=69.4

Q ss_pred             CCCcEEEeccCCCCC---------CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 016532            3 MANGSVYVCNLPHGT---------DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~---------teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      .++.+|||+|||..+         ++++|..+|++||.|..        |.|+.      ++|||||+|.+.++|+.||+
T Consensus       132 ~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~--------v~v~~------~kG~AFV~F~~~~~Ae~A~~  197 (240)
T 3u1l_A          132 KKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDR--------IRYVE------SKNCGFVKFKYQANAEFAKE  197 (240)
T ss_dssp             CCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEE--------EEEEG------GGTEEEEEESSHHHHHHHHH
T ss_pred             cCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEE--------EEEEC------CCCEEEEEeCCHHHHHHHHH
Confidence            357899999999998         79999999999999998        77774      47999999999999999999


Q ss_pred             HhCCcee------------cCceEEEEecccCCC
Q 016532           74 WFNNKDF------------HGNLIGVFIAESRGK   95 (388)
Q Consensus        74 ~lng~~i------------~Gr~I~V~~a~~~~~   95 (388)
                      .|++..|            .|+.|.|.+|...+.
T Consensus       198 am~g~~l~~~~~~e~~~~~~gr~L~V~wA~~~pn  231 (240)
T 3u1l_A          198 AMSNQTLLLPSDKEWDDRREGTGLLVKWANEDPD  231 (240)
T ss_dssp             HHTTCCCCCTTSTTGGGGGGSCCCEEEECC----
T ss_pred             HhCCCEEeccccccccccCCCCEEEEEEccCCCC
Confidence            9999999            899999999987654

>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=99.39  E-value=8.4e-13  Score=125.30  Aligned_cols=83  Identities=20%  Similarity=0.200  Sum_probs=77.2

Q ss_pred             CCcEEEeccCCCCC-CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGT-DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~-teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +..+|||.|||+.+ |+++|.++|+.||.|..        |.|+.++ ++.++|||||+|.+.++|.+||..|++..|.|
T Consensus       183 ~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~--------v~i~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  253 (284)
T 3smz_A          183 HSRCLCVDRLPPGFNDVDALCRALSAVHSPTF--------CQLACGQ-DGQLKGFAVLEYETAEMAEEAQQQADGLSLGG  253 (284)
T ss_dssp             SCSEEEEECCCTTCCCHHHHHHHTCSSSCCSE--------EEEEECS-SCCEEEEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CccEEEEecCCcccCCHHHHHHHhhCCCCeEE--------EEEEECC-CCCcccEEEEEeCCHHHHHHHHHHhCCCccCC
Confidence            56799999999995 99999999999999988        7788887 79999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus       254 ~~l~v~~a~~~~~  266 (284)
T 3smz_A          254 SHLRVSFCAPGPP  266 (284)
T ss_dssp             EECEEEECCSSSC
T ss_pred             eEEEEEEecCCCc
Confidence            9999999988654

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

Probab=99.39  E-value=4e-13  Score=120.67  Aligned_cols=78  Identities=26%  Similarity=0.366  Sum_probs=71.8

Q ss_pred             CCcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+++|||+|||+ .+|+++|.++|++||.|..        |.|+.++     +|||||+|.+.++|++||..|++..|.|
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~--------v~i~~~~-----~g~afV~f~~~~~a~~A~~~l~~~~~~g   68 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQR--------VKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHG   68 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTCCCSE--------EECSTTC-----SSCCEEECTTTHHHHHHHHHHTTCCCSS
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcCCEEE--------EEEEeCC-----CCEEEEEECCHHHHHHHHHHhCCCeecC
Confidence            578999999999 9999999999999999987        7677664     6899999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|.++....
T Consensus        69 ~~l~v~~a~~~~   80 (198)
T 1qm9_A           69 KPIRITLSKHQN   80 (198)
T ss_dssp             CCCEEEECCCCS
T ss_pred             eEEEEEEecCCC
Confidence            999999998754

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

Probab=99.39  E-value=1.9e-12  Score=106.99  Aligned_cols=81  Identities=22%  Similarity=0.294  Sum_probs=69.4

Q ss_pred             CCCcEEEeccCCCCCC-----------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHH
Q 016532            3 MANGSVYVCNLPHGTD-----------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAA   71 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~t-----------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~A   71 (388)
                      .++.+|+|.||.....           +++|+++|++||.|..        |.| .++   .++|||||+|.+.++|++|
T Consensus        13 ~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~--------v~i-~~~---~~~G~afV~f~~~~~A~~A   80 (112)
T 2dit_A           13 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRK--------LLL-FDR---HPDGVASVSFRDPEEADYC   80 (112)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSE--------EEE-ETT---CTTCEEEEECSCHHHHHHH
T ss_pred             CCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeE--------EEE-ecC---CCCEEEEEEECCHHHHHHH
Confidence            4678999999954432           5899999999999988        644 444   3799999999999999999


Q ss_pred             HHHhCCceecCceEEEEecccCCC
Q 016532           72 VEWFNNKDFHGNLIGVFIAESRGK   95 (388)
Q Consensus        72 i~~lng~~i~Gr~I~V~~a~~~~~   95 (388)
                      |..||+..|.|+.|.|.++.++..
T Consensus        81 i~~lng~~~~gr~l~v~~a~~~~~  104 (112)
T 2dit_A           81 IQTLDGRWFGGRQITAQAWDGTTD  104 (112)
T ss_dssp             HHHSTTCEETTEECEEEECCSCCC
T ss_pred             HHHcCCCEECCcEEEEEEeCCCCC
Confidence            999999999999999999987654

>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=99.38  E-value=8.8e-13  Score=120.72  Aligned_cols=78  Identities=14%  Similarity=0.251  Sum_probs=68.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCce--eecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLL--KKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i--~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|  ..        |+|+.++  +.+++||||+|.+.++|.+||..||+..|
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~--------v~~~~~~--~~~~g~gfV~f~~~~~A~~Ai~~lng~~~  190 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTS--------VKVFSGK--SERSSSGLLEWDSKSDALETLGFLNHYQM  190 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSE--------EEECSCC--SSSSEEEEEECSSHHHHHHHHHHHTTCEE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEE--------EEEEcCC--CCCceEEEEEeCCHHHHHHHHHHhCCCCc
Confidence            356789999999999999999999999998  55        7777765  55679999999999999999999999999


Q ss_pred             cCc----eEEEEec
Q 016532           81 HGN----LIGVFIA   90 (388)
Q Consensus        81 ~Gr----~I~V~~a   90 (388)
                      .+.    +|.|.+|
T Consensus       191 ~g~~~~~p~~vk~~  204 (205)
T 3tyt_A          191 KNPNGPYPYTLKLC  204 (205)
T ss_dssp             CCSSSSSCEECEEE
T ss_pred             cCCCCCcceEEEec
Confidence            875    6777665

>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=99.37  E-value=1.5e-12  Score=123.46  Aligned_cols=75  Identities=25%  Similarity=0.309  Sum_probs=69.4

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-C
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-G   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-G   82 (388)
                      ++.+|||+|||..+|+++|+++|++||.|..        |.|+.++     +|||||+|.+.++|++||..||+..|. |
T Consensus       206 ~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~--------v~~~~~~-----~g~afV~f~~~~~A~~A~~~l~g~~~~~g  272 (282)
T 3pgw_A          206 PNHILFLTNLPEETNELMLSMLFNQFPGFKE--------VRLVPGR-----HDIAFVEFDNEVQAGAARDALQGFKITQN  272 (282)
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhcCCeEE--------EEEecCC-----CcEEEEEeCCHHHHHHHHHHcCCcEeCCC
Confidence            5678999999999999999999999999998        7777554     589999999999999999999999999 9


Q ss_pred             ceEEEEecc
Q 016532           83 NLIGVFIAE   91 (388)
Q Consensus        83 r~I~V~~a~   91 (388)
                      +.|+|.+|+
T Consensus       273 ~~l~v~~ak  281 (282)
T 3pgw_A          273 NAMKISFAK  281 (282)
T ss_pred             CEEEEEEec
Confidence            999999986

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

Probab=99.35  E-value=3.8e-13  Score=120.19  Aligned_cols=87  Identities=20%  Similarity=0.297  Sum_probs=66.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCC-CCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRT-GRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~t-g~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..+.+|||+|||+.+|+++|.++|++||.|...... +.+.+.+.    ++.++|||||+|.+.++|++|| .|++..|.
T Consensus         2 ~~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~----~~~~~g~afV~F~~~~~A~~Al-~l~g~~~~   76 (198)
T 2yh0_A            2 AMARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQ----INQDKNFAFLEFRSVDETTQAM-AFDGIIFQ   76 (198)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEE----EETTTTEEEEEESCSHHHHHHG-GGTTEEET
T ss_pred             CceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeE----ecCCCCEEEEEeCCHHHHHHHH-HhcCCEEc
Confidence            357899999999999999999999999543321000 00111121    2456899999999999999999 79999999


Q ss_pred             CceEEEEecccCC
Q 016532           82 GNLIGVFIAESRG   94 (388)
Q Consensus        82 Gr~I~V~~a~~~~   94 (388)
                      |+.|.|.++....
T Consensus        77 g~~i~v~~~~~~~   89 (198)
T 2yh0_A           77 GQSLKIRRPHDYQ   89 (198)
T ss_dssp             TEEEEEECCCCCC
T ss_pred             CceEEEeCCCCCC
Confidence            9999999887654

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

Probab=99.35  E-value=1.5e-12  Score=116.83  Aligned_cols=78  Identities=18%  Similarity=0.276  Sum_probs=70.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||..+|+++|.++|++|| .|..        |.|+.+     .++||||+|.+.++|++||..||+..|.
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~--------v~i~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~  184 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG--------FKFFQK-----DRKMALIQMGSVEEAVQALIDLHNHDLG  184 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCE--------EEESST-----TSSCEEEECSSHHHHHHHHHHHTSSCCS
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCCCceE--------EEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcCCccC
Confidence            3578999999999999999999999999 8887        666543     2689999999999999999999999999


Q ss_pred             -CceEEEEecccC
Q 016532           82 -GNLIGVFIAESR   93 (388)
Q Consensus        82 -Gr~I~V~~a~~~   93 (388)
                       |+.|.|.+++++
T Consensus       185 ~g~~l~v~~a~~~  197 (198)
T 1qm9_A          185 ENHHLRVSFSKST  197 (198)
T ss_dssp             SCCSCCEEEECCC
T ss_pred             CCCeEEEEeeccc
Confidence             999999999864

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

Probab=99.34  E-value=2.1e-12  Score=106.06  Aligned_cols=82  Identities=12%  Similarity=0.154  Sum_probs=71.1

Q ss_pred             CCCcEEEeccC--CCCCC--------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCC--CCcccEEEEEeCCHHHHHH
Q 016532            3 MANGSVYVCNL--PHGTD--------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTT--NEYKGDATVTYEDPHAALA   70 (388)
Q Consensus         3 ~~~~tlfV~nL--p~~~t--------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~T--g~srG~aFVeF~s~e~A~~   70 (388)
                      .++..|.|.||  |..+.        +++|+++|++||.|..        |.|++++.+  +.++|||||+|.++++|++
T Consensus         3 ~ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~--------v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~   74 (105)
T 3v4m_A            3 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKS--------IEIPRPVDGVEVPGCGKIFVEFTSVFDCQK   74 (105)
T ss_dssp             SCCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEE--------EECCCCBTTBCCTTTTEEEEEESSHHHHHH
T ss_pred             CCCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEE--------EEEeccCCCCCcCCcEEEEEEECCHHHHHH
Confidence            47889999998  33333        3689999999999998        778888765  3689999999999999999


Q ss_pred             HHHHhCCceecCceEEEEeccc
Q 016532           71 AVEWFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        71 Ai~~lng~~i~Gr~I~V~~a~~   92 (388)
                      ||..|||..|.|+.|.|.++..
T Consensus        75 Ai~~lnG~~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           75 AMQGLTGRKFANRVVVTKYCDP   96 (105)
T ss_dssp             HHHHHTTCEETTEECEEEEECH
T ss_pred             HHHHhCCCEeCCCEEEEEEeCH
Confidence            9999999999999999999864

>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=99.33  E-value=3.9e-12  Score=120.03  Aligned_cols=84  Identities=18%  Similarity=0.158  Sum_probs=74.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC-Cceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN-NKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln-g~~i~   81 (388)
                      .+..+|||+|||+.+|+++|.++|++||.|..        |.|+.+ .|+.++|||||+|.+.++|.+||..|+ +..+.
T Consensus        94 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~--------v~i~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~  164 (261)
T 3sde_A           94 THGAALTVKNLSPVVSNELLEQAFSQFGPVEK--------AVVVVD-DRGRATGKGFVEFAAKPPARKALERCGDGAFLL  164 (261)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEEE-TTSCEEEEEEEEESSHHHHHHHHHHHHHSCEES
T ss_pred             ccCCcccccCCCCCCCHHHHHHHHHhcCCeEE--------EEeeeC-CCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEe
Confidence            45689999999999999999999999999998        789998 489999999999999999999999995 44444


Q ss_pred             ---CceEEEEecccCCC
Q 016532           82 ---GNLIGVFIAESRGK   95 (388)
Q Consensus        82 ---Gr~I~V~~a~~~~~   95 (388)
                         +++|.|.++.+...
T Consensus       165 ~~~~r~i~v~~~~~~~~  181 (261)
T 3sde_A          165 TTTPRPVIVEPMEQFDD  181 (261)
T ss_dssp             SSSCCBCEEEECCCEES
T ss_pred             cCCCceEEEeeccccCc
Confidence               89999999987543

>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=99.33  E-value=3.8e-12  Score=117.67  Aligned_cols=78  Identities=18%  Similarity=0.276  Sum_probs=70.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      .++.+|||+|||..+|+++|+++|++|| .|..        |.|+.+     .++||||+|.+.++|++||..|++..|.
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~--------v~i~~~-----~~g~afV~f~~~~~A~~Ai~~l~g~~~~  215 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKG--------FKFFQK-----DRKMALIQMGSVEEAVQALIDLHNHDLG  215 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEE--------EEECSS-----STTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeE--------EEEEEC-----CCcEEEEEECCHHHHHHHHHHHCCCccC
Confidence            3468999999999999999999999999 8887        666542     3689999999999999999999999999


Q ss_pred             -CceEEEEecccC
Q 016532           82 -GNLIGVFIAESR   93 (388)
Q Consensus        82 -Gr~I~V~~a~~~   93 (388)
                       |+.|.|.+++++
T Consensus       216 ~g~~l~v~~a~~~  228 (229)
T 2adc_A          216 ENHHLRVSFSKST  228 (229)
T ss_dssp             SSCBCEEEECSSC
T ss_pred             CCCeEEEEEecCC
Confidence             999999999874

>3gj8_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.82A {Rattus norvegicus} PDB: 3gj4_B*

Probab=99.32  E-value=3.2e-13  Score=108.49  Aligned_cols=83  Identities=31%  Similarity=0.625  Sum_probs=26.8

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--C--CCCCccCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGL--F--GPNDWSCPM  220 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~~~--~--~~~dw~c~~  220 (388)
                      ++|+|.|+  .|..+||+.+..|+.|.++++.......   .+..      ...   ...+...++  |  .+|+|.|+.
T Consensus         5 ~~g~W~C~--~C~~~N~~~~~~C~~C~~pkp~~~~~~~---~~~~------~~~---~~~~~~~g~~~f~~~~g~W~C~~   70 (92)
T 3gj8_B            5 SVGSWECP--VCCVSNKAEDSRCVSCTSEKPGLVSASS---SNSV------PVS---LPSGGCLGLDKFKKPEGSWDCEV   70 (92)
T ss_dssp             -------------------------------------------------------------------------CCEECTT
T ss_pred             CCcCCCCC--cCCCEeccccceecccCCCCCCCCCccc---cccC------ccc---ccccccccccccCCCCCcccCCc
Confidence            57899999  8999999999999999999986432110   0000      000   000011111  2  579999999


Q ss_pred             CCccccccccccccCCCCCCC
Q 016532          221 CGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       221 c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      |.++|++.++.|+.|.+|||+
T Consensus        71 C~~~N~a~~~~C~~C~~pkp~   91 (92)
T 3gj8_B           71 CLVQNKADSTKCIACESAKPG   91 (92)
T ss_dssp             TCCEECSSCSBCTTTCCBCC-
T ss_pred             CCcCChhhcccccccCCCCCC
Confidence            999999999999999999996

>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=99.32  E-value=3.4e-12  Score=121.53  Aligned_cols=83  Identities=14%  Similarity=0.166  Sum_probs=70.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcC-ceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIG-LLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G-~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +..+|||+|||+.+|+++|.++|.+|| .|..        |.|+.++. +.++|||||+|.+.++|++||..|++..|.|
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~--------v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  186 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALS--------IRLPSLRF-NTSRRFAYIDVTSKEDARYCVEKLNGLKIEG  186 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCE--------EECC--------CCEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEE--------EEEEeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            568999999999999999999999999 9987        77888775 7899999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus       187 ~~l~v~~a~~~~~  199 (292)
T 2ghp_A          187 YTLVTKVSNPLEK  199 (292)
T ss_dssp             EECEEEECCCC--
T ss_pred             cEEEEEECCCCcc
Confidence            9999999987654

>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=99.30  E-value=4.5e-12  Score=119.58  Aligned_cols=76  Identities=18%  Similarity=0.236  Sum_probs=69.2

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.++|||+|||+++|+++|..+|++||.|..        |.|..      ++|||||+|.+.++|+.||..|++..|.+
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~------~kg~afV~f~~~~~A~~A~~~l~g~~i~g   85 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSE--------VFINR------DRGFGFIRLESRTLAEIAKAELDGTILKS   85 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCSE--------EEEET------TTTEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEE--------EEEeC------CCcEEEEEECCHHHHHHHHHHcCCcEECC
Confidence            34579999999999999999999999999988        66653      46999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      +.|.|.++.+
T Consensus        86 ~~l~v~~a~~   95 (261)
T 3sde_A           86 RPLRIRFATH   95 (261)
T ss_dssp             EECEEEECCC
T ss_pred             ceeEeeeccc
Confidence            9999999875

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

Probab=99.30  E-value=6.3e-12  Score=105.51  Aligned_cols=82  Identities=17%  Similarity=0.235  Sum_probs=71.4

Q ss_pred             CCCcEEEeccCCC--C---CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCC----CCCcccEEEEEeCCHHHHHHHHH
Q 016532            3 MANGSVYVCNLPH--G---TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT----TNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         3 ~~~~tlfV~nLp~--~---~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~----Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      .++.+|+|.||-.  +   -.+++|+++|++||.|..        |+|+.++.    ++.++||+||+|.++++|++||.
T Consensus        18 ~ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~--------v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~   89 (118)
T 3ue2_A           18 QESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNR--------VIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQ   89 (118)
T ss_dssp             HSCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEE--------EEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHH
T ss_pred             CCCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeE--------EEEeecCCCcccCCcceEEEEEEECCHHHHHHHHH
Confidence            3788999999842  2   236899999999999998        88888865    46788999999999999999999


Q ss_pred             HhCCceecCceEEEEeccc
Q 016532           74 WFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        74 ~lng~~i~Gr~I~V~~a~~   92 (388)
                      .|||..|.|+.|.|.++..
T Consensus        90 ~LnGr~f~GR~i~v~~~~~  108 (118)
T 3ue2_A           90 ALNGRWFAGRKVVAEVYDQ  108 (118)
T ss_dssp             HHTTCEETTEECEEEEECH
T ss_pred             HHCCCEECCcEEEEEEcCh
Confidence            9999999999999999854

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

Probab=99.29  E-value=1.4e-12  Score=106.86  Aligned_cols=72  Identities=18%  Similarity=0.229  Sum_probs=62.8

Q ss_pred             eccCCCCCCHHHHHHHH------------HhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532           10 VCNLPHGTDEDMLAEYF------------GTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus        10 V~nLp~~~teedL~~~F------------~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      +.+||..+++++|.++|            ++||.|..        |.|+.++. +.++|||||+|.++++|++|+..|||
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~--------v~i~~~~~-~~~~G~~fV~f~~~~~A~~A~~~lng   90 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEE--------MNVCDNLG-DHLVGNVYVKFRREEDAEKAVIDLNN   90 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEE--------EEECCSSS-SSSEEEEEEEESCHHHHHHHHHHHTT
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEE--------EEEEeCCC-CCccEEEEEEECCHHHHHHHHHHHCC
Confidence            45666677777777666            99999998        77888764 78999999999999999999999999


Q ss_pred             ceecCceEEEEec
Q 016532           78 KDFHGNLIGVFIA   90 (388)
Q Consensus        78 ~~i~Gr~I~V~~a   90 (388)
                      ..|.|+.|.|.++
T Consensus        91 ~~~~Gr~i~v~~s  103 (104)
T 1jmt_A           91 RWFNGQPIHAELS  103 (104)
T ss_dssp             CEETTEECCEEEC
T ss_pred             CEECCEEEEEEEc
Confidence            9999999999986

>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=99.28  E-value=8.7e-12  Score=108.79  Aligned_cols=85  Identities=20%  Similarity=0.307  Sum_probs=64.6

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecC-CCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDK-RTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~-~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++.+|||+|||+.+|+++|.++|++||.|.... ..+.+.+.+.    ++.++|||||+|.++++|++|| .|++..|.|
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~----~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g   77 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQ----INQDKNFAFLEFRSVDETTQAM-AFDGIIFQG   77 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEE----EETTTTEEEEEESSHHHHHHHG-GGTTCEETT
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeE----ecCCCCEEEEEeCCHHHHHHHH-HhCCcEecC
Confidence            578999999999999999999999994221100 0000111122    2346899999999999999999 799999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.|.++...
T Consensus        78 ~~i~v~~~~~~   88 (172)
T 2g4b_A           78 QSLKIRRPHDY   88 (172)
T ss_dssp             EECEEECCSSC
T ss_pred             ceeeecCCccc
Confidence            99999987654

>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA binding, ranbp2, RBZ, ZIS, alternative splicing, metal-binding, mRNA processing; NMR {Homo sapiens} PDB: 3g9y_A

Probab=99.22  E-value=4.5e-12  Score=82.30  Aligned_cols=31  Identities=52%  Similarity=1.242  Sum_probs=29.1

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      .++|||+|+.|+|+|||+|+.|++|++|||.
T Consensus         2 ~~~gDW~C~~C~~~Nfa~R~~C~~C~~pk~~   32 (33)
T 2k1p_A            2 SSANDWQCKTCSNVNWARRSECNMCNTPKYA   32 (33)
T ss_dssp             CSSSSCBCSSSCCBCCTTCSBCSSSCCBTTC
T ss_pred             CCCCCcccCCCCCccccccccccccCCcCCC
Confidence            3689999999999999999999999999985

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.22  E-value=1.9e-11  Score=120.42  Aligned_cols=76  Identities=21%  Similarity=0.254  Sum_probs=64.6

Q ss_pred             CCCCcEEEecc--CCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            2 TMANGSVYVCN--LPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         2 ~~~~~tlfV~n--Lp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      ..++.+|||+|  |+..+|+++|+++|++||.|..        |.|+.      +||||||+|.+.++|++||+.|||.+
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~--------v~~~~------~kgfaFV~f~~~~~A~~Ai~~lnG~~   80 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDA--------LLMPP------NKPYSFARYRTTEESKRAYVTLNGKE   80 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEE--------EECCT------TCSEEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEE--------EEEeC------CCCEEEEEECCHHHHHHHHHHhCCCc
Confidence            45778999998  5789999999999999999987        54432      47999999999999999999999998


Q ss_pred             ec---Cc--eEEEEecc
Q 016532           80 FH---GN--LIGVFIAE   91 (388)
Q Consensus        80 i~---Gr--~I~V~~a~   91 (388)
                      +.   |+  .|.|.++.
T Consensus        81 ~~~~~g~~~~ly~~~~~   97 (345)
T 3tht_A           81 VVDDLGQKITLYLNFVE   97 (345)
T ss_dssp             EECTTSCEEECEEEECS
T ss_pred             cccccCCceEEEEEEee
Confidence            84   34  57777774

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

Probab=99.21  E-value=9.6e-11  Score=95.41  Aligned_cols=77  Identities=19%  Similarity=0.152  Sum_probs=62.7

Q ss_pred             CcEEEeccCC-------CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            5 NGSVYVCNLP-------HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         5 ~~tlfV~nLp-------~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      ..+|-|.-..       ..+|+++|+++|++||.|..        |.|+     +.++|||||+|.+.++|+.||..+++
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~--------v~i~-----~~~rGfaFVeF~~~~~A~~Ai~~~~~   76 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLN--------LVLS-----SKKPGTAVVEFATVKAAELAVQNEVG   76 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEE--------EEEE-----SSSSSEEEEEESCHHHHHHHHHTCCB
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEE--------EEEc-----cCCCCEEEEEECCHHHHHHHHHhcCC
Confidence            3455555433       56899999999999999998        6676     36789999999999999999997554


Q ss_pred             ceecCceEEEEecccCCCC
Q 016532           78 KDFHGNLIGVFIAESRGKD   96 (388)
Q Consensus        78 ~~i~Gr~I~V~~a~~~~~~   96 (388)
                        +.++.|.|.++.++...
T Consensus        77 --~~g~~l~V~~a~~~~~~   93 (100)
T 2d9o_A           77 --LVDNPLKISWLEGQPQD   93 (100)
T ss_dssp             --CSSSBCEEECSSCCCCC
T ss_pred             --CCCCeEEEEEccCCCCC
Confidence              67999999999876543

>1n0z_A ZNF265; zinc finger, RNA splicing, transcription; NMR {Homo sapiens} SCOP: g.41.11.1

Probab=99.10  E-value=6e-11  Score=82.34  Aligned_cols=35  Identities=40%  Similarity=0.929  Sum_probs=31.8

Q ss_pred             CCCCCCCCccCC--CCCccccccccccccCCCCCCCC
Q 016532          208 TGLFGPNDWSCP--MCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       208 ~~~~~~~dw~c~--~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                      ...+++|||+|+  .|+++|||+|+.|++|++|||..
T Consensus         7 ~~~~~~GDW~C~~~~C~~~Nfa~R~~C~~C~~pr~~~   43 (45)
T 1n0z_A            7 NFRVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTG   43 (45)
T ss_dssp             SCSSCSSSCBCSSTTTCCBCCSSCSBCSSSCCBCCCC
T ss_pred             cCCCCCCCcCCCCCCCCCEEccccccccccCCcCCCC
Confidence            345889999999  99999999999999999999863

>2lk0_A RNA-binding protein 5; zinc finger; NMR {Homo sapiens} PDB: 2lk1_A*

Probab=99.08  E-value=2.6e-11  Score=78.09  Aligned_cols=30  Identities=37%  Similarity=0.695  Sum_probs=28.3

Q ss_pred             CCCCccCCCCCccccccccccccCCCCCCC
Q 016532          212 GPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       212 ~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      +.|||+|++|+++||++|+.|++|++|||.
T Consensus         2 k~gDW~C~~C~~~Nfa~r~~C~~C~~pr~~   31 (32)
T 2lk0_A            2 KFEDWLCNKCCLNNFRKRLKCFRCGADKFD   31 (32)
T ss_dssp             CCSEEECTTTCCEEETTCCBCTTTCCBTTC
T ss_pred             CCCCCCcCcCcCCcChhcceecCCCCcCCC
Confidence            569999999999999999999999999985

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

Probab=99.07  E-value=4e-10  Score=93.89  Aligned_cols=78  Identities=19%  Similarity=0.247  Sum_probs=64.6

Q ss_pred             CCCcEEEeccCCCCCC----------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 016532            3 MANGSVYVCNLPHGTD----------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV   72 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~t----------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai   72 (388)
                      .++..|.|.||=..-.          +++|+++|++||.|..        |.|.++.    ++||+||+|.+.++|++||
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~--------v~i~~~~----~~G~~fV~f~~~e~A~~Ai   72 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIH--------IYVDKNS----AQGNVYVKCPSIAAAIAAV   72 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSE--------EEECTTC----TTCCEEEECSSHHHHHHHH
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEE--------EEEecCC----CcEEEEEEECCHHHHHHHH
Confidence            4677888988732211          3578999999999987        6665542    5899999999999999999


Q ss_pred             HHhCCceecCceEEEEeccc
Q 016532           73 EWFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        73 ~~lng~~i~Gr~I~V~~a~~   92 (388)
                      ..|||..|.|+.|.|.++..
T Consensus        73 ~~lnG~~f~GR~i~v~~~~~   92 (114)
T 3s6e_A           73 NALHGRWFAGKMITAAYVPL   92 (114)
T ss_dssp             HHHTTCEETTEECEEEEECH
T ss_pred             HHhCCCEECCEEEEEEEEcH
Confidence            99999999999999999864

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

Probab=98.97  E-value=1.6e-09  Score=86.26  Aligned_cols=75  Identities=21%  Similarity=0.293  Sum_probs=63.7

Q ss_pred             CCCCcEEEeccCCC----CCCH----HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 016532            2 TMANGSVYVCNLPH----GTDE----DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         2 ~~~~~tlfV~nLp~----~~te----edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      =++..||+|.-+|.    +...    .+|.+.|++||.|..        |+|+.++        +||+|.+.++|.+||+
T Consensus         4 GPpd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~--------vr~~~d~--------~fVtF~d~~sAlaAi~   67 (91)
T 2dnr_A            4 GSSGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVIL--------IRFVEDK--------MWVTFLEGSSALNVLS   67 (91)
T ss_dssp             CCSSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEE--------EEECSSS--------EEEEESSHHHHHHGGG
T ss_pred             CCCCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEE--------EEEecCC--------EEEEECChHHHHHHHh
Confidence            46778999998772    3333    678899999999887        7788765        8999999999999999


Q ss_pred             HhCCceecCceEEEEecccC
Q 016532           74 WFNNKDFHGNLIGVFIAESR   93 (388)
Q Consensus        74 ~lng~~i~Gr~I~V~~a~~~   93 (388)
                       |||..+.|+.|+|+++++.
T Consensus        68 -mnG~~v~Gr~LkV~lkt~d   86 (91)
T 2dnr_A           68 -LNGKELLNRTITIALKSPS   86 (91)
T ss_dssp             -GTTCEETTEEEEEEECCCS
T ss_pred             -cCCeEeCCeEEEEEeCCCC
Confidence             9999999999999999864

>1n0z_A ZNF265; zinc finger, RNA splicing, transcription; NMR {Homo sapiens} SCOP: g.41.11.1

Probab=98.91  E-value=1e-09  Score=76.12  Aligned_cols=35  Identities=51%  Similarity=1.224  Sum_probs=32.3

Q ss_pred             cccCCCCCCCCCCCcccccccccccccCCCCCCCC
Q 016532          143 WQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG  177 (388)
Q Consensus       143 ~~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~  177 (388)
                      ..++|||+|++++|+++||++|+.||+|+++++++
T Consensus         9 ~~~~GDW~C~~~~C~~~Nfa~R~~C~~C~~pr~~~   43 (45)
T 1n0z_A            9 RVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTG   43 (45)
T ss_dssp             SSCSSSCBCSSTTTCCBCCSSCSBCSSSCCBCCCC
T ss_pred             CCCCCCcCCCCCCCCCEEccccccccccCCcCCCC
Confidence            45789999999999999999999999999999875

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.87  E-value=3.8e-09  Score=88.76  Aligned_cols=76  Identities=14%  Similarity=0.122  Sum_probs=66.3

Q ss_pred             CCCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCC-HHHHHHHHHHhC--Cc
Q 016532            3 MANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED-PHAALAAVEWFN--NK   78 (388)
Q Consensus         3 ~~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s-~e~A~~Ai~~ln--g~   78 (388)
                      .+...|||+||+.. ++.++|+++|++||.|..        |.++.+..      .|||.|.+ ..+|++||..|+  +.
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G~V~~--------Vd~~~g~~------tgfVrf~~~~~~A~~av~~ln~~~~   81 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHGEIKW--------IDFVRGAK------EGIILFKEKAKEALGKAKDANNGNL   81 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEE--------EECCTTCS------EEEEEESSCHHHHHHHHHHTTTSCB
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEE--------EEEecCCC------EEEEEECCChHHHHHHHHHhhcCCc
Confidence            45679999999999 999999999999999998        77777664      59999999 899999999995  77


Q ss_pred             eecCceEEEEeccc
Q 016532           79 DFHGNLIGVFIAES   92 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~   92 (388)
                      .|.+..+.|++..-
T Consensus        82 ~i~g~~~~~evL~G   95 (121)
T 1owx_A           82 QLRNKEVTWEVLEG   95 (121)
T ss_dssp             CTTSSSEEEEECCH
T ss_pred             EEeCcEEEEEECCC
Confidence            88999999887653

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.76  E-value=1.5e-08  Score=81.02  Aligned_cols=74  Identities=20%  Similarity=0.276  Sum_probs=62.3

Q ss_pred             CCCCcEEEeccCCCC------CCH---HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHH
Q 016532            2 TMANGSVYVCNLPHG------TDE---DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAV   72 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~------~te---edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai   72 (388)
                      =++..||+|.-++..      ..+   .+|.+.|.+||.|..        |+|+.++        +||+|.+.++|.+||
T Consensus        12 GPpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vil--------vr~v~d~--------~fVtF~d~~sAl~AI   75 (95)
T 1ufw_A           12 GPLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVL--------VRINQGQ--------MLVTFADSHSALSVL   75 (95)
T ss_dssp             CCTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSE--------EEEETTE--------EEEECSCSHHHHHHH
T ss_pred             CCCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEE--------EEEecCc--------EEEEEcChHHHHHHH
Confidence            467789999988743      332   568899999998887        7788765        999999999999999


Q ss_pred             HHhCCceecCceEEEEeccc
Q 016532           73 EWFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        73 ~~lng~~i~Gr~I~V~~a~~   92 (388)
                      + |+|..|.|+.|+|.+..+
T Consensus        76 ~-ldG~~v~Gr~L~V~~k~~   94 (95)
T 1ufw_A           76 D-VDGMKVKGRAVKISGPSS   94 (95)
T ss_dssp             H-GGGSEETTEEEEEECCCC
T ss_pred             h-cCCeeeCCeEEEEeccCC
Confidence            9 999999999999997643

>2k1p_A Zinc finger RAN-binding domain-containing protein 2; ZNF265, RNA binding, ranbp2, RBZ, ZIS, alternative splicing, metal-binding, mRNA processing; NMR {Homo sapiens} PDB: 3g9y_A

Probab=98.75  E-value=4.8e-09  Score=67.91  Aligned_cols=30  Identities=47%  Similarity=0.991  Sum_probs=28.2

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPV  176 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~  176 (388)
                      ++|||+|+  .|+++||++|..|++|++|++.
T Consensus         3 ~~gDW~C~--~C~~~Nfa~R~~C~~C~~pk~~   32 (33)
T 2k1p_A            3 SANDWQCK--TCSNVNWARRSECNMCNTPKYA   32 (33)
T ss_dssp             SSSSCBCS--SSCCBCCTTCSBCSSSCCBTTC
T ss_pred             CCCCcccC--CCCCccccccccccccCCcCCC
Confidence            68999999  8999999999999999999874

>2lk0_A RNA-binding protein 5; zinc finger; NMR {Homo sapiens} PDB: 2lk1_A*

Probab=98.68  E-value=4.5e-09  Score=67.57  Aligned_cols=30  Identities=37%  Similarity=0.755  Sum_probs=28.1

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPV  176 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~  176 (388)
                      +.|||+|+  .|+++||++|..|++|++|+++
T Consensus         2 k~gDW~C~--~C~~~Nfa~r~~C~~C~~pr~~   31 (32)
T 2lk0_A            2 KFEDWLCN--KCCLNNFRKRLKCFRCGADKFD   31 (32)
T ss_dssp             CCSEEECT--TTCCEEETTCCBCTTTCCBTTC
T ss_pred             CCCCCCcC--cCcCCcChhcceecCCCCcCCC
Confidence            57999999  7999999999999999999986

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

Probab=98.58  E-value=9.3e-08  Score=87.59  Aligned_cols=69  Identities=19%  Similarity=0.264  Sum_probs=60.5

Q ss_pred             CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCC----CCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEecc
Q 016532           16 GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT----TNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE   91 (388)
Q Consensus        16 ~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~----Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a~   91 (388)
                      .-.+++|.+.|++||.|..        |.|+.+..    |+.++|++||+|.+.++|++||..|||..|.|+.|.|.++.
T Consensus       140 ~e~~~dl~~e~~~~G~v~~--------~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNR--------VIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEE--------EEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHHHccCCeEE--------EEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            3456789999999999998        77875543    45899999999999999999999999999999999999975


Q ss_pred             c
Q 016532           92 S   92 (388)
Q Consensus        92 ~   92 (388)
                      .
T Consensus       212 ~  212 (222)
T 3dxb_A          212 Q  212 (222)
T ss_dssp             H
T ss_pred             H
Confidence            3

>3gj8_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.82A {Rattus norvegicus} PDB: 3gj4_B*

Probab=98.46  E-value=3.1e-08  Score=79.33  Aligned_cols=80  Identities=25%  Similarity=0.372  Sum_probs=22.9

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCCCCCCCCc-----cccCCCCCCcchHHHHHHHHhhhhhhhcCCccccccC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGVR-----GGRGGGYKELDEEELEETKRRRREAEADDGELYDEFG  285 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~~~~~~~-----~g~ggg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  285 (388)
                      .++|+|.|+.|.++||+.++.|+.|.+|||.......-     ....++...++     ..+      ....+|+|+.|.
T Consensus         4 ~~~g~W~C~~C~~~N~~~~~~C~~C~~pkp~~~~~~~~~~~~~~~~~~~~~g~~-----~f~------~~~g~W~C~~C~   72 (92)
T 3gj8_B            4 GSVGSWECPVCCVSNKAEDSRCVSCTSEKPGLVSASSSNSVPVSLPSGGCLGLD-----KFK------KPEGSWDCEVCL   72 (92)
T ss_dssp             -----------------------------------------------------------------------CCEECTTTC
T ss_pred             CCCcCCCCCcCCCEeccccceecccCCCCCCCCCccccccCccccccccccccc-----ccC------CCCCcccCCcCC
Confidence            36789999999999999999999999999974321100     00111111111     001      124789999999


Q ss_pred             cccccccccchhhhhc
Q 016532          286 NLKKKFRAKTQQVEAA  301 (388)
Q Consensus       286 ~~~~~~~~~~~~~~~~  301 (388)
                      .+|+..+.+|..++.+
T Consensus        73 ~~N~a~~~~C~~C~~p   88 (92)
T 3gj8_B           73 VQNKADSTKCIACESA   88 (92)
T ss_dssp             CEECSSCSBCTTTCCB
T ss_pred             cCChhhcccccccCCC
Confidence            9999999999987765

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.04  E-value=2.1e-05  Score=64.35  Aligned_cols=72  Identities=15%  Similarity=0.268  Sum_probs=61.8

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhc-----CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTI-----GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~-----G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      ..+|-|-+||..++...|+.++..+     |.|..        |.+..|-      +-|+|+|.+...|.+|.-.|+|.+
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~K--------I~L~pDH------~GAivef~d~~~AgKasLaL~G~e   86 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRK--------ILLVSDF------NGAIIIFRDSKFAAKMLMILNGSQ   86 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSE--------EEEETTT------TEEEEECSCHHHHHHHHHHHSSEE
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhhhhccCccceeE--------EEEecCC------CceEEEEccchhhHHHHhhcCCee
Confidence            5788899999999999999999999     66654        4444443      579999999999999999999999


Q ss_pred             ecCceEEEEec
Q 016532           80 FHGNLIGVFIA   90 (388)
Q Consensus        80 i~Gr~I~V~~a   90 (388)
                      |.|++|++--.
T Consensus        87 f~gr~Lr~gTv   97 (117)
T 2l9w_A           87 FQGKVIRSGTI   97 (117)
T ss_dssp             ETTEEEEEECH
T ss_pred             ecCeEEEecCH
Confidence            99999998653

>3gj3_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.79A {Rattus norvegicus} SCOP: g.41.11.1 PDB: 2gqe_A

Probab=97.80  E-value=7.6e-06  Score=52.63  Aligned_cols=32  Identities=38%  Similarity=0.826  Sum_probs=26.7

Q ss_pred             CCCCCCccCCCCCccccccccccccCCCCCCC
Q 016532          210 LFGPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       210 ~~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      +..++.|.|+.|-..|++....|..|.+|||+
T Consensus         2 ~~~~g~W~C~~C~~~N~~~~~kC~aC~tpkPg   33 (33)
T 3gj3_B            2 PLGSGTWDCDTCLVQNKPEAVKCVACETPKPG   33 (33)
T ss_dssp             ----CCEECTTTCCEECTTCSBCTTTCCBCC-
T ss_pred             CCCCCceeCCcccCCCccccCEEcccCCCCCC
Confidence            45789999999999999999999999999984

>3gj5_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.79A {Rattus norvegicus} SCOP: g.41.11.1

Probab=97.73  E-value=1.1e-05  Score=52.17  Aligned_cols=33  Identities=42%  Similarity=0.930  Sum_probs=25.9

Q ss_pred             CCCCCCCccCCCCCccccccccccccCCCCCCC
Q 016532          209 GLFGPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       209 ~~~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      |+|.+|.|.|..|-..|.+....|..|.+|||+
T Consensus         1 ~~~~~G~W~C~~C~v~N~~~~~kC~aCet~Kpg   33 (34)
T 3gj5_B            1 GPLGSGSWDCEVCLVQNKADSTKCIACESAKPG   33 (34)
T ss_dssp             -----CCEECTTTCCEECSSCSBCTTTCCBC--
T ss_pred             CCCCCCceECCeeEeECccccCEEcccCCcCCC
Confidence            357899999999999999999999999999996

>3gj7_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.93A {Rattus norvegicus} PDB: 2k0c_A 3ch5_B* 3gj6_B*

Probab=97.58  E-value=2.1e-05  Score=63.40  Aligned_cols=87  Identities=29%  Similarity=0.512  Sum_probs=26.7

Q ss_pred             CCCCCCCCCCCcccccccccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCC--CCCCccCCC
Q 016532          146 DGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAAT---GLF--GPNDWSCPM  220 (388)
Q Consensus       146 ~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~---~~~--~~~dw~c~~  220 (388)
                      ...|.|.  .|-..|.+.-..|..|..+++....... .   .+.   ...............   ..|  ..+.|.|..
T Consensus         7 ~~~W~C~--~C~~~N~~~~~kC~aC~~pr~~~~~~~~-~---~~~---~~~s~~~~~~~~~~~gfgd~fk~~~g~W~C~~   77 (98)
T 3gj7_B            7 GSSWQCD--TCLLQNKVTDNKCIACQAAKLPLKETAK-Q---TGI---GTPSKSDKPASTSGTGFGDKFKPAIGTWDCDT   77 (98)
T ss_dssp             -------------------------------------------------------------------------CCEECTT
T ss_pred             CCcccCC--ccccCChhhcccccccCCCCCCCccccc-c---cCc---cCcccccccccccccchhhccCCCCCcccCCc
Confidence            4579999  8999999999999999999985421100 0   000   000000000000000   112  479999999


Q ss_pred             CCccccccccccccCCCCCCC
Q 016532          221 CGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       221 c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      |-..|.+....|..|.+|||+
T Consensus        78 C~~~N~~~~~~C~aC~tpkPg   98 (98)
T 3gj7_B           78 CLVQNKPEAVKCVACETPKPG   98 (98)
T ss_dssp             TCCEECTTCSBCTTTCCBCC-
T ss_pred             CcCCChhhcceecccCCCCCC
Confidence            999999999999999999984

>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=97.42  E-value=3.5e-05  Score=78.02  Aligned_cols=19  Identities=21%  Similarity=0.172  Sum_probs=14.3

Q ss_pred             cCCCCCCHHHHHHHHHhcCceeec
Q 016532           12 NLPHGTDEDMLAEYFGTIGLLKKD   35 (388)
Q Consensus        12 nLp~~~teedL~~~F~~~G~i~~~   35 (388)
                      -||++     |..+|.+++.|..+
T Consensus         4 ~lPp~-----L~~lF~p~pPl~~~   22 (437)
T 3pgw_S            4 FLPPN-----LLALFAPRDPIPYL   22 (437)
T ss_pred             cCCcc-----HHHhcCCCCCCcCC
Confidence            46664     67899999988763

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.20  E-value=0.00068  Score=54.93  Aligned_cols=77  Identities=12%  Similarity=0.242  Sum_probs=62.0

Q ss_pred             CCcEEEeccCCCCC-C----HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            4 ANGSVYVCNLPHGT-D----EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         4 ~~~tlfV~nLp~~~-t----eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      -+++|+|.||+..+ +    .+.|+++|.+|+.+..        ...++      |-.-..|.|.++++|.+|-..|++.
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~t--------F~~lk------SFRRirv~F~~~~~A~~AR~~Lh~~   69 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTT--------FQYFK------SFKRVRINFSNPLSAADARLRLHKT   69 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCE--------EEEET------TTTEEEEECSSTTHHHHHHHTSTTS
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcc--------eeecC------cceEEEEEeCChHHHHHHHHHhccc
Confidence            46789999998755 2    2577899999998876        33332      2235789999999999999999999


Q ss_pred             eecCceEEEEecccCC
Q 016532           79 DFHGNLIGVFIAESRG   94 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~   94 (388)
                      .|+|+.|+|-++++..
T Consensus        70 ~f~g~~~r~YFgq~~~   85 (104)
T 1wey_A           70 EFLGKEMKLYFAQTLH   85 (104)
T ss_dssp             EETTEECEEECCCCSS
T ss_pred             eecCceeEEEecCCCC
Confidence            9999999999998543

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.15  E-value=0.0013  Score=52.66  Aligned_cols=54  Identities=20%  Similarity=0.267  Sum_probs=45.7

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF   75 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l   75 (388)
                      ...++| .+|+.+...||.++|+.||.|.         |..+-|-       -|||.|.+++.|..||..+
T Consensus        16 ~HVf~l-~FP~ewKt~DI~~lFs~fggv~---------I~WidDT-------sAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           16 DHVLHV-TFPKEWKTSDLYQLFSAFGNIQ---------ISWIDDT-------SAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CSEEEE-ECCTTCCHHHHHHHHTTTCSCC---------CEEEETT-------EEEEECSCHHHHHHHHHHH
T ss_pred             CeEEEE-eCChhhhhHHHHHHhhccCCEE---------EEEEcCC-------eEEEEecCHHHHHHHHHhc
Confidence            345666 9999999999999999999765         5566653       6999999999999999976

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=97.09  E-value=0.0038  Score=49.47  Aligned_cols=79  Identities=14%  Similarity=0.120  Sum_probs=58.0

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNE--YKGDATVTYEDPHAALAAVEWFNNKDFHG-   82 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~--srG~aFVeF~s~e~A~~Ai~~lng~~i~G-   82 (388)
                      ++|.|..||+.+||+++.+.++....+..        ...+..+.+..  .-.-|||.|.+.+++......++|..|.+ 
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~--------~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D~   73 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDY--------FEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEE--------EEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceE--------EEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEcC
Confidence            57999999999999999999988765443        23333332222  23469999999999999999999998864 


Q ss_pred             ----ceEEEEeccc
Q 016532           83 ----NLIGVFIAES   92 (388)
Q Consensus        83 ----r~I~V~~a~~   92 (388)
                          ....|++|-.
T Consensus        74 kg~~~~a~VE~AP~   87 (91)
T 1uw4_A           74 KGQEYPAIVEFAPF   87 (91)
T ss_dssp             TCCEEECEEEECSS
T ss_pred             CCCEeeeEEEEcCC
Confidence                2335666543

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.06  E-value=0.011  Score=47.74  Aligned_cols=75  Identities=21%  Similarity=0.311  Sum_probs=57.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHh----c-CceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGT----I-GLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK   78 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~----~-G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~   78 (388)
                      ...+|.|.|||+.+.++.|+-+|+.    - |.|..        |.  ...      .-|+|+|.+...|+..|. -...
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~--------v~--~~~------~~AvItF~d~~va~rVL~-k~~H   69 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLS--------WQ--RLG------CGGVLTFREPADAERVLA-QADH   69 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEE--------EE--EET------TEEEEEESSHHHHHHHHT-CSCC
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeE--------EE--EcC------CcEEEEEcChHHHHHHhc-CCcc
Confidence            4578999999999999999999987    2 45544        33  322      569999999999999887 3356


Q ss_pred             eecCceEEEEecccCCC
Q 016532           79 DFHGNLIGVFIAESRGK   95 (388)
Q Consensus        79 ~i~Gr~I~V~~a~~~~~   95 (388)
                      .|.+..|.|....+...
T Consensus        70 ~L~~~~LsV~P~~~~~~   86 (104)
T 2dhx_A           70 ELHGAQLSLRPAPPRAP   86 (104)
T ss_dssp             BSSSSBCEEEECCCCCC
T ss_pred             eecCeEEEEEcCCCCCc
Confidence            78899999987655443

>2ebr_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.99  E-value=0.00062  Score=47.23  Aligned_cols=33  Identities=36%  Similarity=0.737  Sum_probs=30.6

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN  243 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~~  243 (388)
                      +.+|.|.|+.|-..|.|-...|..|.+|||...
T Consensus         7 ~~~gsW~C~~C~v~N~a~~~kC~aC~~pkpg~~   39 (47)
T 2ebr_A            7 GPEGSWDCELCLVQNKADSTKCLACESAKPGTK   39 (47)
T ss_dssp             SCCSSCCCSSSCCCCCSSCSBCSSSCCBCCCCC
T ss_pred             CCCCeeECCeeecCCcCCcceecCcCCCCCCCc
Confidence            567999999999999999999999999999864

>2ebq_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.92  E-value=0.0006  Score=47.23  Aligned_cols=33  Identities=33%  Similarity=0.595  Sum_probs=30.3

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPGHN  243 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~~  243 (388)
                      -.+|.|.|..|-..|.+-...|..|.+|||...
T Consensus         7 ~~~g~W~C~~C~v~N~a~~~kC~aCetpKpgs~   39 (47)
T 2ebq_A            7 GVIGTWDCDTCLVQNKPEAIKCVACETPKPGTC   39 (47)
T ss_dssp             CCSSSEECSSSCCEECSSCSBCSSSCCBCSCSS
T ss_pred             CCCCceECCeeeccCccCCceecCcCCCCCCCc
Confidence            467899999999999999999999999999753

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=96.78  E-value=0.0014  Score=52.61  Aligned_cols=54  Identities=20%  Similarity=0.255  Sum_probs=45.6

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      ..++| ++|+.+...||.++|+.||.|.         |..+-|-       -|||.|.+++.|..||..+.
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~fggv~---------I~WidDT-------sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAFGNIQ---------ISWIDDT-------SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTSEEEE---------EEEEETT-------EEEEEEEEECHHHHHHHHHT
T ss_pred             eEEEE-eCChhhhhHHHHHHHhccCCEE---------EEEEcCC-------eEEEEecCHHHHHHHHHhcc
Confidence            35566 9999999999999999999665         5566653       69999999999999999764

>2d9g_A YY1-associated factor 2; ZF-ranbp domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.77  E-value=0.001  Score=47.35  Aligned_cols=32  Identities=28%  Similarity=0.581  Sum_probs=28.7

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                      ...+.|.|+.|.++|++....|-+|.+|++..
T Consensus         7 ~~~~~W~C~~CT~~N~~~~~~C~~C~~pr~~s   38 (53)
T 2d9g_A            7 GDEGYWDCSVCTFRNSAEAFKCMMCDVRKGTS   38 (53)
T ss_dssp             SCCCCEECSSSCCEECSSCSSCSSSCCCCCCC
T ss_pred             CCCCCcCCCCCccCCCCCCCccCCCCCcCCcc
Confidence            34568999999999999999999999999863

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=96.28  E-value=0.0062  Score=48.72  Aligned_cols=79  Identities=16%  Similarity=0.173  Sum_probs=53.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCC--cccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNE--YKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~--srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +-+|.|..||+.+||+++.+.++.+-.+.-        ...+..+.+-+  .-.-|||.|.+.+++....+.++|..|.+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~--------~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~D   80 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDY--------FEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLD   80 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEE--------CCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEEC
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccce--------EEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEe
Confidence            457999999999999998876665432211        00111111111  12468999999999999999999998874


Q ss_pred             -----ceEEEEecc
Q 016532           83 -----NLIGVFIAE   91 (388)
Q Consensus        83 -----r~I~V~~a~   91 (388)
                           .+..|++|.
T Consensus        81 ~kg~~~~a~VE~AP   94 (97)
T 2l08_A           81 SKGLEYPAVVEFAP   94 (97)
T ss_dssp             TTCCEEEEEEEECC
T ss_pred             CCCCEeeeEEEecC
Confidence                 344566654

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=96.25  E-value=0.0094  Score=50.19  Aligned_cols=89  Identities=21%  Similarity=0.274  Sum_probs=57.4

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeE--EEE---ecCCCC-CcccEEEEEeCCHHHHHHHHHHh
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKV--WLY---RDKTTN-EYKGDATVTYEDPHAALAAVEWF   75 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V--~i~---~dk~Tg-~srG~aFVeF~s~e~A~~Ai~~l   75 (388)
                      +.....|.|-+.|+..+. .|.+.|++||.|........+..  .+.   ..+... ....+..|+|.+..+|.+||. .
T Consensus         4 ~~~e~~VtVFGFp~~~~~-~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~-~   81 (132)
T 3p3d_A            4 SNGELAILVFGYPETMAN-QVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALL-E   81 (132)
T ss_dssp             ----CEEEEECCCGGGHH-HHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHT-T
T ss_pred             ccCceEEEEEecCHHHHH-HHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHH-h
Confidence            345678889999877655 46678999999987310000000  000   000000 124688999999999999998 8


Q ss_pred             CCceecCceEEEEeccc
Q 016532           76 NNKDFHGNLIGVFIAES   92 (388)
Q Consensus        76 ng~~i~Gr~I~V~~a~~   92 (388)
                      ||..|.|..|-|.+..+
T Consensus        82 NG~ii~G~mIGV~Py~~   98 (132)
T 3p3d_A           82 NGAVFNGVLLGVIPYTK   98 (132)
T ss_dssp             TTCEETTEECEEEECCH
T ss_pred             CCeEeCcEEEEEEECCH
Confidence            99999999999988653

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=96.21  E-value=0.017  Score=47.91  Aligned_cols=71  Identities=18%  Similarity=0.203  Sum_probs=55.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG-   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G-   82 (388)
                      ...-|.|-+.|+.. ...|...|++||.|..        ...   .   ....+-.|.|.+..+|++||. .||..|.+ 
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~--------~~~---~---~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~   86 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQYGNILK--------HVM---S---NTGNWMHIRYQSKLQARKALS-KDGRIFGES   86 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHTTSCEEE--------EEE---C---SSSSEEEEEESSHHHHHHHHT-TTTCEETTT
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHhhCcEEE--------ecc---C---CCCCeEEEEeCCHHHHHHHHH-hCCeEecCC
Confidence            35678899999886 5667788999999987        222   1   124699999999999999998 79999985 


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      -.|-|...
T Consensus        87 ~mIGV~p~   94 (119)
T 1wwh_A           87 IMIGVKPC   94 (119)
T ss_dssp             EECEEEEC
T ss_pred             EEEEEEEC
Confidence            67777764

>3a9j_C Mitogen-activated protein kinase kinase kinase 7- interacting protein 2; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 2wwz_C 2wx0_C 2wx1_C 3a9k_C

Probab=95.86  E-value=0.0045  Score=39.75  Aligned_cols=28  Identities=21%  Similarity=0.725  Sum_probs=25.9

Q ss_pred             CCCccCCCCCccccccccccccCCCCCC
Q 016532          213 PNDWSCPMCGNINWAKRTKCNICNTNKP  240 (388)
Q Consensus       213 ~~dw~c~~c~~~n~~~~~~c~~c~~~~~  240 (388)
                      ...|.|+.|-++|......|-+|.++++
T Consensus         6 ~~~W~C~~CT~~N~~~~~~Ce~C~~~r~   33 (34)
T 3a9j_C            6 GAQWNCTACTFLNHPALIRCEQCEMPRH   33 (34)
T ss_dssp             CCCEECTTTCCEECTTCSBCTTTCCBSC
T ss_pred             CCcCCCCCCccccCCCCCeeCCCCCcCc
Confidence            4579999999999999999999999876

>2ebv_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=95.86  E-value=0.0051  Score=44.30  Aligned_cols=31  Identities=35%  Similarity=0.760  Sum_probs=29.0

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      +.++.|.|..|--.|-+-...|.-|.+|||+
T Consensus        27 ~~~GsWeC~~C~V~N~a~~~kC~ACetpKPG   57 (57)
T 2ebv_A           27 RPIGSWECSVCCVSNNAEDNKCVSCMSEKPG   57 (57)
T ss_dssp             CCSSSCCCSSSCCCCCSSCSBCSSSCCBCCC
T ss_pred             CCCCeeeCCeeEccCccCCceeeEcCCcCCC
Confidence            4589999999999999999999999999984

>1nj3_A NPL4; NZF domain, rubredoxin knuckle, beta-ribbon, zinc- finger, ubiquitin, protein binding; NMR {Rattus norvegicus} SCOP: g.41.11.1 PDB: 1q5w_A

Probab=95.82  E-value=0.0047  Score=38.81  Aligned_cols=26  Identities=23%  Similarity=0.759  Sum_probs=24.5

Q ss_pred             CCccCCCCCccccccccccccCCCCC
Q 016532          214 NDWSCPMCGNINWAKRTKCNICNTNK  239 (388)
Q Consensus       214 ~dw~c~~c~~~n~~~~~~c~~c~~~~  239 (388)
                      ..|.|+.|.++|......|.+|.+|+
T Consensus         5 ~~W~C~~CTf~N~~~~~~Ce~C~~~r   30 (31)
T 1nj3_A            5 AMWACQHCTFMNQPGTGHCEMCSLPR   30 (31)
T ss_dssp             CCEECSSSCCEECSSCSSCSSSCCCC
T ss_pred             ccccCCcccccCCCCCCccCCcCCCC
Confidence            47999999999999999999999986

>2crc_A Ubiquitin conjugating enzyme 7 interacting protein 3; ZF-ranbp domain, hepatitis B virus X-associated protein 4, HBV associated factor 4; NMR {Homo sapiens}

Probab=95.38  E-value=0.016  Score=40.99  Aligned_cols=30  Identities=37%  Similarity=0.933  Sum_probs=27.5

Q ss_pred             CCCccCCCCCccccccccccccCCCCCCCC
Q 016532          213 PNDWSCPMCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       213 ~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                      ...|.|+.|.++|-.....|-+|.++++..
T Consensus         8 ~~~W~Cp~CTf~N~p~~~~CemC~~prp~~   37 (52)
T 2crc_A            8 PVGWQCPGCTFINKPTRPGCEMCCRARPEA   37 (52)
T ss_dssp             SSSBCCTTTCCCBCTTCSSCSSSCCCCCTT
T ss_pred             CCCccCCCcccccCCCCCeeCCCCCcCCcc
Confidence            348999999999999999999999999874

>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=95.02  E-value=0.019  Score=48.88  Aligned_cols=42  Identities=17%  Similarity=0.086  Sum_probs=32.6

Q ss_pred             EEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532           43 VWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus        43 V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +.|+++..  .++|||||+|.+.++|++||..+++.......+.
T Consensus         3 ~kl~ln~~--~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~   44 (158)
T 2kn4_A            3 YKLILNGK--TLKGETTTEAVDAATAEKVFKQYANDNGVDGEWT   44 (158)
T ss_dssp             EEEEEECS--SCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEE
T ss_pred             EEEEecCc--cccchhHHHHHHHHhHHHHHHhhcccCCCCCccc
Confidence            66888875  6899999999999999999998876543333333

>3gj7_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.93A {Rattus norvegicus} PDB: 2k0c_A 3ch5_B* 3gj6_B*

Probab=94.96  E-value=0.0065  Score=48.76  Aligned_cols=76  Identities=21%  Similarity=0.224  Sum_probs=21.7

Q ss_pred             CCCccCCCCCccccccccccccCCCCCCCCCCCCC-------------ccccCCCCCCcchHHHHHHHHhhhhhhhcCCc
Q 016532          213 PNDWSCPMCGNINWAKRTKCNICNTNKPGHNEGGV-------------RGGRGGGYKELDEEELEETKRRRREAEADDGE  279 (388)
Q Consensus       213 ~~dw~c~~c~~~n~~~~~~c~~c~~~~~~~~~~~~-------------~~g~ggg~~~~~~~~~~~~~~~~~~~~~~~~~  279 (388)
                      ...|.|..|-..|++.-..|..|.+||+.......             -.....||.+...             .....|
T Consensus         7 ~~~W~C~~C~~~N~~~~~kC~aC~~pr~~~~~~~~~~~~~~~s~~~~~~~~~~~gfgd~fk-------------~~~g~W   73 (98)
T 3gj7_B            7 GSSWQCDTCLLQNKVTDNKCIACQAAKLPLKETAKQTGIGTPSKSDKPASTSGTGFGDKFK-------------PAIGTW   73 (98)
T ss_dssp             -----------------------------------------------------------------------------CCE
T ss_pred             CCcccCCccccCChhhcccccccCCCCCCCcccccccCccCcccccccccccccchhhccC-------------CCCCcc
Confidence            45799999999999999999999999986421100             0112345554331             124779


Q ss_pred             cccccCcccccccccchhhhhc
Q 016532          280 LYDEFGNLKKKFRAKTQQVEAA  301 (388)
Q Consensus       280 ~~~~~g~~~~~~~~~~~~~~~~  301 (388)
                      .|+.|-..|+..-.+|..++.+
T Consensus        74 ~C~~C~~~N~~~~~~C~aC~tp   95 (98)
T 3gj7_B           74 DCDTCLVQNKPEAVKCVACETP   95 (98)
T ss_dssp             ECTTTCCEECTTCSBCTTTCCB
T ss_pred             cCCcCcCCChhhcceecccCCC
Confidence            9999999999999988877665

>2c6a_A Ubiquitin-protein ligase E3 MDM2; zinc finger, human MDM2, phosphorylation, alternative splicing, metal-binding, nuclear protein, proto- oncogene; NMR {Homo sapiens} SCOP: g.41.11.1 PDB: 2c6b_A

Probab=94.80  E-value=0.012  Score=40.23  Aligned_cols=29  Identities=24%  Similarity=0.675  Sum_probs=26.6

Q ss_pred             CCCccCCCCCccccccccccccCCCCCCC
Q 016532          213 PNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       213 ~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      ++.|+|+.|...|....-.|++|-+-+..
T Consensus        11 ~D~WkC~~C~~~N~Pl~r~C~rCw~LRk~   39 (46)
T 2c6a_A           11 ADYWKCTSCNEMNPPLPSHCNRCWALREN   39 (46)
T ss_dssp             GGCEECTTTCCEECSSCSSCTTTCCCCSS
T ss_pred             cceEecccccccCCCccchhhHHHhhccc
Confidence            48899999999999999999999998764

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=94.50  E-value=0.022  Score=57.86  Aligned_cols=54  Identities=15%  Similarity=0.268  Sum_probs=39.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      .+|||. .|..+++.+|.++|++||.|..        +..+.++  |   -||.|+|.+.+++..++.
T Consensus        54 rsv~v~-~~~~~~~~~l~~y~~~~g~i~~--------~~~~~~~--g---~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           54 RTVLIH-CPEKISENKFLKYLSQFGPINN--------HFFYESF--G---LYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             TEEEEE-ECCC---CHHHHHHGGGSCCCC--------EEEECSS--S---EEEEEECC---CCHHHHS
T ss_pred             ceEEEE-cCCCCCHHHHHHHHHhcCCcce--------EEEEccC--C---eEEEEEeCCHHHHHHHHh
Confidence            689998 7999999999999999999998        4444433  2   699999999999987764

>2ebr_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.04  E-value=0.09  Score=36.28  Aligned_cols=33  Identities=30%  Similarity=0.577  Sum_probs=29.9

Q ss_pred             ccCCCCCCCCCCCcccccccccccccCCCCCCCCC
Q 016532          144 QQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGG  178 (388)
Q Consensus       144 ~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~  178 (388)
                      +..|.|.|.  .|-..|.+....|..|.+|++...
T Consensus         7 ~~~gsW~C~--~C~v~N~a~~~kC~aC~~pkpg~~   39 (47)
T 2ebr_A            7 GPEGSWDCE--LCLVQNKADSTKCLACESAKPGTK   39 (47)
T ss_dssp             SCCSSCCCS--SSCCCCCSSCSBCSSSCCBCCCCC
T ss_pred             CCCCeeECC--eeecCCcCCcceecCcCCCCCCCc
Confidence            457999999  899999999999999999999764

>2ebq_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=93.73  E-value=0.05  Score=37.54  Aligned_cols=34  Identities=26%  Similarity=0.417  Sum_probs=30.1

Q ss_pred             cccCCCCCCCCCCCcccccccccccccCCCCCCCCC
Q 016532          143 WQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVGG  178 (388)
Q Consensus       143 ~~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~~  178 (388)
                      -...|.|.|.  .|-..|.+-...|+.|.+|++...
T Consensus         6 ~~~~g~W~C~--~C~v~N~a~~~kC~aCetpKpgs~   39 (47)
T 2ebq_A            6 SGVIGTWDCD--TCLVQNKPEAIKCVACETPKPGTC   39 (47)
T ss_dssp             CCCSSSEECS--SSCCEECSSCSBCSSSCCBCSCSS
T ss_pred             CCCCCceECC--eeeccCccCCceecCcCCCCCCCc
Confidence            3457899999  899999999999999999998653

>3b08_B Ranbp-type and C3HC4-type zinc finger-containing; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Mus musculus} PDB: 3b0a_B*

Probab=93.70  E-value=0.026  Score=41.58  Aligned_cols=29  Identities=34%  Similarity=0.883  Sum_probs=27.1

Q ss_pred             CCccCCCCCccccccccccccCCCCCCCC
Q 016532          214 NDWSCPMCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       214 ~dw~c~~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                      ..|.|+.|.++|-.....|-+|.++++..
T Consensus         7 ~~W~CP~CTf~N~p~~p~CEmC~~prp~~   35 (64)
T 3b08_B            7 VGWQCPGCTFINKPTRPGCEMCCRARPET   35 (64)
T ss_dssp             CSEECTTTCCEECTTCSBCTTTCCBCCSS
T ss_pred             CCCcCCCccccCCCCCCccCcCCCCCCcc
Confidence            47999999999999999999999999874

>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=92.94  E-value=0.04  Score=46.50  Aligned_cols=41  Identities=20%  Similarity=0.173  Sum_probs=37.2

Q ss_pred             CCcccEEEEEeCCHHHHHHHHHHh-CCceecCceEEEEecccC
Q 016532           52 NEYKGDATVTYEDPHAALAAVEWF-NNKDFHGNLIGVFIAESR   93 (388)
Q Consensus        52 g~srG~aFVeF~s~e~A~~Ai~~l-ng~~i~Gr~I~V~~a~~~   93 (388)
                      ...+|+++|+|.+.++|++||+.| |+..|.| .|.|.++..+
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~   51 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKT   51 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTE
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCc
Confidence            467899999999999999999999 9999999 9999988654

>3gj5_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.79A {Rattus norvegicus} SCOP: g.41.11.1

Probab=92.83  E-value=0.043  Score=35.27  Aligned_cols=30  Identities=33%  Similarity=0.651  Sum_probs=25.2

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPV  176 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~  176 (388)
                      .+|.|.|.  .|-..|.+...+|..|.+++|.
T Consensus         4 ~~G~W~C~--~C~v~N~~~~~kC~aCet~Kpg   33 (34)
T 3gj5_B            4 GSGSWDCE--VCLVQNKADSTKCIACESAKPG   33 (34)
T ss_dssp             --CCEECT--TTCCEECSSCSBCTTTCCBC--
T ss_pred             CCCceECC--eeEeECccccCEEcccCCcCCC
Confidence            57899999  8999999999999999999983

>3gj3_B Nuclear pore complex protein NUP153; G protein, GDP, RAN, zinc finger, acetylation, cytoplasm, GTP-binding, HOST-virus interaction; HET: GDP; 1.79A {Rattus norvegicus} SCOP: g.41.11.1 PDB: 2gqe_A

Probab=92.75  E-value=0.048  Score=34.81  Aligned_cols=29  Identities=31%  Similarity=0.679  Sum_probs=26.0

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARP  175 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~  175 (388)
                      ..|.|.|+  .|-..|.+.-..|..|.+|||
T Consensus         4 ~~g~W~C~--~C~~~N~~~~~kC~aC~tpkP   32 (33)
T 3gj3_B            4 GSGTWDCD--TCLVQNKPEAVKCVACETPKP   32 (33)
T ss_dssp             --CCEECT--TTCCEECTTCSBCTTTCCBCC
T ss_pred             CCCceeCC--cccCCCccccCEEcccCCCCC
Confidence            46899999  899999999999999999997

>2d9g_A YY1-associated factor 2; ZF-ranbp domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=91.81  E-value=0.13  Score=36.39  Aligned_cols=31  Identities=26%  Similarity=0.533  Sum_probs=28.0

Q ss_pred             cCCCCCCCCCCCcccccccccccccCCCCCCCC
Q 016532          145 QDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG  177 (388)
Q Consensus       145 r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~  177 (388)
                      ..+.|.|+  .|...|......|.+|..+++..
T Consensus         8 ~~~~W~C~--~CT~~N~~~~~~C~~C~~pr~~s   38 (53)
T 2d9g_A            8 DEGYWDCS--VCTFRNSAEAFKCMMCDVRKGTS   38 (53)
T ss_dssp             CCCCEECS--SSCCEECSSCSSCSSSCCCCCCC
T ss_pred             CCCCcCCC--CCccCCCCCCCccCCCCCcCCcc
Confidence            45689999  89999999999999999999864

>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting, protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP: a.4.5.54 a.4.5.54

Probab=87.07  E-value=0.12  Score=53.61  Aligned_cols=85  Identities=19%  Similarity=0.381  Sum_probs=0.0

Q ss_pred             ccCCCCCCCCCCCcccccc---------cccccccCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q 016532          144 QQDGDWMCPNTSCSNVNFA---------FRGVCNRCGTARPVGGPGAGGRAGGRGRGRAGNESGSQGRQIGAATGLFGPN  214 (388)
Q Consensus       144 ~r~gDW~C~~~~cg~~Nfa---------~R~~C~rC~~~r~~~~~~~~~g~g~~~~g~~~~~~~~~~~~~~~~~~~~~~~  214 (388)
                      .....|+|+  .|++.|-.         .-..|-.|+.+.+.......-.. ..-..    +... .   ..+.  -...
T Consensus       113 ~~~~tWvC~--ICsfsN~~~~~f~~~~~~~p~C~~CGi~p~~~~~k~~i~~-~~~~~----~~~~-~---~~~~--~~~~  179 (566)
T 1w7p_D          113 DVVSTWVCP--ICMVSNETQGEFTKDTLPTPICINCGVPADYELTKSSINC-SNAID----PNAN-P---QNQF--GVNS  179 (566)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccceecc--ccccCCCCCCCCCcccCCCCcccccCCCCchhhhhhhhhc-cccCC----Cccc-C---cccc--cccc
Confidence            346799999  89988853         23469999998764431110000 00000    0000 0   0000  0124


Q ss_pred             CccCCCCCccccccccccccCCCCCCC
Q 016532          215 DWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       215 dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      +-.||.|-.+|--.-..|-+|++|.+.
T Consensus       180 ~~~CP~CTF~NHPsl~~CEiCg~~L~~  206 (566)
T 1w7p_D          180 ENICPACTFANHPQIGNCEICGHRLPN  206 (566)
T ss_dssp             ---------------------------
T ss_pred             CCCCCcccccCChhhhcccccCCcCCC
Confidence            678999999999999999999999886

>3a9j_C Mitogen-activated protein kinase kinase kinase 7- interacting protein 2; protein complex, cytoplasm, isopeptide bond, metal-binding, zinc; 1.18A {Mus musculus} PDB: 2wwz_C 2wx0_C 2wx1_C 3a9k_C

Probab=84.89  E-value=0.49  Score=30.00  Aligned_cols=28  Identities=25%  Similarity=0.700  Sum_probs=25.2

Q ss_pred             CCCCCCCCCCCcccccccccccccCCCCCC
Q 016532          146 DGDWMCPNTSCSNVNFAFRGVCNRCGTARP  175 (388)
Q Consensus       146 ~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~  175 (388)
                      ...|.|+  .|..+|......|.+|..+++
T Consensus         6 ~~~W~C~--~CT~~N~~~~~~Ce~C~~~r~   33 (34)
T 3a9j_C            6 GAQWNCT--ACTFLNHPALIRCEQCEMPRH   33 (34)
T ss_dssp             CCCEECT--TTCCEECTTCSBCTTTCCBSC
T ss_pred             CCcCCCC--CCccccCCCCCeeCCCCCcCc
Confidence            3579999  799999999999999999876

>1nj3_A NPL4; NZF domain, rubredoxin knuckle, beta-ribbon, zinc- finger, ubiquitin, protein binding; NMR {Rattus norvegicus} SCOP: g.41.11.1 PDB: 1q5w_A

Probab=84.43  E-value=0.5  Score=29.29  Aligned_cols=26  Identities=31%  Similarity=0.777  Sum_probs=23.9

Q ss_pred             CCCCCCCCCCcccccccccccccCCCCC
Q 016532          147 GDWMCPNTSCSNVNFAFRGVCNRCGTAR  174 (388)
Q Consensus       147 gDW~C~~~~cg~~Nfa~R~~C~rC~~~r  174 (388)
                      ..|.|+  .|..+|......|.+|..++
T Consensus         5 ~~W~C~--~CTf~N~~~~~~Ce~C~~~r   30 (31)
T 1nj3_A            5 AMWACQ--HCTFMNQPGTGHCEMCSLPR   30 (31)
T ss_dssp             CCEECS--SSCCEECSSCSSCSSSCCCC
T ss_pred             ccccCC--cccccCCCCCCccCCcCCCC
Confidence            479999  79999999999999999886

>2crc_A Ubiquitin conjugating enzyme 7 interacting protein 3; ZF-ranbp domain, hepatitis B virus X-associated protein 4, HBV associated factor 4; NMR {Homo sapiens}

Probab=84.14  E-value=1.1  Score=31.38  Aligned_cols=29  Identities=38%  Similarity=0.853  Sum_probs=26.6

Q ss_pred             CCCCCCCCCCcccccccccccccCCCCCCCC
Q 016532          147 GDWMCPNTSCSNVNFAFRGVCNRCGTARPVG  177 (388)
Q Consensus       147 gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~  177 (388)
                      ..|.|+  .|.++|-.....|.+|..+++..
T Consensus         9 ~~W~Cp--~CTf~N~p~~~~CemC~~prp~~   37 (52)
T 2crc_A            9 VGWQCP--GCTFINKPTRPGCEMCCRARPEA   37 (52)
T ss_dssp             SSBCCT--TTCCCBCTTCSSCSSSCCCCCTT
T ss_pred             CCccCC--CcccccCCCCCeeCCCCCcCCcc
Confidence            489999  79999999999999999999865

>2ebv_A Nuclear pore complex protein NUP153; ZF-ranbp domain, nucleoporin NUP153, 153 kDa nucleoporin, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=83.94  E-value=1.2  Score=31.87  Aligned_cols=30  Identities=30%  Similarity=0.696  Sum_probs=27.8

Q ss_pred             ccCCCCCCCCCCCcccccccccccccCCCCCC
Q 016532          144 QQDGDWMCPNTSCSNVNFAFRGVCNRCGTARP  175 (388)
Q Consensus       144 ~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~  175 (388)
                      +..|.|.|.  .|-..|.+-...|.-|.+|+|
T Consensus        27 ~~~GsWeC~--~C~V~N~a~~~kC~ACetpKP   56 (57)
T 2ebv_A           27 RPIGSWECS--VCCVSNNAEDNKCVSCMSEKP   56 (57)
T ss_dssp             CCSSSCCCS--SSCCCCCSSCSBCSSSCCBCC
T ss_pred             CCCCeeeCC--eeEccCccCCceeeEcCCcCC
Confidence            467999999  899999999999999999987

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=83.84  E-value=2  Score=43.98  Aligned_cols=55  Identities=20%  Similarity=0.254  Sum_probs=44.3

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      +..++|+ +|..+...+|.++|+.||.+.         |..+-+       ..|||.|.+.+.|..++..+.
T Consensus       440 ~~vl~v~-f~~~~~~~~i~~~fs~fg~v~---------V~widd-------t~a~V~~~~~~~a~~~l~~~~  494 (507)
T 3d45_A          440 DHVLHVT-FPKEWKTSDLYQLFSAFGNIQ---------ISWIDD-------TSAFVSLSQPEQVQIAVNTSK  494 (507)
T ss_dssp             GGEEEEE-CCTTCCHHHHHHHGGGGCCCE---------EEECSS-------SEEEEECSCHHHHHHHHHHHT
T ss_pred             CcEEEEe-CCCCCCHHHHHHHHHhcCCEE---------EEEEcC-------CeEEEEECCHHHHHHHHHHHH
Confidence            4566665 999999999999999999664         444433       369999999999999999885

>3b08_B Ranbp-type and C3HC4-type zinc finger-containing; protein complex, signaling protein-metal binding protein COM; HET: TRE; 1.70A {Mus musculus} PDB: 3b0a_B*

Probab=82.20  E-value=0.56  Score=34.41  Aligned_cols=29  Identities=38%  Similarity=0.834  Sum_probs=26.6

Q ss_pred             CCCCCCCCCCcccccccccccccCCCCCCCC
Q 016532          147 GDWMCPNTSCSNVNFAFRGVCNRCGTARPVG  177 (388)
Q Consensus       147 gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~  177 (388)
                      -.|.|+  .|.++|......|.+|..+++..
T Consensus         7 ~~W~CP--~CTf~N~p~~p~CEmC~~prp~~   35 (64)
T 3b08_B            7 VGWQCP--GCTFINKPTRPGCEMCCRARPET   35 (64)
T ss_dssp             CSEECT--TTCCEECTTCSBCTTTCCBCCSS
T ss_pred             CCCcCC--CccccCCCCCCccCcCCCCCCcc
Confidence            479999  79999999999999999999865

>2cr8_A MDM4 protein; ZF-ranbp domain, P53-binding protein MDM4, MDM2-like P53-binding DE protein, MDMX protein, double minute 4 protein; NMR {Homo sapiens} SCOP: g.41.11.1

Probab=81.24  E-value=1.4  Score=30.68  Aligned_cols=30  Identities=20%  Similarity=0.623  Sum_probs=26.6

Q ss_pred             CCCCccCCCCCccccccccccccCCCCCCC
Q 016532          212 GPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       212 ~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      .+.-|.|+.|...|---...|.+|-+-+..
T Consensus         8 ~eD~WkC~~C~k~N~Pl~ryC~rCwaLRk~   37 (53)
T 2cr8_A            8 SEDEWQCTECKKFNSPSKRYCFRCWALRKD   37 (53)
T ss_dssp             CSCCEECSSSCCEECSSCCBCTTTCCBCCC
T ss_pred             CcceeecccccccCCCccchhHHHHHhhcc
Confidence            467899999999999999999999987654

---

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	388
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	5e-13
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	2e-11
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	4e-11
d1n0za_	45	g.41.11.1 (A:) Znf265, first zinc-finger domain {H	5e-11
d1n0za_	45	g.41.11.1 (A:) Znf265, first zinc-finger domain {H	3e-07
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	1e-10
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	2e-10
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	1e-09
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	1e-09
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-09
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	3e-09
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	3e-09
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	3e-09
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	4e-09
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	4e-09
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	4e-09
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	5e-09
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	7e-09
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	7e-09
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	1e-08
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	1e-08
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	1e-08
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	2e-08
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	2e-08
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	2e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	4e-08
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	4e-08
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	5e-08
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	6e-08
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-08
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	8e-08
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	1e-07
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	1e-07
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	2e-07
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	2e-07
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	2e-07
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	3e-07
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	4e-07
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	7e-07
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	7e-07
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	8e-07
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	9e-07
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	1e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	1e-06
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	1e-06
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-06
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	2e-06
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	2e-06
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	4e-06
d1wg1a_	88	d.58.7.1 (A:) Probable RNA-binding protein KIAA157	6e-06
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	7e-06
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-05
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-05
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	1e-05
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	2e-05
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	3e-05
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	5e-05
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 8e-05
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	1e-04
d2cpia1	89	d.58.7.1 (A:101-189) E3 ubiquitin protein ligase C	1e-04
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	2e-04
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	3e-04
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-04
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	3e-04
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-04
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	6e-04
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	4e-04
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	7e-04
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	0.001
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	0.002

>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 = 62.5 bits (151), Expect = 5e-13
 Identities = 42/89 (47%), Positives = 59/89 (66%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N ++YV  L      D LA++F   G++K +KRTG+P + +Y DK T + KGDATV+YED
Sbjct: 8  NSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYED 67

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
          P  A AAVEWF+ KDF G+ + V +A  +
Sbjct: 68 PPTAKAAVEWFDGKDFQGSKLKVSLARKK 96

>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 = 57.6 bits (139), Expect = 2e-11
 Identities = 21/85 (24%), Positives = 33/85 (38%), Gaps = 8/85 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          S+YV +L     E ML E F   G            + + RD  T    G A V ++ P 
Sbjct: 2  SLYVGDLHPDVTEAMLYEKFSPAG--------PILSIRVCRDMITRRSLGYAYVNFQQPA 53

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAE 91
           A  A++  N     G  + +  ++
Sbjct: 54 DAERALDTMNFDVIKGKPVRIMWSQ 78

>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 = 56.6 bits (136), Expect = 4e-11
 Identities = 18/87 (20%), Positives = 28/87 (32%), Gaps = 5/87 (5%)

Query: 9  YVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAA 68
          ++ NL   T E+ L   F  +G                         G   V Y+ P  A
Sbjct: 2  FIKNLNFSTTEETLKGVFSKVG-----AIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQA 56

Query: 69 LAAVEWFNNKDFHGNLIGVFIAESRGK 95
            A++        G+ + V I+E   K
Sbjct: 57 QKALKQLQGHTVDGHKLEVRISERATK 83

>d1n0za_ g.41.11.1 (A:) Znf265, first zinc-finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 45

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Znf265, first zinc-finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 55.2 bits (133), Expect = 5e-11
 Identities = 18/32 (56%), Positives = 22/32 (68%)

Query: 146 DGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG 177
           DGDW+CP+  C NVNFA R  C+RCG  +  G
Sbjct: 12  DGDWICPDKKCGNVNFARRTSCDRCGREKTTG 43

>d1n0za_ g.41.11.1 (A:) Znf265, first zinc-finger domain {Human (Homo sapiens) [TaxId: 9606]} Length = 45

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Znf265, first zinc-finger domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.4 bits (105), Expect = 3e-07
 Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 2/33 (6%)

Query: 211 FGPNDWSCP--MCGNINWAKRTKCNICNTNKPG 241
               DW CP   CGN+N+A+RT C+ C   K  
Sbjct: 10  VSDGDWICPDKKCGNVNFARRTSCDRCGREKTT 42

>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 = 54.9 bits (132), Expect = 1e-10
 Identities = 21/87 (24%), Positives = 35/87 (40%), Gaps = 9/87 (10%)

Query: 6  GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP 65
          G + V NL  G  +  + E F   G LKK          ++ D++       A V +E  
Sbjct: 1  GKLLVSNLDFGVSDADIQELFAEFGTLKK--------AAVHYDRSGRSLG-TADVHFERK 51

Query: 66 HAALAAVEWFNNKDFHGNLIGVFIAES 92
            AL A++ +N     G  + + +  S
Sbjct: 52 ADALKAMKQYNGVPLDGRPMNIQLVTS 78

>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 = 54.3 bits (130), Expect = 2e-10
 Identities = 17/89 (19%), Positives = 29/89 (32%), Gaps = 8/89 (8%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  LP+  ++D + E                    L +D  T   KG A   Y D + 
Sbjct: 4  LFIGGLPNYLNDDQVKELLT--------SFGPLKAFNLVKDSATGLSKGYAFCEYVDINV 55

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
             A+   N        + V  A    K+
Sbjct: 56 TDQAIAGLNGMQLGDKKLLVQRASVGAKN 84

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (126), Expect = 1e-09
 Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 8/92 (8%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          + +VYV  L     E +L E F   G              + +D+ T +++G   V +  
Sbjct: 9  DATVYVGGLDEKVSEPLLWELFLQAG--------PVVNTHMPKDRVTGQHQGYGFVEFLS 60

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
             A  A++  +    +G  I V  A +  K+
Sbjct: 61 EEDADYAIKIMDMIKLYGKPIRVNKASAHNKN 92

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (126), Expect = 1e-09
 Identities = 22/93 (23%), Positives = 36/93 (38%), Gaps = 8/93 (8%)

Query: 1  MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
          M      +YV  L    D+ +L   F   G +            +  D  T +++G A V
Sbjct: 1  MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDI--------QIPLDYETEKHRGFAFV 52

Query: 61 TYEDPHAALAAVEWFNNKDFHGNLIGVFIAESR 93
           +E    A AA++  N  +  G  I V +A+  
Sbjct: 53 EFELAEDAAAAIDNMNESELFGRTIRVNLAKPM 85

>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 = 52.7 bits (126), Expect = 2e-09
 Identities = 20/90 (22%), Positives = 33/90 (36%), Gaps = 11/90 (12%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           N  +Y+ NLP+    + + + FG  G            +   R   T E +G A V YE
Sbjct: 6  VNRILYIRNLPYKITAEEMYDIFGKYG-----------PIRQIRVGNTPETRGTAYVVYE 54

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIAESR 93
          D   A  A +  +  +     + V    + 
Sbjct: 55 DIFDAKNACDHLSGFNVCNRYLVVLYYNAN 84

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 51.5 bits (123), Expect = 3e-09
 Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 8/79 (10%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          + ++YV NLP    +D L   FG  G + +          + RDK T   +G A V Y  
Sbjct: 6  DTNLYVTNLPRTITDDQLDTIFGKYGSIVQK--------NILRDKLTGRPRGVAFVRYNK 57

Query: 65 PHAALAAVEWFNNKDFHGN 83
             A  A+   NN    G 
Sbjct: 58 REEAQEAISALNNVIPEGG 76

>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 = 51.6 bits (123), Expect = 3e-09
 Identities = 15/87 (17%), Positives = 33/87 (37%), Gaps = 9/87 (10%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +V+   L        L ++F  +G ++         V +  D+ +   KG A V + +  
Sbjct: 20 TVFCMQLAARIRPRDLEDFFSAVGKVR--------DVRIISDRNSRRSKGIAYVEFCEIQ 71

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESR 93
          +   A+     +   G  I V  +++ 
Sbjct: 72 SVPLAIG-LTGQRLLGVPIIVQASQAE 97

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.3 bits (122), Expect = 3e-09
 Identities = 23/85 (27%), Positives = 30/85 (35%), Gaps = 8/85 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++ V  LP    ++     FG+IG              L RDK T +  G   V Y DP 
Sbjct: 4  NLIVNYLPQNMTQEEFRSLFGSIG--------EIESCKLVRDKITGQSLGYGFVNYIDPK 55

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAE 91
           A  A+   N        I V  A 
Sbjct: 56 DAEKAINTLNGLRLQTKTIKVSYAR 80

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 50.7 bits (121), Expect = 4e-09
 Identities = 18/83 (21%), Positives = 31/83 (37%), Gaps = 9/83 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  L   T ++ L EYFG  G +K+            RD  T   +G   VT+ D   
Sbjct: 3  MFIGGLSWQTTQEGLREYFGQFGEVKECLV--------MRDPLTKRSRGFGFVTFMDQAG 54

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
              +   +  +     I   +A
Sbjct: 55 VDKVLAQ-SRHELDSKTIDPKVA 76

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (122), Expect = 4e-09
 Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 8/89 (8%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N ++ V NL   T E  L E F               +++L +DKTT + KG A +++  
Sbjct: 8  NATIRVTNLSEDTRETDLQELFR--------PFGSISRIYLAKDKTTGQSKGFAFISFHR 59

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             A  A+   +   +   ++ V  A+  
Sbjct: 60 REDAARAIAGVSGFGYDHLILNVEWAKPS 88

>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 = 51.1 bits (122), Expect = 4e-09
 Identities = 20/89 (22%), Positives = 30/89 (33%), Gaps = 8/89 (8%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++YV NL   T E+ + E F   G +KK          +  DK      G   V Y    
Sbjct: 9  TLYVGNLSFYTTEEQIYELFSKSGDIKKI--------IMGLDKMKKTACGFCFVEYYSRA 60

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESRGK 95
           A  A+ + N       +I         +
Sbjct: 61 DAENAMRYINGTRLDDRIIRTDWDAGFKE 89

>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 = 51.1 bits (122), Expect = 5e-09
 Identities = 20/94 (21%), Positives = 34/94 (36%), Gaps = 10/94 (10%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKT-TNEYKGDATVTY 62
              + V N+P   ++  + E F T G LK         V L +  T T  ++G   V +
Sbjct: 7  TTSKILVRNIPFQANQREIRELFSTFGELK--------TVRLPKKMTGTGAHRGFGFVDF 58

Query: 63 EDPHAALAAVEWFNN-KDFHGNLIGVFIAESRGK 95
               A  A     +    +G  + +  A+S   
Sbjct: 59 ITKQDAKKAFNALCHSTHLYGRRLVLEWADSEVT 92

>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 = 50.1 bits (119), Expect = 7e-09
 Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 7/87 (8%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++ NL    DE +L + F   G++ +  +       + RD  T   KG A + +    A
Sbjct: 1  IFIGNLDPEIDEKLLYDTFSAFGVILQTPK-------IMRDPDTGNSKGYAFINFASFDA 53

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRG 94
          + AA+E  N +      I V  A  + 
Sbjct: 54 SDAAIEAMNGQYLCNRPITVSYAFKKD 80

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 50.5 bits (120), Expect = 7e-09
 Identities = 25/88 (28%), Positives = 34/88 (38%), Gaps = 8/88 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
           ++V ++     ED + E F   G            + L  D+ T   KG A V YE   
Sbjct: 9  ILFVTSIHEEAQEDEIQEKFCDYG--------EIKNIHLNLDRRTGFSKGYALVEYETHK 60

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESRG 94
           ALAA E  N  +  G  I V     +G
Sbjct: 61 QALAAKEALNGAEIMGQTIQVDWCFVKG 88

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.7 bits (118), Expect = 1e-08
 Identities = 18/95 (18%), Positives = 28/95 (29%), Gaps = 8/95 (8%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N  +++  +P     + + E    +     D                 + +G A V YE 
Sbjct: 1  NCRLFIGGIPKMKKREEILEEIAKVTEGVLDVI------VYASAADKMKNRGFAFVEYES 54

Query: 65 PHAALAAVEWFNNKDFH--GNLIGVFIAESRGKDD 97
            AA  A            G+ I V  AE     D
Sbjct: 55 HRAAAMARRKLMPGRIQLWGHQIAVDWAEPEIDVD 89

>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 = 50.1 bits (119), Expect = 1e-08
 Identities = 17/86 (19%), Positives = 29/86 (33%), Gaps = 9/86 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  L   T E+ L  Y+   G L              RD  +   +G   VT+     
Sbjct: 23 LFIGGLSFETTEESLRNYYEQWGKLTDCVV--------MRDPASKRSRGFGFVTFSSMAE 74

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESR 93
            AA+         G ++    A +R
Sbjct: 75 VDAAMA-ARPHSIDGRVVEPKRAVAR 99

>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 = 49.3 bits (117), Expect = 1e-08
 Identities = 21/83 (25%), Positives = 30/83 (36%), Gaps = 8/83 (9%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N  + V  L   T E  L E F   G +            +  D+ +   +G A V +E+
Sbjct: 9  NCCLGVFGLSLYTTERDLREVFSKYGPIADV--------SIVYDQQSRRSRGFAFVYFEN 60

Query: 65 PHAALAAVEWFNNKDFHGNLIGV 87
             A  A E  N  +  G  I V
Sbjct: 61 VDDAKEAKERANGMELDGRRIRV 83

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 2e-08
 Identities = 24/96 (25%), Positives = 37/96 (38%), Gaps = 8/96 (8%)

Query: 1  MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
          M    G ++V  L   T+E  L + F         K     +V + +D+ T   +G   V
Sbjct: 1  MASDEGKLFVGGLSFDTNEQSLEQVF--------SKYGQISEVVVVKDRETQRSRGFGFV 52

Query: 61 TYEDPHAALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
          T+E+   A  A+   N K   G  I V  A     +
Sbjct: 53 TFENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDN 88

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 49.7 bits (118), Expect = 2e-08
 Identities = 14/88 (15%), Positives = 28/88 (31%), Gaps = 13/88 (14%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++   NL     ED L E F                + +       + KG A + ++   
Sbjct: 18 TLLAKNLSFNITEDELKEVFEDA-------------LEIRLVSQDGKSKGIAYIEFKSEA 64

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESRG 94
           A   +E     +  G  + ++    +G
Sbjct: 65 DAEKNLEEKQGAEIDGRSVSLYYTGEKG 92

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.2 bits (114), Expect = 2e-08
 Identities = 18/78 (23%), Positives = 26/78 (33%), Gaps = 8/78 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +Y+  L  GT +  L +                       DKTTN+ KG   V ++ P A
Sbjct: 1  LYIRGLQPGTTDQDLVKLC--------QPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSA 52

Query: 68 ALAAVEWFNNKDFHGNLI 85
          A  AV           + 
Sbjct: 53 AQKAVTALKASGVQAQMA 70

>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 = 48.1 bits (114), Expect = 4e-08
 Identities = 18/87 (20%), Positives = 28/87 (32%), Gaps = 8/87 (9%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
          +N ++ V  LP    +  L   F  IG              + RD  T    G A V + 
Sbjct: 1  SNTNLIVNYLPQDMTDRELYALFRAIG--------PINTCRIMRDYKTGYSYGYAFVDFT 52

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIA 90
              +  A++  N        + V  A
Sbjct: 53 SEMDSQRAIKVLNGITVRNKRLKVSYA 79

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 48.6 bits (115), Expect = 4e-08
 Identities = 21/92 (22%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +G ++V NL + + E+ L + F   G           ++    D  T + KG A VT+ 
Sbjct: 7  GSGRLFVRNLSYTSSEEDLEKLFSAYG--------PLSELHYPIDSLTKKPKGFAFVTFM 58

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
           P  A+ A    + + F G ++ V  +  + +
Sbjct: 59 FPEHAVKAYAEVDGQVFQGRMLHVLPSTIKKE 90

>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 = 47.7 bits (113), Expect = 5e-08
 Identities = 14/79 (17%), Positives = 29/79 (36%), Gaps = 8/79 (10%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          + ++YV  LP    +  L + F   G +            +  D+ T   +G   + ++ 
Sbjct: 6  DANLYVSGLPKTMTQKELEQLFSQYGRIITS--------RILVDQVTGVSRGVGFIRFDK 57

Query: 65 PHAALAAVEWFNNKDFHGN 83
             A  A++  N +   G 
Sbjct: 58 RIEAEEAIKGLNGQKPSGA 76

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.7 bits (113), Expect = 6e-08
 Identities = 13/91 (14%), Positives = 34/91 (37%), Gaps = 7/91 (7%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N ++Y+ NL     +D L +             +   ++       + + +G A V +++
Sbjct: 3  NHTIYINNLNEKIKKDELKKSL-------HAIFSRFGQILDILVSRSLKMRGQAFVIFKE 55

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
            +A  A+       F+   + +  A++   
Sbjct: 56 VSSATNALRSMQGFPFYDKPMRIQYAKTDSD 86

>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 = 46.9 bits (111), Expect = 8e-08
 Identities = 13/80 (16%), Positives = 27/80 (33%), Gaps = 9/80 (11%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  L   T +  L +YF         K        L  D  T   +G   V +++  +
Sbjct: 2  MFIGGLSWDTTKKDLKDYFS--------KFGEVVDCTLKLDPITGRSRGFGFVLFKESES 53

Query: 68 ALAAVEWFNNKDFHGNLIGV 87
              ++       +G +I  
Sbjct: 54 VDKVMD-QKEHKLNGKVIDP 72

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.3 bits (112), Expect = 8e-08
 Identities = 19/89 (21%), Positives = 33/89 (37%), Gaps = 10/89 (11%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
           G++++ NL    D   L + F   G              +  D+  ++  G   V +E 
Sbjct: 8  VGNIFIKNLDKSIDNKALYDTFSAFG--------NILSCKVVCDENGSKGYGF--VHFET 57

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
            AA  A+E  N    +   + V   +SR
Sbjct: 58 QEAAERAIEKMNGMLLNDRKVFVGRFKSR 86

>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 = 47.0 bits (111), Expect = 1e-07
 Identities = 16/85 (18%), Positives = 28/85 (32%), Gaps = 9/85 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  L   T ++ L  +F         +        + RD  T   +G   VTY     
Sbjct: 9  LFIGGLSFETTDESLRSHFE--------QWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAES 92
            AA+         G ++    A S
Sbjct: 61 VDAAMN-ARPHKVDGRVVEPKRAVS 84

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 1e-07
 Identities = 20/88 (22%), Positives = 34/88 (38%), Gaps = 10/88 (11%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V N+P    +  L + FG        +      V +  ++  +  KG   VT+E+   
Sbjct: 14 LHVSNIPFRFRDPDLRQMFG--------QFGKILDVEIIFNERGS--KGFGFVTFENSAD 63

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          A  A E  +     G  I V  A +R  
Sbjct: 64 ADRAREKLHGTVVEGRKIEVNNATARVM 91

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.5 bits (110), Expect = 2e-07
 Identities = 18/91 (19%), Positives = 27/91 (29%), Gaps = 10/91 (10%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
           + V  LP  T E  L EYF                V + +D  T   KG   V + +  
Sbjct: 10 DLIVLGLPWKTTEQDLKEYF--------STFGEVLMVQVKKDLKTGHSKGFGFVRFTEYE 61

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESRGKDD 97
            +  +         G      +  S+   D
Sbjct: 62 TQVKVMS--QRHMIDGRWCDCKLPNSKQSQD 90

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 46.5 bits (110), Expect = 2e-07
 Identities = 12/89 (13%), Positives = 28/89 (31%), Gaps = 14/89 (15%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N +VY   +  G  + ++ + F   G   +           Y           + V +  
Sbjct: 18 NCTVYCGGIASGLTDQLMRQTFSPFG---QIMEIRVFPEKGY-----------SFVRFST 63

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
            +A  A+   N     G+++  +  +  
Sbjct: 64 HESAAHAIVSVNGTTIEGHVVKCYWGKES 92

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.6 bits (110), Expect = 2e-07
 Identities = 16/89 (17%), Positives = 31/89 (34%), Gaps = 12/89 (13%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          + V NL +    D+L + F   G + K     +              +  A + Y DP +
Sbjct: 10 IIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNN------------QFQALLQYADPVS 57

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
          A  A    + ++ +     + I  S+   
Sbjct: 58 AQHAKLSLDGQNIYNACCTLRIDFSKLTS 86

>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 = 45.3 bits (107), Expect = 3e-07
 Identities = 17/83 (20%), Positives = 33/83 (39%), Gaps = 9/83 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V  L   T E+ + EYFG  G            + L  D  TN+ +G   +T+++   
Sbjct: 2  IFVGGLSPDTPEEKIREYFGGFG--------EVESIELPMDNKTNKRRGFCFITFKEEEP 53

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
              +E     +   +   + +A
Sbjct: 54 VKKIME-KKYHNVGLSKCEIKVA 75

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

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 = 45.1 bits (106), Expect = 4e-07
 Identities = 17/93 (18%), Positives = 34/93 (36%), Gaps = 9/93 (9%)

Query: 2  TMANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATV 60
          T+    + + NL     DE++L E F       +   +          K  +     A +
Sbjct: 1  TLEGREIMIRNLSTELLDENLLRESF-------EGFGSIEKINIPAGQKEHSFNNCCAFM 53

Query: 61 TYEDPHAALAAVEWFNNKDFHGNLIGVFIAESR 93
           +E+  +A  A++  N        I V +A+ +
Sbjct: 54 VFENKDSAERALQ-MNRSLLGNREISVSLADKK 85

>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 = 44.3 bits (104), Expect = 7e-07
 Identities = 18/83 (21%), Positives = 31/83 (37%), Gaps = 9/83 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V  L   T  + +  YF   G +            L  DKTTN ++G   VT+E    
Sbjct: 2  IFVGGLSVNTTVEDVKHYFEQFGKVDDA--------MLMFDKTTNRHRGFGFVTFESEDI 53

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
               E  +  + +  ++    A
Sbjct: 54 VEKVCE-IHFHEINNKMVECKKA 75

>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 = 44.6 bits (105), Expect = 7e-07
 Identities = 17/91 (18%), Positives = 28/91 (30%), Gaps = 10/91 (10%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
            ++YV NL     E ++ + F  IG          P                  V + +
Sbjct: 8  PRTLYVGNLSRDVTEVLILQLFSQIG----------PCKSCKMITEHTSNDPYCFVEFYE 57

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
             A AA+   N +   G  + V  A +   
Sbjct: 58 HRDAAAALAAMNGRKILGKEVKVNWATTPSS 88

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 8e-07
 Identities = 20/91 (21%), Positives = 29/91 (31%), Gaps = 11/91 (12%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          +  +YV NLP       + + F   G            +     K        A V +ED
Sbjct: 14 DCRIYVGNLPPDIRTKDIEDVFYKYG-----------AIRDIDLKNRRGGPPFAFVEFED 62

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          P  A  AV   +  D+ G  + V    S   
Sbjct: 63 PRDAEDAVYGRDGYDYDGYRLRVEFPRSGRG 93

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

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

 Score = 44.7 bits (105), Expect = 9e-07
 Identities = 18/86 (20%), Positives = 35/86 (40%), Gaps = 8/86 (9%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++ +LP    +  L + F                  ++ DK TN  K    V+Y++P +
Sbjct: 21 LFIYHLPQEFGDQDLLQMF--------MPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVS 72

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESR 93
          A AA++  N        + V +  S+
Sbjct: 73 AQAAIQSMNGFQIGMKRLKVQLKRSK 98

>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 = 43.8 bits (103), Expect = 1e-06
 Identities = 16/86 (18%), Positives = 27/86 (31%), Gaps = 14/86 (16%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V NLP    E+ + + F   G                 +   ++ KG   +  E    
Sbjct: 11 LFVGNLPPDITEEEMRKLFEKYGK--------------AGEVFIHKDKGFGFIRLETRTL 56

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESR 93
          A  A    +N    G  + V  A   
Sbjct: 57 AEIAKVELDNMPLRGKQLRVRFACHS 82

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 43.6 bits (102), Expect = 1e-06
 Identities = 10/87 (11%), Positives = 24/87 (27%), Gaps = 8/87 (9%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
            ++++ N P    +  + +    I ++                   N  +  A +    
Sbjct: 1  ECTLWMTNFPPSYTQRNIRDLLQDINVVALS--------IRLPSLRFNTSRRFAYIDVTS 52

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAE 91
             A   VE  N     G  +   ++ 
Sbjct: 53 KEDARYCVEKLNGLKIEGYTLVTKVSN 79

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.9 bits (103), Expect = 1e-06
 Identities = 15/83 (18%), Positives = 28/83 (33%), Gaps = 8/83 (9%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          + V N+P     D + ++F              P     +        G+A V +E    
Sbjct: 12 IKVQNMPFTVSIDEILDFF--------YGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDE 63

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
          A AAV   N++      + + + 
Sbjct: 64 ATAAVIDLNDRPIGSRKVKLVLG 86

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 22/89 (24%), Positives = 38/89 (42%), Gaps = 14/89 (15%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV NL   T E+M+ + F  I     + R  + + +             A V + +   
Sbjct: 11 LYVRNLMLSTSEEMIEKEFNNIKPGAVE-RVKKIRDY-------------AFVHFSNRED 56

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
          A+ A++  N K   G+ I V +A+   KD
Sbjct: 57 AVEAMKALNGKVLDGSPIEVTLAKPVDKD 85

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.6 bits (102), Expect = 2e-06
 Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          SV+V N+P+   E+ L + F         +        L  D+ T + KG     Y+D  
Sbjct: 10 SVFVGNIPYEATEEQLKDIF--------SEVGPVVSFRLVYDRETGKPKGYGFCEYQDQE 61

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESR 93
           AL+A+   N ++F G  + V  A S 
Sbjct: 62 TALSAMRNLNGREFSGRALRVDNAASE 88

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.6 bits (102), Expect = 2e-06
 Identities = 17/95 (17%), Positives = 31/95 (32%), Gaps = 14/95 (14%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          +V++ NL   ++E+ L E           +      V +     T   KG A   +    
Sbjct: 10 TVFIRNLSFDSEEEALGEVL--------QQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQE 61

Query: 67 AALAAVE------WFNNKDFHGNLIGVFIAESRGK 95
          AA   +               G  + V +A +R +
Sbjct: 62 AAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTRDE 96

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 44.1 bits (103), Expect = 4e-06
 Identities = 17/89 (19%), Positives = 33/89 (37%), Gaps = 8/89 (8%)

Query: 7   SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
           ++ V  +P   DE  L + F                V +  D+ T + +G   V ++   
Sbjct: 44  NLMVNYIPTTVDEVQLRQLFERY--------GPIESVKIVCDRETRQSRGYGFVKFQSGS 95

Query: 67  AALAAVEWFNNKDFHGNLIGVFIAESRGK 95
           +A  A+   N  +     + V +A S  +
Sbjct: 96  SAQQAIAGLNGFNILNKRLKVALAASGHQ 124

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.0 bits (98), Expect = 6e-06
 Identities = 14/92 (15%), Positives = 29/92 (31%), Gaps = 15/92 (16%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +  + V NLP  ++   + +                      +    +  K  A VT  
Sbjct: 4  GSSGILVKNLPQDSNCQEVHDLLKDYD---------------LKYCYVDRNKRTAFVTLL 48

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          +   A  A++ F+   F G  + V +  +   
Sbjct: 49 NGEQAQNAIQMFHQYSFRGKDLIVQLQPTDAL 80

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 7e-06
 Identities = 16/83 (19%), Positives = 33/83 (39%), Gaps = 9/83 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V  +   T+E  L +YF         +      + +  D+ + + +G A VT++D  +
Sbjct: 5  IFVGGIKEDTEEHHLRDYFE--------QYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDS 56

Query: 68 ALAAVEWFNNKDFHGNLIGVFIA 90
              V        +G+   V  A
Sbjct: 57 VDKIVI-QKYHTVNGHNCEVRKA 78

>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 = 41.3 bits (96), Expect = 1e-05
 Identities = 17/89 (19%), Positives = 32/89 (35%), Gaps = 8/89 (8%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +YV N+P G  E+ + ++F     L    +     V        N+ K  A + +     
Sbjct: 4  LYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVL---AVQINQDKNFAFLEFRSVDE 60

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKD 96
             A+ + +   F G  + +     R  D
Sbjct: 61 TTQAMAF-DGIIFQGQSLKI----RRPHD 84

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.4 bits (97), Expect = 1e-05
 Identities = 18/99 (18%), Positives = 34/99 (34%), Gaps = 17/99 (17%)

Query: 5   NGSVYVCNL-PHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           N  V++ NL      +  +   F   G +                   + +KG A V Y 
Sbjct: 15  NSRVFIGNLNTLVVKKSDVEAIFSKYGKIVG----------------CSVHKGFAFVQYV 58

Query: 64  DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNS 102
           +   A AAV   + +   G ++ + +A     +    +S
Sbjct: 59  NERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRSGPSS 97

>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 = 40.8 bits (95), Expect = 1e-05
 Identities = 21/89 (23%), Positives = 33/89 (37%), Gaps = 15/89 (16%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +Y+ NL      D L + FG                 L          G A V Y D + 
Sbjct: 4  LYIGNLSPAVTADDLRQLFGDRK--------------LPLAGQVLLKSGYAFVDYPDQNW 49

Query: 68 ALAAVEWFNNK-DFHGNLIGVFIAESRGK 95
          A+ A+E  + K + HG ++ V  + S+  
Sbjct: 50 AIRAIETLSGKVELHGKIMEVDYSVSKKL 78

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 2e-05
 Identities = 15/89 (16%), Positives = 32/89 (35%), Gaps = 8/89 (8%)

Query: 5  NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYED 64
          N  +Y+ NL     E  L   F         +   +    +     T   +G A +T+ +
Sbjct: 18 NKVLYLKNLSPRVTERDLVSLF--------ARFQEKKGPPIQFRMMTGRMRGQAFITFPN 69

Query: 65 PHAALAAVEWFNNKDFHGNLIGVFIAESR 93
             A  A+   N    +G ++ +   +++
Sbjct: 70 KEIAWQALHLVNGYKLYGKILVIEFGKNK 98

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.0 bits (93), Expect = 3e-05
 Identities = 15/94 (15%), Positives = 29/94 (30%), Gaps = 15/94 (15%)

Query: 4  ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYE 63
           +  V+V        ED L E+F   G +         + + +             VT+ 
Sbjct: 4  GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRAFAF-------------VTFA 50

Query: 64 DPHAALAAVEWFNNKDFHGNLIGVFIAESRGKDD 97
          D   A +      +    G  + +  AE +   +
Sbjct: 51 DDQIAQSLCG--EDLIIKGISVHISNAEPKHNSN 82

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.8 bits (92), Expect = 5e-05
 Identities = 16/85 (18%), Positives = 24/85 (28%), Gaps = 9/85 (10%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++Y+ NLP   DE  L             K  G+         ++   +G      E   
Sbjct: 20 NLYISNLPLSMDEQELENML---------KPFGQVISTRILRDSSGTSRGVGFARMESTE 70

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAE 91
             A +  FN K            E
Sbjct: 71 KCEAVIGHFNGKFIKTPPGVSAPTE 95

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.2 bits (91), Expect = 8e-05
 Identities = 14/81 (17%), Positives = 28/81 (34%), Gaps = 9/81 (11%)

Query: 7   SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
            V +        E++  E     G +++        + +  +   +   G+  V +    
Sbjct: 29  DVEMQEHYDEFFEEVFTEMEEKYGEVEE--------MNVCDNLG-DHLVGNVYVKFRREE 79

Query: 67  AALAAVEWFNNKDFHGNLIGV 87
            A  AV   NN+ F+G  I  
Sbjct: 80  DAEKAVIDLNNRWFNGQPIHA 100

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.9 bits (90), Expect = 1e-04
 Identities = 18/95 (18%), Positives = 32/95 (33%), Gaps = 9/95 (9%)

Query: 8   VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
            ++ NLP+   E+ + E+F                            KG     +ED  +
Sbjct: 18  AFLGNLPYDVTEESIKEFF--------RGLNISAVRLPREPSNPERLKGFGYAEFEDLDS 69

Query: 68  ALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYNS 102
            L+A+   N +      I V +A+     D   +S
Sbjct: 70  LLSALS-LNEESLGNKRIRVDVADQAQDKDSGPSS 103

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 38.3 bits (88), Expect = 1e-04
 Identities = 17/83 (20%), Positives = 26/83 (31%), Gaps = 8/83 (9%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNE---YKGDATVTYED 64
          V+V  L     +  + +     G     K     KV +    +          A VTY  
Sbjct: 11 VFVVGLSQRLADPEVLKRPEYFG-----KFGKIHKVVINNSTSYAGSQGPSASAYVTYIR 65

Query: 65 PHAALAAVEWFNNKDFHGNLIGV 87
             AL A++  NN    G  +  
Sbjct: 66 SEDALRAIQCVNNVVVDGRTLKA 88

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

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

 Score = 38.2 bits (88), Expect = 2e-04
 Identities = 21/88 (23%), Positives = 33/88 (37%), Gaps = 9/88 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          ++V  LP+ T +  L +YF               +  +  D+ T + +G   VT  D  A
Sbjct: 13 IFVGGLPYHTTDASLRKYFE--------GFGDIEEAVVITDRQTGKSRGYGFVTMADRAA 64

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          A  A +   N    G    V +A    K
Sbjct: 65 AERACKD-PNPIIDGRKANVNLAYLGAK 91

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.7 bits (87), Expect = 3e-04
 Identities = 15/93 (16%), Positives = 24/93 (25%), Gaps = 14/93 (15%)

Query: 3  MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTY 62
               ++V  L   T    LA  F               +    R     +    A + Y
Sbjct: 15 NPTTRLWVGGLGPNTSLAALAREF--------------DRFGSIRTIDHVKGDSFAYIQY 60

Query: 63 EDPHAALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          E   AA AA          G    + +  ++  
Sbjct: 61 ESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSG 93

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.9 bits (87), Expect = 3e-04
 Identities = 16/88 (18%), Positives = 24/88 (27%), Gaps = 14/88 (15%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          V+V  L     E  L E                 K           +K  A V +E+  +
Sbjct: 18 VHVRGLCESVVEADLVEAL--------------EKFGTICYVMMMPFKRQALVEFENIDS 63

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGK 95
          A   V +  +   +      F   S  K
Sbjct: 64 AKECVTFAADVPVYIAGQQAFFNYSTSK 91

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.4 bits (86), Expect = 3e-04
 Identities = 14/87 (16%), Positives = 31/87 (35%), Gaps = 13/87 (14%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++ N+P    E+ L   F + G + K  +  +                 A +       
Sbjct: 13 LHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRK------------MALIQMGSVEE 60

Query: 68 ALAAVEWFNNKDF-HGNLIGVFIAESR 93
          A+ A+   +N D    + + V  ++S 
Sbjct: 61 AVQALIDLHNHDLGENHHLRVSFSKST 87

>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 = 38.8 bits (89), Expect = 3e-04
 Identities = 18/86 (20%), Positives = 36/86 (41%), Gaps = 9/86 (10%)

Query: 8   VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
           ++V  +   T+E  L +YF   G +          + +  D+ + + +G A VT++D  +
Sbjct: 100 IFVGGIKEDTEEHHLRDYFEQYGKI--------EVIEIMTDRGSGKKRGFAFVTFDDHDS 151

Query: 68  ALAAVEWFNNKDFHGNLIGVFIAESR 93
               V        +G+   V  A S+
Sbjct: 152 VDKIVI-QKYHTVNGHNCEVRKALSK 176

>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 = 38.1 bits (87), Expect = 6e-04
 Identities = 16/74 (21%), Positives = 26/74 (35%), Gaps = 8/74 (10%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          +++  L   T ++ L  +F   G L            + RD  T   +G   VTY     
Sbjct: 9  LFIGGLSFETTDESLRSHFEQWGTLT--------DCVVMRDPNTKRSRGFGFVTYATVEE 60

Query: 68 ALAAVEWFNNKDFH 81
            AA+    +K   
Sbjct: 61 VDAAMNARPHKVDG 74

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.1 bits (85), Expect = 4e-04
 Identities = 11/95 (11%), Positives = 27/95 (28%), Gaps = 9/95 (9%)

Query: 7   SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
             ++ N+P    +  + ++   I                       +  G A V +++  
Sbjct: 10  CAHITNIPFSITKMDVLQFLEGI--------PVDENAVHVLVDNNGQGLGQALVQFKNED 61

Query: 67  AALAAVEWFNNKDFHGNLIGVFIAESRGKDDHAYN 101
            A  +    + K  +G    V +       +   N
Sbjct: 62  DARKSER-LHRKKLNGREAFVHVVTLEDMREIEKN 95

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

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

 Score = 36.4 bits (84), Expect = 7e-04
 Identities = 16/91 (17%), Positives = 32/91 (35%), Gaps = 3/91 (3%)

Query: 8  VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHA 67
          V + N+ H  D +        I    + + +   ++            G A+V++ DP  
Sbjct: 11 VIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFD-RHPDGVASVSFRDPEE 69

Query: 68 ALAAVEWFNNKDFHGNLIGVFIAESRGKDDH 98
          A   ++  + + F G  I        G  D+
Sbjct: 70 ADYCIQTLDGRWFGGRQITAQAW--DGTTDY 98

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 35.7 bits (81), Expect = 0.001
 Identities = 13/87 (14%), Positives = 22/87 (25%), Gaps = 10/87 (11%)

Query: 7  SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPH 66
          ++++ NL        L                         D  T   +    V +E   
Sbjct: 15 NLFIGNLNPNKSVAELKVAI---------SELFAKNDLAVVDVRTGTNRKFGYVDFESAE 65

Query: 67 AALAAVEWFNNKDFHGNLIGVFIAESR 93
              A+E        GN I +   + R
Sbjct: 66 DLEKALEL-TGLKVFGNEIKLEKPKGR 91

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.1 bits (80), Expect = 0.002
 Identities = 15/89 (16%), Positives = 29/89 (32%), Gaps = 10/89 (11%)

Query: 3  MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTY 62
          + N SVY+   P     D + E+             G+      R      +KG   V +
Sbjct: 4  VKNRSVYIKGFPTDATLDDIKEWLEDK---------GQVLNIQMRRTLHKAFKGSIFVVF 54

Query: 63 EDPHAALAAVEWFNNKDFHGNLIGVFIAE 91
          +   +A   VE    + +    + +   +
Sbjct: 55 DSIESAKKFVET-PGQKYKETDLLILFKD 82

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	388
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.82
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.81
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.8
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.8
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.8
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.8
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.79
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.79
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.79
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.78
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.78
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.78
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.77
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.77
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.77
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.77
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.77
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.77
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.76
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.76
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.75
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.75
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.75
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.75
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.74
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.74
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.74
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.74
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.73
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.73
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.73
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.73
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.73
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.73
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.72
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.72
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.72
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.71
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.71
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.68
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.68
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.67
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.67
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.67
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.67
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.66
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.66
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.66
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.66
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.65
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.65
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.65
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.65
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.65
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.64
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.64
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.64
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.64
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.64
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.64
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.63
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.63
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.63
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.63
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.63
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.63
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.62
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.62
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.61
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.61
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.59
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.57
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.57
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.56
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.55
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.54
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.49
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.49
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.47
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.37
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.33
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.33
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.27
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.24
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.23
d1n0za_	45	Znf265, first zinc-finger domain {Human (Homo sapi	99.13
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.12
d1n0za_	45	Znf265, first zinc-finger domain {Human (Homo sapi	99.06
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	97.23
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.19
d2gqea1	29	Nuclear pore complex protein nup153 {Human (Homo s	96.58
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.23
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	93.11
d1q5wa_	31	Npl4 {Rat (Rattus norvegicus) [TaxId: 10116]}	92.73
d2gqea1	29	Nuclear pore complex protein nup153 {Human (Homo s	88.26
d1nnqa2	37	Rubrerythrin, C-terminal domain {Archaeon Pyrococc	84.92
d1yuza2	36	Nigerythrin, C-terminal domain {Desulfovibrio vulg	82.79
d1q5wa_	31	Npl4 {Rat (Rattus norvegicus) [TaxId: 10116]}	82.07
d2c6aa1	46	MDM2 {Human (Homo sapiens) [TaxId: 9606]}	81.89

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.9e-20  Score=147.73  Aligned_cols=86  Identities=26%  Similarity=0.341  Sum_probs=82.2

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |.....+|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||..||+..|
T Consensus         1 ma~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i   72 (89)
T d2cqba1           1 MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITD--------IQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESEL   72 (89)
T ss_dssp             SCCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCC--------EECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEE
T ss_pred             CCCCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEe--------cccccccccccccceeEEEECCHHHHHHHHHHcCCCEE
Confidence            7788899999999999999999999999999988        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      .|+.|.|.+|+++.
T Consensus        73 ~g~~l~v~~a~p~~   86 (89)
T d2cqba1          73 FGRTIRVNLAKPMR   86 (89)
T ss_dssp             TTEEEEEEECCCCC
T ss_pred             CCEEEEEEEeCCCC
Confidence            99999999998754

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.81  E-value=5.8e-20  Score=142.37  Aligned_cols=80  Identities=23%  Similarity=0.272  Sum_probs=76.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      +++|||+|||+++|+++|.++|++||.|..        |.|+.++.++.+++||||+|.++++|+.||..||+..|.++.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~   73 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINT--------CRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKR   73 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcce--------eeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEE
Confidence            578999999999999999999999999998        789999999999999999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |+|++|+|
T Consensus        74 l~v~~a~p   81 (82)
T d1b7fa1          74 LKVSYARP   81 (82)
T ss_dssp             CEEEECCC
T ss_pred             EEEEEcCC
Confidence            99999975

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=6.4e-20  Score=144.68  Aligned_cols=88  Identities=27%  Similarity=0.384  Sum_probs=83.3

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |+.++.+|||+|||+.+|+++|+++|++||.|..        |.++.++.++.++|||||+|.++++|+.||..|++..|
T Consensus         1 m~~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~--------~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~   72 (90)
T d1x5sa1           1 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISE--------VVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSV   72 (90)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCE--------EEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCT
T ss_pred             CCCCCCEEEEECCCCcCCHHHHHHhhhccccccc--------eeeccccccccccceEEEEECCHHHHHHHHHHcCCCEE
Confidence            8899999999999999999999999999999987        77899999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .|+.|.|++|.++...
T Consensus        73 ~g~~l~V~~a~~~~~~   88 (90)
T d1x5sa1          73 DGRQIRVDQAGKSSDN   88 (90)
T ss_dssp             TSCCCEEEEEECCCCC
T ss_pred             CCEEEEEEEcCCCCCC
Confidence            9999999999877653

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.7e-19  Score=143.46  Aligned_cols=86  Identities=23%  Similarity=0.249  Sum_probs=80.8

Q ss_pred             CCCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee
Q 016532            1 MTMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF   80 (388)
Q Consensus         1 m~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i   80 (388)
                      |..++++|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||..||+..|
T Consensus         3 ~~~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~   74 (93)
T d1h2vz_           3 LLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKK--------IIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRL   74 (93)
T ss_dssp             TTTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEE
T ss_pred             ccCCCCEEEEeCCCCCCCHHHHHHHHHHHCCcce--------eccccccccccccceEEEEECCHHHHHHHHHHhCCCEE
Confidence            3457889999999999999999999999999998        88999999999999999999999999999999999999


Q ss_pred             cCceEEEEecccCC
Q 016532           81 HGNLIGVFIAESRG   94 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~   94 (388)
                      +|+.|.|++|....
T Consensus        75 ~gr~i~V~~a~~~~   88 (93)
T d1h2vz_          75 DDRIIRTDWDAGFK   88 (93)
T ss_dssp             TTEECEEEEESCCC
T ss_pred             CCEEEEEEEcCCCC
Confidence            99999999987543

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=1.9e-19  Score=144.53  Aligned_cols=85  Identities=26%  Similarity=0.357  Sum_probs=80.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+++|||+|||+.+|+++|+++|.+||.|..        |+|+.++.|+.++|||||+|.+.++|++||+.||+..|.|
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~--------v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   77 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSE--------LHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQG   77 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSS
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCcee--------eeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECC
Confidence            45778999999999999999999999999988        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|+|.+|.++..
T Consensus        78 r~i~V~~a~~~~~   90 (99)
T d1whwa_          78 RMLHVLPSTIKKE   90 (99)
T ss_dssp             CEEEEEECCCCST
T ss_pred             EEEEEEECCCCCc
Confidence            9999999998654

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.80  E-value=1.6e-19  Score=142.05  Aligned_cols=83  Identities=30%  Similarity=0.348  Sum_probs=78.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+..+|||+|||+.+|+++|.++|++||.|..        |+|+.++.|+.++|||||+|.+.++|+.||..||+..|.|
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~--------v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g   76 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKN--------IHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMG   76 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccc--------ccccccccccccccceeEEECCHHHHHHHHHHcCCCEECC
Confidence            45679999999999999999999999999998        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.|++|.++
T Consensus        77 ~~l~V~~a~~k   87 (88)
T d1rk8a_          77 QTIQVDWCFVK   87 (88)
T ss_dssp             EECEEEESEEC
T ss_pred             EEEEEEEecCC
Confidence            99999999875

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.7e-19  Score=143.41  Aligned_cols=84  Identities=24%  Similarity=0.290  Sum_probs=79.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||..+|+++|+++|++||.|..        |+|+.++.|+.++|||||+|.+.++|++||..||+..|.|+
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~--------v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   79 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVN--------THMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGK   79 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccc--------cceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4679999999999999999999999999988        88999999999999999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|+|.+|.++.+
T Consensus        80 ~l~V~~A~~~~~   91 (93)
T d1x5ua1          80 PIRVNKASAHNK   91 (93)
T ss_dssp             BCEEEETTTTSC
T ss_pred             EEEEEEcCCCCC
Confidence            999999988654

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=1.6e-19  Score=142.69  Aligned_cols=84  Identities=26%  Similarity=0.358  Sum_probs=79.6

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||.++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+.|++..|.|
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~--------v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g   77 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISR--------IYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDH   77 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEE--------EEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhccccc--------ccccccccccccccceeEEECCHHHHHHHHHHhCCCEECC
Confidence            35679999999999999999999999999988        8899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|++|+++.
T Consensus        78 ~~i~v~~akp~~   89 (90)
T d2cq0a1          78 LILNVEWAKPST   89 (90)
T ss_dssp             EECEEEESSCCC
T ss_pred             EEEEEEeeeCCC
Confidence            999999998764

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=3.4e-19  Score=137.86  Aligned_cols=80  Identities=29%  Similarity=0.396  Sum_probs=76.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      .++|||+|||+++|+++|.++|++||.|..        |.|+.+..++.++|||||+|.++++|+.||..||+..|.|+.
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~--------v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~   73 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIES--------CKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKT   73 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCccc--------ccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            357999999999999999999999999998        889999999999999999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|.+|+|
T Consensus        74 l~v~~AkP   81 (82)
T d1fxla1          74 IKVSYARP   81 (82)
T ss_dssp             CEEEECCC
T ss_pred             EEEEEeeC
Confidence            99999975

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.78  E-value=3e-19  Score=144.36  Aligned_cols=85  Identities=22%  Similarity=0.313  Sum_probs=80.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++.++|||+|||+++|+++|.++|++||.|..        |.++.++.|+.++|||||+|.++++|+.||+.||+..|.|
T Consensus        16 p~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g   87 (102)
T d2cpza1          16 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVS--------AKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGM   87 (102)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSE--------EEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccc--------cceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECC
Confidence            35678999999999999999999999999988        7799999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|++|.++..
T Consensus        88 ~~i~V~~a~~k~~  100 (102)
T d2cpza1          88 KRLKVQLKRSKND  100 (102)
T ss_dssp             EECEEECCCCSCC
T ss_pred             EEEEEEEeCCCCC
Confidence            9999999988765

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=3.1e-19  Score=137.88  Aligned_cols=77  Identities=27%  Similarity=0.385  Sum_probs=74.8

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+.+|+++|.++|++||.|..        |+|+.++.|+.++|||||+|.++++|+.||+.|++..|.|+.|+
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~--------v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~   73 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILS--------IRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVR   73 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeE--------EEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEE
Confidence            6999999999999999999999999998        88999999999999999999999999999999999999999999


Q ss_pred             EEecc
Q 016532           87 VFIAE   91 (388)
Q Consensus        87 V~~a~   91 (388)
                      |.+|+
T Consensus        74 v~~a~   78 (80)
T d1cvja1          74 IMWSQ   78 (80)
T ss_dssp             EEECC
T ss_pred             EEEeC
Confidence            99985

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.78  E-value=4.8e-19  Score=142.27  Aligned_cols=93  Identities=45%  Similarity=0.751  Sum_probs=85.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||..+|+++|.++|.+||.|........+.+.++.++.|+.+++||||+|.++++|+.||+.||+..|.|
T Consensus         6 ~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   85 (101)
T d2cpea1           6 SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   85 (101)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECC
Confidence            46789999999999999999999999999976666666778899999999999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|++++.
T Consensus        86 r~i~V~~a~~~~p   98 (101)
T d2cpea1          86 SKLKVSLARKKPP   98 (101)
T ss_dssp             EECEEECSSCCCC
T ss_pred             EEEEEEEcCCCCC
Confidence            9999999988654

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.77  E-value=6.1e-19  Score=137.65  Aligned_cols=80  Identities=31%  Similarity=0.439  Sum_probs=75.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+++|||+|||+.+|+++|+++|++||.|..        |+|+.++.|+.++|||||+|.++++|++||+.||+..+.+
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~--------~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   75 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQ--------KNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEG   75 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEee--------eeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCC
Confidence            46788999999999999999999999999988        8899999999999999999999999999999999999986


Q ss_pred             --ceEEEEec
Q 016532           83 --NLIGVFIA   90 (388)
Q Consensus        83 --r~I~V~~a   90 (388)
                        ++|.|.+|
T Consensus        76 ~~~~l~V~~A   85 (85)
T d1b7fa2          76 GSQPLSVRLA   85 (85)
T ss_dssp             CSSCCEEEEC
T ss_pred             CCeEEEEEEC
Confidence              88999986

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.77  E-value=2.8e-19  Score=139.79  Aligned_cols=82  Identities=24%  Similarity=0.282  Sum_probs=78.1

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+.+|+++|.++|++||.|..        |+|+.|+.|+.+++||||+|.++++|+.||..|++..|.|+.|
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~--------v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l   73 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKA--------FNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL   73 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEE--------EEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccce--------EEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEE
Confidence            57999999999999999999999999998        8899999999999999999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.+|.+..+
T Consensus        74 ~V~~A~~~~~   83 (85)
T d2u2fa_          74 LVQRASVGAK   83 (85)
T ss_dssp             EEEECCCCCC
T ss_pred             EEEECCCCCC
Confidence            9999987544

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=7.5e-19  Score=136.47  Aligned_cols=76  Identities=29%  Similarity=0.291  Sum_probs=73.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ++.+|||+|||+.+|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||..||+..|.|+
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~--------v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr   79 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIAD--------VSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR   79 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEE--------EEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCcc--------ccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            5679999999999999999999999999998        88999999999999999999999999999999999999999


Q ss_pred             eEEE
Q 016532           84 LIGV   87 (388)
Q Consensus        84 ~I~V   87 (388)
                      .|+|
T Consensus        80 ~i~V   83 (83)
T d2cqca1          80 RIRV   83 (83)
T ss_dssp             EEEE
T ss_pred             EeEC
Confidence            9987

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=8.8e-19  Score=136.90  Aligned_cols=81  Identities=21%  Similarity=0.344  Sum_probs=75.6

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      +..+++|||+|||+.+|+++|+++|++||.|..        |.|+.++.++.++|||||+|.++++|+.||+.||+..|.
T Consensus         3 s~k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~--------v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~   74 (85)
T d1fxla2           3 SIRDANLYVSGLPKTMTQKELEQLFSQYGRIIT--------SRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPS   74 (85)
T ss_dssp             GGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccc--------cccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeC
Confidence            356789999999999999999999999999998        889999999999999999999999999999999999999


Q ss_pred             C--ceEEEEec
Q 016532           82 G--NLIGVFIA   90 (388)
Q Consensus        82 G--r~I~V~~a   90 (388)
                      |  .+|.|.+|
T Consensus        75 G~~~~i~V~~A   85 (85)
T d1fxla2          75 GATEPITVKFA   85 (85)
T ss_dssp             TCSSCCEEEEC
T ss_pred             CCCEEEEEEeC
Confidence            7  55999886

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=6.9e-19  Score=136.58  Aligned_cols=81  Identities=26%  Similarity=0.347  Sum_probs=75.5

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEE
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV   87 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V   87 (388)
                      |||+|||+++|+++|.++|++||.|...       +.|+.++.|++++|||||+|.++++|+.||+.|++..|.|++|.|
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~-------~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v   73 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQT-------PKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITV   73 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSC-------CEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeee-------EEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEE
Confidence            8999999999999999999999998653       468899999999999999999999999999999999999999999


Q ss_pred             EecccCCC
Q 016532           88 FIAESRGK   95 (388)
Q Consensus        88 ~~a~~~~~   95 (388)
                      .+|.++..
T Consensus        74 ~~a~~k~~   81 (83)
T d1x5ta1          74 SYAFKKDS   81 (83)
T ss_dssp             EESCCCCC
T ss_pred             EEecCCCc
Confidence            99987653

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.77  E-value=1.9e-18  Score=146.82  Aligned_cols=83  Identities=22%  Similarity=0.281  Sum_probs=78.9

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      .++|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||+.||+..|.|+.
T Consensus        42 ~~~l~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~  113 (139)
T d1u6fa1          42 LRNLMVNYIPTTVDEVQLRQLFERYGPIES--------VKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKR  113 (139)
T ss_dssp             TSEEEEESCSTTCCHHHHHHHHHHHSCEEE--------EEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhhccccc--------cccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEE
Confidence            468999999999999999999999999998        889999999999999999999999999999999999999999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|.+|.++..
T Consensus       114 l~V~~a~~~~~  124 (139)
T d1u6fa1         114 LKVALAASGHQ  124 (139)
T ss_dssp             EEEEESSCCCC
T ss_pred             EEEEEcCCCCC
Confidence            99999987654

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=1.4e-18  Score=137.42  Aligned_cols=83  Identities=23%  Similarity=0.300  Sum_probs=76.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+++|||+|||+++|+++|+++|++||.|..        |.|+.|+.|+.++|||||+|.++++|++||+.  ...|.|
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~--~~~l~G   75 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLM--------VQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQ--RHMIDG   75 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEE--------EEEEECSSSCSEEEEEEEEESSHHHHHHHHHS--CEEETT
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccce--------eeeccCCCCcccCCEEEEEECCHHHHHHHHhc--CCccCC
Confidence            46789999999999999999999999999998        88999999999999999999999999999984  457999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.++..
T Consensus        76 r~i~v~~a~~k~~   88 (90)
T d2cqga1          76 RWCDCKLPNSKQS   88 (90)
T ss_dssp             EEEEEECCCTTCC
T ss_pred             EEeEEEeCCCCCC
Confidence            9999999988654

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.76  E-value=1.1e-18  Score=134.70  Aligned_cols=80  Identities=13%  Similarity=0.143  Sum_probs=69.0

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..||||+|||+++|+++|.++|++||.|..        +.++.+..++.++|||||+|.++++|++||..||+..|.|++
T Consensus         1 d~tl~v~nLp~~~t~~~l~~~f~~~G~v~~--------~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~   72 (81)
T d2ghpa1           1 ECTLWMTNFPPSYTQRNIRDLLQDINVVAL--------SIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYT   72 (81)
T ss_dssp             SCEEEEECCCTTCCHHHHHHHHHHTTCCCC--------EEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEE
T ss_pred             CcEEEEECCCCcCCHHHHHHHHHHhCcEEe--------eeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            368999999999999999999999999987        667788888999999999999999999999999999999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|.+|+|
T Consensus        73 i~V~~a~P   80 (81)
T d2ghpa1          73 LVTKVSNP   80 (81)
T ss_dssp             CEEEECCC
T ss_pred             EEEEEccC
Confidence            99999976

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=1.9e-18  Score=137.56  Aligned_cols=85  Identities=22%  Similarity=0.277  Sum_probs=77.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHh-CCcee
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK-TTNEYKGDATVTYEDPHAALAAVEWF-NNKDF   80 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk-~Tg~srG~aFVeF~s~e~A~~Ai~~l-ng~~i   80 (388)
                      .++++|||+|||+.+++++|..+|++||.|..        |.|+.+. .||.++|||||+|.++++|++||..| |+..|
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~--------v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~   77 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKT--------VRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHL   77 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceE--------EEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEE
Confidence            46789999999999999999999999999988        7788775 48999999999999999999999988 89999


Q ss_pred             cCceEEEEecccCCC
Q 016532           81 HGNLIGVFIAESRGK   95 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~   95 (388)
                      .|+.|.|++|.+...
T Consensus        78 ~Gr~l~V~~A~~~~~   92 (94)
T d2cpha1          78 YGRRLVLEWADSEVT   92 (94)
T ss_dssp             SSCBCEEEECCCCCC
T ss_pred             CCEEEEEEEcCCCCC
Confidence            999999999987653

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=1.9e-18  Score=132.76  Aligned_cols=77  Identities=27%  Similarity=0.429  Sum_probs=73.2

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+.+|+++|.++|++||.|..        |.|+.++ ++.++|||||+|.++++|+.||+.||+..|.|+.|.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~--------~~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~   72 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKK--------AAVHYDR-SGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMN   72 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEE--------EEESCSS-CCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeE--------EEEEEee-ccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEE
Confidence            6999999999999999999999999988        7788886 799999999999999999999999999999999999


Q ss_pred             EEeccc
Q 016532           87 VFIAES   92 (388)
Q Consensus        87 V~~a~~   92 (388)
                      |++|.+
T Consensus        73 V~~a~S   78 (78)
T d1no8a_          73 IQLVTS   78 (78)
T ss_dssp             EEEECC
T ss_pred             EEEeeC
Confidence            999864

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.75  E-value=4.7e-18  Score=134.03  Aligned_cols=84  Identities=23%  Similarity=0.289  Sum_probs=76.6

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH   81 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~   81 (388)
                      ..++.+|||+|||..+|+++|.++|++||.|..        |.|+.++.++  ++||||+|.+.++|+.||..|++..|.
T Consensus         5 ~~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~~~--~~~afV~f~~~~~A~~A~~~l~~~~~~   74 (90)
T d2cqia1           5 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKS--------CKMITEHTSN--DPYCFVEFYEHRDAAAALAAMNGRKIL   74 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEE--------EEEECCCCSS--CCEEEEEESSHHHHHHHHHHHTTEEET
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCcee--------eeeecccCcc--ceeeEEEECCHHHHHHHHHHcCCCEEC
Confidence            346789999999999999999999999999988        7788887654  789999999999999999999999999


Q ss_pred             CceEEEEecccCCC
Q 016532           82 GNLIGVFIAESRGK   95 (388)
Q Consensus        82 Gr~I~V~~a~~~~~   95 (388)
                      |+.|+|.+|.++..
T Consensus        75 g~~i~v~~a~~~~~   88 (90)
T d2cqia1          75 GKEVKVNWATTPSS   88 (90)
T ss_dssp             TEEEEEEECCCTTC
T ss_pred             CEEEEEEEcCCCCC
Confidence            99999999987543

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=3.4e-18  Score=133.30  Aligned_cols=79  Identities=23%  Similarity=0.272  Sum_probs=74.4

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ +++..|+|+.
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~   76 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQWGTLTD--------CVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRV   76 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhhccccc--------eeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEE
Confidence            468999999999999999999999999998        8899999999999999999999999999997 6889999999


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      |.|..|.+
T Consensus        77 i~V~~A~s   84 (84)
T d1l3ka1          77 VEPKRAVS   84 (84)
T ss_dssp             CEEEECCC
T ss_pred             EEEEeeeC
Confidence            99998853

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.74  E-value=4e-18  Score=137.88  Aligned_cols=83  Identities=27%  Similarity=0.283  Sum_probs=76.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ..++|||+|||+.+|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+.+++ .|.|+
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr   79 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEE--------AVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGR   79 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEE--------EEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTE
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccc--------eeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCE
Confidence            3467999999999999999999999999998        88999999999999999999999999999998876 69999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.+|.....
T Consensus        80 ~l~V~~a~~~~~   91 (103)
T d2cqda1          80 KANVNLAYLGAK   91 (103)
T ss_dssp             ECEEEESTTTCC
T ss_pred             EEEEEEcCCCCC
Confidence            999999987544

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.74  E-value=2.9e-18  Score=133.63  Aligned_cols=79  Identities=24%  Similarity=0.370  Sum_probs=73.0

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCC---CcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTN---EYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg---~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      |||+|||+++|+++|+++|++||.|..        |.|+.++.++   .++|||||+|.+.++|++||+.||+..|.|+.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~--------v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~   72 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKS--------CTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHK   72 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccc--------cceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEE
Confidence            899999999999999999999999998        7788887765   47899999999999999999999999999999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      |.|++|....
T Consensus        73 i~V~~a~~~~   82 (85)
T d2cpfa1          73 LEVRISERAT   82 (85)
T ss_dssp             CEEECSSCSS
T ss_pred             EEEEECCCCC
Confidence            9999986543

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=1.9e-18  Score=139.73  Aligned_cols=82  Identities=30%  Similarity=0.440  Sum_probs=77.7

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+++|+++|.++|++||.|..        |.|+.++.|+.++|||||+|.+.++|+.||+.|++..|.|+.
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~G~i~~--------v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~   79 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEVGPVVS--------FRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRA   79 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTTSCCSE--------EEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSC
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhccccccc--------cccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEE
Confidence            358999999999999999999999999988        889999999999999999999999999999999999999999


Q ss_pred             EEEEecccCC
Q 016532           85 IGVFIAESRG   94 (388)
Q Consensus        85 I~V~~a~~~~   94 (388)
                      |.|.+|.+..
T Consensus        80 i~V~~a~~~~   89 (104)
T d1p1ta_          80 LRVDNAASEK   89 (104)
T ss_dssp             BEEEETTCTT
T ss_pred             EEEEECCCCC
Confidence            9999987654

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=3e-18  Score=138.86  Aligned_cols=81  Identities=21%  Similarity=0.311  Sum_probs=76.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+++|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ +++..|.|+.|
T Consensus        21 ~~lfVgnLp~~~te~~L~~~F~~~G~i~~--------~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i   91 (103)
T d1x4ba1          21 RKLFIGGLSFETTEESLRNYYEQWGKLTD--------CVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVV   91 (103)
T ss_dssp             TEEEEECCTTCCCHHHHHHHHTSSCCCSE--------EEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHhhCcccc--------eeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEE
Confidence            68999999999999999999999999998        8899999999999999999999999999997 89999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.+|.++..
T Consensus        92 ~V~~a~~ke~  101 (103)
T d1x4ba1          92 EPKRAVAREE  101 (103)
T ss_dssp             EEECCSSCCC
T ss_pred             EEEECcccCC
Confidence            9999998765

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=1.4e-18  Score=133.48  Aligned_cols=75  Identities=24%  Similarity=0.386  Sum_probs=72.1

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+++|+++|+++|++||.|..        |.|+.++.|++++|||||+|.+.++|++||. +++..|+|+.|.
T Consensus         2 klfV~nLp~~~te~~l~~~F~~~G~i~~--------v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~   72 (77)
T d1uawa_           2 KMFIGGLSWQTTQEGLREYFGQFGEVKE--------CLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTID   72 (77)
T ss_dssp             CEEEESCCSSCCSHHHHHHHTTTSCCCC--------EEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCcce--------eeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEE
Confidence            6999999999999999999999999987        8899999999999999999999999999997 799999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |.+|
T Consensus        73 V~~A   76 (77)
T d1uawa_          73 PKVA   76 (77)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9987

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=9e-18  Score=133.24  Aligned_cols=83  Identities=25%  Similarity=0.249  Sum_probs=76.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+.+|||+|||+.+|+++|.++|++||.|..        |.|+.++.  .+++||||+|.++++|++||..||+..|.|
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~--------v~~~~~~~--~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g   78 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQFGKILD--------VEIIFNER--GSKGFGFVTFENSADADRAREKLHGTVVEG   78 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGTSCEEE--------EEEECCTT--TTCCEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcceeee--------cccccccc--CCcceeEEEECCHHHHHHHHHHcCCCEECC
Confidence            45779999999999999999999999999998        77888874  478999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|++|+++..
T Consensus        79 ~~l~V~~A~~r~~   91 (93)
T d2cq3a1          79 RKIEVNNATARVM   91 (93)
T ss_dssp             EECEEEECCSSCC
T ss_pred             EEEEEEecCcCCC
Confidence            9999999998754

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.8e-18  Score=138.55  Aligned_cols=80  Identities=19%  Similarity=0.319  Sum_probs=75.8

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCce
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~   84 (388)
                      ..+|||+|||+.+|+++|+++|+.||.|..        |.|+.++.|+.++|||||+|.+.++|++||. ||+..|.|+.
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~--------v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~   88 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRD--------VRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVP   88 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEE--------EEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEE--------EEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEE
Confidence            468999999999999999999999999998        8899999999999999999999999999996 9999999999


Q ss_pred             EEEEecccC
Q 016532           85 IGVFIAESR   93 (388)
Q Consensus        85 I~V~~a~~~   93 (388)
                      |.|.+|.++
T Consensus        89 l~V~~a~~~   97 (101)
T d2cq4a1          89 IIVQASQAE   97 (101)
T ss_dssp             EEEEEHHHH
T ss_pred             EEEEECCCC
Confidence            999998754

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=2.7e-18  Score=130.98  Aligned_cols=75  Identities=19%  Similarity=0.309  Sum_probs=70.9

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+++|+++|.++|++||.|..        |.|+.++.|++++|||||+|.++++|++||. +++..|.|+.|.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~--------~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~   71 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVD--------CTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVID   71 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEE--------EECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCE
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccc--------cccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEE
Confidence            5999999999999999999999999998        7899999999999999999999999999997 799999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |..|
T Consensus        72 V~rA   75 (75)
T d1hd0a_          72 PKRA   75 (75)
T ss_dssp             ECCC
T ss_pred             eeEC
Confidence            8654

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=6.6e-18  Score=134.63  Aligned_cols=85  Identities=24%  Similarity=0.294  Sum_probs=78.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC------
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN------   76 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln------   76 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.++.++.++.++|||||+|.+.++|++||+.|+      
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~--------~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~   77 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKY--------VRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGG   77 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTC
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhcccccee--------eeeccccccccccceEEEEEcCHHHHHHHHHHcccccccC
Confidence            45789999999999999999999999999987        7788999999999999999999999999999886      


Q ss_pred             CceecCceEEEEecccCCC
Q 016532           77 NKDFHGNLIGVFIAESRGK   95 (388)
Q Consensus        77 g~~i~Gr~I~V~~a~~~~~   95 (388)
                      +..|.|+.|.|.+|.++..
T Consensus        78 g~~~~gr~l~v~~a~~k~~   96 (98)
T d1x4ha1          78 GLKLDGRQLKVDLAVTRDE   96 (98)
T ss_dssp             CEESSSCEEEEECCCCCCC
T ss_pred             CcEECCEEEEEEECCCCCc
Confidence            6778999999999988654

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.73  E-value=3.5e-18  Score=134.53  Aligned_cols=82  Identities=24%  Similarity=0.277  Sum_probs=75.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+++|+++|+++|++||.|..        |.|+.++.  .++|||||+|.+.++|++||+.||+..|.|+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------~~i~~~~~--~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~   76 (89)
T d1cvja2           7 GVGNIFIKNLDKSIDNKALYDTFSAFGNILS--------CKVVCDEN--GSKGYGFVHFETQEAAERAIEKMNGMLLNDR   76 (89)
T ss_dssp             TTTEEEEESCCSSCCHHHHHHHHHTTSCEEE--------EEECCBTT--BCCSCEEEEESCHHHHHHHTTSSSEEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCceE--------EEEEeecC--CCcceeEEEECCHHHHHHHHHHcCCCEECCE
Confidence            4568999999999999999999999999988        77888874  4789999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.+|+++..
T Consensus        77 ~i~V~~a~~~~~   88 (89)
T d1cvja2          77 KVFVGRFKSRKE   88 (89)
T ss_dssp             EEEEEECCCTTT
T ss_pred             EEEEEECCCCCC
Confidence            999999987653

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=3.8e-18  Score=133.50  Aligned_cols=84  Identities=21%  Similarity=0.273  Sum_probs=72.4

Q ss_pred             CCCCcEEEeccCCCCCC-HHHHHHHHHhcCceeecCCCCCCeEEEEe-cCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            2 TMANGSVYVCNLPHGTD-EDMLAEYFGTIGLLKKDKRTGRPKVWLYR-DKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~t-eedL~~~F~~~G~i~~~~~tg~p~V~i~~-dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      +.+..+|||+|||+++| +++|+++|++||.|..        |.|+. ++.++.++|||||+|.+.++|++||+ ||+..
T Consensus         1 t~e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~--------v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~-~n~~~   71 (86)
T d2ghpa3           1 TLEGREIMIRNLSTELLDENLLRESFEGFGSIEK--------INIPAGQKEHSFNNCCAFMVFENKDSAERALQ-MNRSL   71 (86)
T ss_dssp             CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEE--------EECCSCCC---CCCEEEEEEESSHHHHHHHGG-GTTEE
T ss_pred             CCCCCEEEEECCCCCcccHHHHHHHHHhhhhccc--------eeeecccCCccccceeeeEEECCHHHHHHHHh-cCCCE
Confidence            46789999999999876 5669999999999998        66765 45789999999999999999999996 99999


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|+.|.|++|.+++
T Consensus        72 ~~gr~l~V~~a~~kP   86 (86)
T d2ghpa3          72 LGNREISVSLADKKP   86 (86)
T ss_dssp             ETTEEEEEEECCCCC
T ss_pred             ECCEEEEEEEcCCCC
Confidence            999999999998764

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.1e-17  Score=128.37  Aligned_cols=76  Identities=22%  Similarity=0.334  Sum_probs=72.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+++|+++|+++|++||.|..        +.++.++.++.++|||||+|.++++|++|+. |++..|.|+.|
T Consensus         3 r~lfV~nLp~~~te~~l~~~F~~~G~i~~--------~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i   73 (79)
T d1l3ka2           3 KKIFVGGIKEDTEEHHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNC   73 (79)
T ss_dssp             SEEEEECCTTTCCHHHHHHHHTTTSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEEC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHHhccccc--------cccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEE
Confidence            68999999999999999999999999998        7799999999999999999999999999996 89999999999


Q ss_pred             EEEec
Q 016532           86 GVFIA   90 (388)
Q Consensus        86 ~V~~a   90 (388)
                      +|..|
T Consensus        74 ~V~~A   78 (79)
T d1l3ka2          74 EVRKA   78 (79)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            99876

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=3.2e-18  Score=130.79  Aligned_cols=75  Identities=23%  Similarity=0.352  Sum_probs=70.6

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+++|+++|+++|++||.|..        |.|+.++.|+.++|||||+|.+.++|++||+ +++..|.|+.|.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~--------v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~   71 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVES--------IELPMDNKTNKRRGFCFITFKEEEPVKKIME-KKYHNVGLSKCE   71 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEE--------EECCCCTTTCCTTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCE
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCccc--------ccccccccccccccEEEEEECCHHHHHHHHh-hCCCEECCEEeE
Confidence            5999999999999999999999999998        8899999999999999999999999999997 577789999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |.+|
T Consensus        72 vk~A   75 (75)
T d1x0fa1          72 IKVA   75 (75)
T ss_dssp             EECC
T ss_pred             EEEC
Confidence            9875

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=3.7e-18  Score=137.31  Aligned_cols=85  Identities=19%  Similarity=0.241  Sum_probs=78.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||..+|+++|.++|++||.|..        +.|+.+..++.+++||||+|.+.++|+.||+.||+..|.|
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~--------~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g   87 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKG--------PPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYG   87 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSS--------SCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceee--------EEeecccccccccccceEEeccHHHHHHHHHHhCCCEECC
Confidence            36789999999999999999999999999987        4577777789999999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|++|+++..
T Consensus        88 ~~l~V~~ak~k~~  100 (102)
T d2cpxa1          88 KILVIEFGKNKKQ  100 (102)
T ss_dssp             CBCEEEECCCCSC
T ss_pred             EEEEEEeCCCccc
Confidence            9999999988654

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.71  E-value=7.9e-18  Score=127.71  Aligned_cols=75  Identities=24%  Similarity=0.347  Sum_probs=71.2

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      +|||+|||+++|+++|.++|++||.|..        +.++.++.|+.+++||||+|.+.++|++||+ ||+..|.|+.|+
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~--------~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~   71 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDD--------AMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVE   71 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSE--------ECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcce--------eeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEE
Confidence            5999999999999999999999999988        6688999999999999999999999999997 999999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |..|
T Consensus        72 V~~A   75 (75)
T d2msta_          72 CKKA   75 (75)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9876

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=7e-17  Score=128.45  Aligned_cols=80  Identities=25%  Similarity=0.275  Sum_probs=71.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+.+|+++|+++|++||.|..        |.+..   +..+++||||+|.++++|+.||+.||+..|.|
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~--------~~~~~---~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g   80 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRD--------IDLKN---RRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDG   80 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEECC---SSSSSCCEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEE--------EEecc---cccccceEEEEECCHHHHHHHHHHhCCCEECC
Confidence            35678999999999999999999999999986        44443   34678999999999999999999999999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      ++|.|++|++.
T Consensus        81 ~~l~V~~a~~~   91 (95)
T d1x4aa1          81 YRLRVEFPRSG   91 (95)
T ss_dssp             EECEEECCCCC
T ss_pred             EEEEEEeccCC
Confidence            99999998763

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.68  E-value=1.2e-17  Score=132.25  Aligned_cols=80  Identities=15%  Similarity=0.114  Sum_probs=72.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+.+|+++|+++|++||.|..        |.|+. ..++.++|||||+|.+.++|++||+ ||+..|.|+
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~--------~~v~~-~~~g~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~   81 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISELFAKND--------LAVVD-VRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGN   81 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHHHHHHT--------CCCCE-EEEETTTTEEEEEESSHHHHHHHHH-GGGEEETTE
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcCCcEEE--------eeeee-cCCCCccEEeEEeeCCHHHHHHHHh-cCCcEECCE
Confidence            4568999999999999999999999999987        44554 4579999999999999999999996 999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.+|+++
T Consensus        82 ~i~V~~ak~k   91 (91)
T d1fjeb1          82 EIKLEKPKGR   91 (91)
T ss_dssp             EEEEECCCCS
T ss_pred             EEEEEecCCC
Confidence            9999999764

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=6.1e-17  Score=130.66  Aligned_cols=82  Identities=23%  Similarity=0.388  Sum_probs=71.5

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDK-TTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk-~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++.+|||+|||+.+|+++|+++|++|| |..        |.|+.++ .++.++|||||+|.++++|++|+. ||+..|.+
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~--------~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~-~~~~~~~g   83 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISA--------VRLPREPSNPERLKGFGYAEFEDLDSLLSALS-LNEESLGN   83 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEE--------EECCBCSSCTTSBCSCEEEEESSHHHHHHHHG-GGTCEETT
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-ccc--------ceeeeeeccCCCcceeeeEEECCHHHHHHHHH-cCCCEECC
Confidence            568999999999999999999999999 444        5555554 578999999999999999987775 99999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.++..
T Consensus        84 r~l~V~~a~~~~~   96 (104)
T d1wi8a_          84 KRIRVDVADQAQD   96 (104)
T ss_dssp             EECEEEECCCCCC
T ss_pred             EEEEEEECCCCCC
Confidence            9999999987654

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=1.2e-16  Score=130.96  Aligned_cols=79  Identities=23%  Similarity=0.371  Sum_probs=71.8

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+.+|||+|||..+|+++|.++|++||.|..        |.|..+   +.++|||||+|.+.++|..||+.||+..|.|+
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~--------i~~~~~---~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr   74 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQ--------IRVGNT---PETRGTAYVVYEDIFDAKNACDHLSGFNVCNR   74 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EEEECS---TTTTTEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEe--------eccccc---CCcCCeEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            4568999999999999999999999999988        667654   56789999999999999999999999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|.++...
T Consensus        75 ~l~V~~a~~~   84 (114)
T d2f9da1          75 YLVVLYYNAN   84 (114)
T ss_dssp             ECEEEECCHH
T ss_pred             EEEEEEcCCC
Confidence            9999998653

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.67  E-value=1.2e-16  Score=127.59  Aligned_cols=78  Identities=17%  Similarity=0.383  Sum_probs=71.5

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +++.+|||+|||..+++++|.++|++||.|..        |+|+.+      +|||||+|.+.++|+.||..|++..|.|
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~--------v~i~~~------kg~afV~f~~~~~A~~Ai~~l~~~~i~g   81 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIME--------IRVFPE------KGYSFVRFSTHESAAHAIVSVNGTTIEG   81 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceE--------EEEEec------ceEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            34578999999999999999999999999998        778765      5899999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|+|.++++++
T Consensus        82 ~~l~v~~ak~~p   93 (96)
T d1x4ga1          82 HVVKCYWGKESP   93 (96)
T ss_dssp             EECEEECCCCCC
T ss_pred             EEEEEEEcCCCC
Confidence            999999997754

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=7e-17  Score=125.88  Aligned_cols=80  Identities=20%  Similarity=0.260  Sum_probs=71.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +..++|||+|||+++++++|+++|..|+.+...       |.++. ..++.++|||||+|.+.++|++||..||+..|.+
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~-------~~~~~-~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~g   78 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGS-------VCLKY-NEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGS   78 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTT-------CEEEE-CSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeE-------EEEEe-CCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECC
Confidence            345689999999999999999999999998753       34444 4579999999999999999999999999999999


Q ss_pred             ceEEEEec
Q 016532           83 NLIGVFIA   90 (388)
Q Consensus        83 r~I~V~~a   90 (388)
                      ++|+|.++
T Consensus        79 r~i~v~l~   86 (86)
T d2cqpa1          79 RKVKLVLG   86 (86)
T ss_dssp             EECEEEES
T ss_pred             EEEEEEEC
Confidence            99999975

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=1.5e-16  Score=124.48  Aligned_cols=80  Identities=18%  Similarity=0.223  Sum_probs=70.0

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCcee-
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDF-   80 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i-   80 (388)
                      .+|+++|||+|||+++|+++|.++|++||.|..        +.++.    ...++||||+|.+.++|.+||..|++..| 
T Consensus         7 ~pPs~tL~V~NLp~~~te~~l~~~F~~~G~v~~--------~~~~~----~~~~~~afV~f~~~~~A~~A~~~l~~~~i~   74 (88)
T d2adca2           7 FPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVK--------GFKFF----QKDRKMALIQMGSVEEAVQALIDLHNHDLG   74 (88)
T ss_dssp             CCSCSEEEEECCCTTCCHHHHHHHHHTTSCCEE--------EEEEC----SSSTTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHhhccCCEEE--------EEEee----ecccceeEEEECCHHHHHHHHHhccCCEec
Confidence            467889999999999999999999999999876        43443    34578999999999999999999999988 


Q ss_pred             cCceEEEEecccC
Q 016532           81 HGNLIGVFIAESR   93 (388)
Q Consensus        81 ~Gr~I~V~~a~~~   93 (388)
                      .|+.|+|++|++.
T Consensus        75 ~g~~l~v~~sk~~   87 (88)
T d2adca2          75 ENHHLRVSFSKST   87 (88)
T ss_dssp             SSCBCEEEECSSC
T ss_pred             CCCEEEEEeCCCC
Confidence            5899999999764

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=1.8e-16  Score=123.63  Aligned_cols=78  Identities=19%  Similarity=0.342  Sum_probs=72.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||.++|+++|.++|+.||.|..        |.|+.++ ++.++|||||+|.++++|++||+ +++..|.|+
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~--------v~l~~~~-~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~   74 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLN--------IQMRRTL-HKAFKGSIFVVFDSIESAKKFVE-TPGQKYKET   74 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTSCCEEE--------EEEEECT-TCCEEEEEEEEESCHHHHHHHHT-CCCCEETTE
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHhccccc--------ceeeeec-cCCcceEEEEEEcCHHHHHHHHH-HCCCEECCE
Confidence            4679999999999999999999999999988        7787775 79999999999999999999997 899999999


Q ss_pred             eEEEEecc
Q 016532           84 LIGVFIAE   91 (388)
Q Consensus        84 ~I~V~~a~   91 (388)
                      .|.|.++.
T Consensus        75 ~l~v~~~~   82 (85)
T d1zh5a2          75 DLLILFKD   82 (85)
T ss_dssp             ECEEEEGG
T ss_pred             EEEEEEcC
Confidence            99998864

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.66  E-value=5.1e-17  Score=127.86  Aligned_cols=78  Identities=26%  Similarity=0.382  Sum_probs=71.0

Q ss_pred             CCCcEEEeccCCCCCCHHHH---HHHHHhcCceeecCCCCCCeEEEEecCCCCCcc---cEEEEEeCCHHHHHHHHHHhC
Q 016532            3 MANGSVYVCNLPHGTDEDML---AEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYK---GDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL---~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~sr---G~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      .+.++|||+|||+.+++++|   .++|++||.|..        |.|+.++.++.++   +||||+|.++++|++||+.||
T Consensus         6 iq~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~--------v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~ln   77 (89)
T d2cpia1           6 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHK--------VVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVN   77 (89)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEE--------EEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHT
T ss_pred             EecCEEEEECCCCccCHHHHHHHHHHhcccCCceE--------EEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhC
Confidence            45678999999999999999   678999999998        8899988776654   899999999999999999999


Q ss_pred             CceecCceEEEE
Q 016532           77 NKDFHGNLIGVF   88 (388)
Q Consensus        77 g~~i~Gr~I~V~   88 (388)
                      +..|.|+.|+|+
T Consensus        78 g~~~~gr~lkvS   89 (89)
T d2cpia1          78 NVVVDGRTLKAS   89 (89)
T ss_dssp             TEEETTEEEEEE
T ss_pred             CCEECCEEEEEC
Confidence            999999999985

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=3.5e-16  Score=121.88  Aligned_cols=79  Identities=25%  Similarity=0.277  Sum_probs=70.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||+++|+++|.++|++||.|..        +.+.      .+++||||+|.++++|+.||..||+..|.|
T Consensus         6 ~~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~--------~~~~------~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g   71 (86)
T d2cpda1           6 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAV--------ERVK------KIRDYAFVHFSNREDAVEAMKALNGKVLDG   71 (86)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCE--------EEEE------ECSSEEEEEESSHHHHHHHHHHHSSEEETT
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHhhcccceeee--------EEEc------cccEEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            35679999999999999999999999999876        3342      357899999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|++|+|+.+
T Consensus        72 ~~i~V~~akP~~~   84 (86)
T d2cpda1          72 SPIEVTLAKPVDK   84 (86)
T ss_dssp             EEEEEECCCCCCC
T ss_pred             EEEEEEeccCCCC
Confidence            9999999987654

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=4.9e-17  Score=130.85  Aligned_cols=81  Identities=21%  Similarity=0.254  Sum_probs=73.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++++|||+|||+++|+++|.++|++||.|..        +.++.+. ++.++|||||+|.+.++|++||+.|||..|.|
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~--------~~~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~g   86 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPFGQVIS--------TRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNGKFIKT   86 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEE--------EEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcccccc--------eeeeccc-ccccccceeEEeCCHHHHHHHHHHhCCCEECC
Confidence            35679999999999999999999999999987        6677764 78999999999999999999999999999999


Q ss_pred             ceEEEEeccc
Q 016532           83 NLIGVFIAES   92 (388)
Q Consensus        83 r~I~V~~a~~   92 (388)
                      ++|.|.+++|
T Consensus        87 r~~~v~~~~P   96 (101)
T d1x5oa1          87 PPGVSAPTEP   96 (101)
T ss_dssp             CTTSCCCSSC
T ss_pred             cCCccCCCCC
Confidence            9988877654

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.65  E-value=1.8e-16  Score=126.29  Aligned_cols=80  Identities=20%  Similarity=0.254  Sum_probs=72.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||+|||+++|+++|.++|++||.|..        |.     .++.+++||||+|.+.++|++||+.||+..|.|
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~--------~~-----~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g   80 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRL--------VS-----QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDG   80 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECC--------EE-----ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhccccee--------ee-----ecCccccEEEEEeCCHHHHHHHHHHcCCCEECC
Confidence            35689999999999999999999999998865        22     257899999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.++..
T Consensus        81 r~i~V~~a~~k~~   93 (96)
T d1fjca_          81 RSVSLYYTGEKGG   93 (96)
T ss_dssp             EEEEEEECSSSCC
T ss_pred             EEEEEEEeCCCCC
Confidence            9999999988654

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.65  E-value=2.1e-16  Score=122.56  Aligned_cols=76  Identities=24%  Similarity=0.259  Sum_probs=68.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-   81 (388)
                      +|+++|||+|||..+|+++|.++|++||.|..        |+|+.+     .++||||+|.+.++|+.||..|++..|. 
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~--------v~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~   72 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQFPGFKE--------VRLVPN-----RHDIAFVEFTTELQSNAAKEALQGFKITP   72 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTSTTEEE--------EEECTT-----TCSCEEEEESSHHHHHHHHHHHTTCBSST
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhccCccEEE--------eeeecc-----cceeEEEecCCHHHHHHHHHHhCCcEeCC
Confidence            57889999999999999999999999999988        667654     3689999999999999999999999885 


Q ss_pred             CceEEEEecc
Q 016532           82 GNLIGVFIAE   91 (388)
Q Consensus        82 Gr~I~V~~a~   91 (388)
                      ++.|+|.||+
T Consensus        73 ~~~i~v~~ak   82 (83)
T d2b0ga1          73 THAMKITFAK   82 (83)
T ss_dssp             TCBCEEEECC
T ss_pred             CcEEEEEEec
Confidence            6899999986

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.7e-16  Score=127.04  Aligned_cols=84  Identities=15%  Similarity=0.268  Sum_probs=74.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .++.+|||.|||+++|+++|+++|..||.|..        +.++.+..++.++|||||+|.++++|++||+ +++..|.+
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~--------~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~-~~~~~i~g   83 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPN--------GMTLPVDFQGRSTGEAFVQFASQEIAEKALK-KHKERIGH   83 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEE--------EEECCBCSSSCBCSEEEEEESSHHHHHHHHT-TTTCCSSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceE--------EEEEEeCCCCCcceEEEEEeCCHHHHHHHHh-hCCCEEcc
Confidence            34568999999999999999999999998876        4456666689999999999999999999997 89999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.+...
T Consensus        84 R~i~V~~~~~~~~   96 (104)
T d1wg5a_          84 RYIEIFKSSRAEV   96 (104)
T ss_dssp             SCCEEEEECTTTS
T ss_pred             eEEEEEECCHHHh
Confidence            9999999987654

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=3.4e-17  Score=123.40  Aligned_cols=71  Identities=27%  Similarity=0.363  Sum_probs=67.6

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      |||+|||+++|+++|.++|++||.|..        ++++.++.|+.++|||||+|.+.++|++||+.||+..|.|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~--------~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVS--------TKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEE--------EEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccc--------cccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            899999999999999999999999998        77999999999999999999999999999999999999998763

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.8e-16  Score=122.17  Aligned_cols=76  Identities=28%  Similarity=0.375  Sum_probs=67.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCc-eecCce
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNK-DFHGNL   84 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~-~i~Gr~   84 (388)
                      ++|||+|||.++|+++|+++|++||.|...        .++.      +++||||+|.+.++|++||+.|||. .|.|+.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~--------~~~~------~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~   67 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAG--------QVLL------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKI   67 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSS--------CEEE------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEe--------EEec------ccceEEEEECCHHHHHHHHHHhCCCeEECCEE
Confidence            469999999999999999999999998763        3443      4689999999999999999999986 699999


Q ss_pred             EEEEecccCCC
Q 016532           85 IGVFIAESRGK   95 (388)
Q Consensus        85 I~V~~a~~~~~   95 (388)
                      |.|++|.++..
T Consensus        68 i~V~~a~~k~~   78 (80)
T d2cqha1          68 MEVDYSVSKKL   78 (80)
T ss_dssp             CEEEECCCCCC
T ss_pred             EEEEEcCCcCc
Confidence            99999998654

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=3e-16  Score=127.36  Aligned_cols=77  Identities=26%  Similarity=0.368  Sum_probs=70.0

Q ss_pred             CcEEEeccCCC-CCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            5 NGSVYVCNLPH-GTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         5 ~~tlfV~nLp~-~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +++|||+|||+ .+|+++|.++|++||.|..        |.|+.++     +|||||+|.++++|++||+.|++..|.|+
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~--------v~i~~~~-----kg~afV~f~~~~~A~~ai~~lng~~l~g~   68 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQR--------VKILFNK-----KENALVQMADGNQAQLAMSHLNGHKLHGK   68 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEE--------EEECCTT-----SCCEEEEESCHHHHHHHHHHHTTCBCSSS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccce--------EEEEecc-----cceEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            57999999965 5999999999999999998        7787764     68999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|.+++...
T Consensus        69 ~l~v~~s~~~~   79 (109)
T d2adca1          69 PIRITLSKHQN   79 (109)
T ss_dssp             BCEEECCSCCC
T ss_pred             EEEEEECCCCC
Confidence            99999987554

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=2.1e-16  Score=123.48  Aligned_cols=77  Identities=23%  Similarity=0.313  Sum_probs=70.3

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ..++|||+|||.++++++|.++|++||.|..        |.++.+      ++||||+|.+.++|++||..||+..|.|+
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~--------i~~~~~------k~~afV~f~~~~~A~~A~~~l~g~~i~g~   72 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGE--------VFIHKD------KGFGFIRLETRTLAEIAKVELDNMPLRGK   72 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSE--------EEEETT------TTEEEEECSSSHHHHHHHHHHTTCCBTTB
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceE--------eeeecc------cceEEEEECCHHHHHHHHHHhCCCEECCE
Confidence            4568999999999999999999999999988        667654      58999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|+|++|....
T Consensus        73 ~l~V~~A~~~~   83 (86)
T d2cpja1          73 QLRVRFACHSA   83 (86)
T ss_dssp             CCEEEESSCCS
T ss_pred             EEEEEECCCcC
Confidence            99999998754

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=2.7e-16  Score=127.88  Aligned_cols=77  Identities=26%  Similarity=0.236  Sum_probs=69.1

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+|||+.+++++|+++|++||.|..        |.|.      .+++||||+|.+.++|++||+.||+..|.|+
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~--------v~l~------~~kg~afV~f~~~~~A~~A~~~lng~~~~gr   74 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGR--------VLLP------EGGITAIVEFLEPLEARKAFRHLAYSKFHHV   74 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEE--------EECC------SSSSCEEEEESCHHHHHHHHHHHTTCBSSSS
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccE--------EEee------ccCceEEEEEcCHHHHHHHHHHHcCCccCCC
Confidence            3578999999999999999999999999987        4442      3578999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|.|+++....
T Consensus        75 ~l~v~~a~~~~   85 (111)
T d1whxa_          75 PLYLEWAPIGV   85 (111)
T ss_dssp             BCEEEEEETTT
T ss_pred             eEEEEECCCCc
Confidence            99999987654

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.6e-16  Score=125.19  Aligned_cols=84  Identities=21%  Similarity=0.234  Sum_probs=73.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCc-eeecCCCCCCeEEEEecC-CCCCcccEEEEEeCCHHHHHHHHHHhCCc--ee
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGL-LKKDKRTGRPKVWLYRDK-TTNEYKGDATVTYEDPHAALAAVEWFNNK--DF   80 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~-i~~~~~tg~p~V~i~~dk-~Tg~srG~aFVeF~s~e~A~~Ai~~lng~--~i   80 (388)
                      +.+|||+|||..+|+++|.++|++||. |..        |.|+.+. .++.++|||||+|.++++|..||..|++.  .+
T Consensus         1 n~rLyV~nLp~~~te~~l~~~f~~~g~~i~~--------v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~   72 (96)
T d2disa1           1 NCRLFIGGIPKMKKREEILEEIAKVTEGVLD--------VIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQL   72 (96)
T ss_dssp             SEEEEEECCCTTSCHHHHHHHHHHHSTTEEE--------EECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCB
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHHHhCCcceE--------EEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEE
Confidence            468999999999999999999999996 666        7788775 46889999999999999999999998654  55


Q ss_pred             cCceEEEEecccCCCC
Q 016532           81 HGNLIGVFIAESRGKD   96 (388)
Q Consensus        81 ~Gr~I~V~~a~~~~~~   96 (388)
                      .++.|.|.+|.++...
T Consensus        73 ~g~~i~V~~A~p~~~~   88 (96)
T d2disa1          73 WGHQIAVDWAEPEIDV   88 (96)
T ss_dssp             TTBCCEEEESCSSCST
T ss_pred             CCEEEEEEEcCCCCCC
Confidence            6999999999886654

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=1.6e-16  Score=125.34  Aligned_cols=80  Identities=20%  Similarity=0.349  Sum_probs=70.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHH----HHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            4 ANGSVYVCNLPHGTDEDMLAE----YFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~----~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      |+.+|||+|||+.+|+++|++    +|++||.|..        |.+..   |+.+++||||+|.+.++|+.||..||+..
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~--------i~~~~---~~~~~g~afV~F~~~~~A~~A~~~~~~~~   70 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILD--------ILVSR---SLKMRGQAFVIFKEVSSATNALRSMQGFP   70 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEE--------EECCH---HHHHTTCEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccc--------eEEee---eccCCCceEEEECCHHHHHHHHHHhCCCE
Confidence            688999999999999999864    5799999987        54533   56789999999999999999999999999


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|+.|.|.+|+++.
T Consensus        71 ~~g~~l~v~~ak~~~   85 (91)
T d1nu4a_          71 FYDKPMRIQYAKTDS   85 (91)
T ss_dssp             ETTEECEEEECSSCC
T ss_pred             ECCEEEEEEEeCCCc
Confidence            999999999998764

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.4e-16  Score=126.22  Aligned_cols=75  Identities=23%  Similarity=0.258  Sum_probs=67.1

Q ss_pred             CCcEEEeccCC-CCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            4 ANGSVYVCNLP-HGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         4 ~~~tlfV~nLp-~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      .+.+|||+||| ..+++++|+++|++||.|..        |.|        +++||||+|.+.++|++||+.||+..|.|
T Consensus        14 ~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~--------~~i--------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g   77 (98)
T d1wf2a_          14 MNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVG--------CSV--------HKGFAFVQYVNERNARAAVAGEDGRMIAG   77 (98)
T ss_dssp             CCCCEEEEEECTTTCCHHHHHHSSTTSSCEEE--------EEE--------ETEEEEEEESSHHHHHHHHHTTTTCEETT
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHhhcCCEEE--------EEE--------eCCeEEEEECCHHHHHHHHHHcCCCEECC
Confidence            45789999997 57889999999999999988        555        46899999999999999999999999999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|.|++|.++.
T Consensus        78 ~~l~V~~a~~~~   89 (98)
T d1wf2a_          78 QVLDINLAAEPK   89 (98)
T ss_dssp             EECEEEETTSCC
T ss_pred             EEEEEEECCCCC
Confidence            999999997643

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=4.7e-16  Score=121.97  Aligned_cols=78  Identities=19%  Similarity=0.274  Sum_probs=67.7

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +.+++|||+|||+++|+++|+++|.+||.. .        +.+      ..+++||||+|.+.++|++||..||+..|.|
T Consensus         3 s~s~~i~V~nLp~~~t~~~l~~lF~~~G~~-~--------~~~------~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G   67 (88)
T d1wg1a_           3 SGSSGILVKNLPQDSNCQEVHDLLKDYDLK-Y--------CYV------DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRG   67 (88)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHTCSSCCC-C--------EEE------EGGGTEEEECCSCHHHHHHHHHHHTTEEETT
T ss_pred             CCCCEEEEeCCCCccChHHHHHHHHhcCce-e--------eee------eccCCceEEEECCHHHHHHHHHHhCCCEECC
Confidence            457899999999999999999999999932 2        223      3467999999999999999999999999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|+++..+..
T Consensus        68 ~~l~V~~a~~~~~   80 (88)
T d1wg1a_          68 KDLIVQLQPTDAL   80 (88)
T ss_dssp             EEEEEEECCCCCC
T ss_pred             EEEEEEEcCCCCC
Confidence            9999999976543

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.63  E-value=4.5e-16  Score=119.52  Aligned_cols=75  Identities=23%  Similarity=0.228  Sum_probs=67.9

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      .+++|||+||+  +|+++|+++|++||.|..        |.+..      .++||||+|.+.++|+.||..||+..|.|+
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~G~I~~--------v~~~~------~~~~afV~f~~~~~A~~Ai~~lng~~~~g~   67 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPFGNIID--------LSMDP------PRNCAFVTYEKMESADQAVAELNGTQVESV   67 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTTCCCSC--------EEEET------TTTEEEEECSSHHHHHHHHHHHTTCBCSSC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhccCccce--------eeecc------CCCEEEEEEcccHHHHHHHHHhCCCEECCE
Confidence            57899999996  899999999999999987        66654      357999999999999999999999999999


Q ss_pred             eEEEEecccCC
Q 016532           84 LIGVFIAESRG   94 (388)
Q Consensus        84 ~I~V~~a~~~~   94 (388)
                      .|+|.+|++++
T Consensus        68 ~l~V~~a~~~P   78 (79)
T d2bz2a1          68 QLKVNIARKQP   78 (79)
T ss_dssp             BCEEEECCSSC
T ss_pred             EEEEEEecCCC
Confidence            99999998764

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.63  E-value=5.3e-16  Score=118.09  Aligned_cols=74  Identities=24%  Similarity=0.201  Sum_probs=67.8

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||+|||+++++++|+++|++||.|..        |.|+.++.+  .++||||+|.++++|++||. |++..|.|+.|
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~--------v~~~~~~~~--~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i   69 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIH--------VDVADSLKK--NFRFARIEFARYDGALAAIT-KTHKVVGQNEI   69 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEE--------EEEEECTTS--SSEEEEEEESSHHHHHHHHT-TTTCEETTEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEE--------EEEEeeccc--cceEEEEEEcchHHhHHHHH-hcCcEECCEEE
Confidence            58999999999999999999999999988        888888753  45799999999999999996 89999999999


Q ss_pred             EEEec
Q 016532           86 GVFIA   90 (388)
Q Consensus        86 ~V~~a   90 (388)
                      .|+.+
T Consensus        70 ~V~~~   74 (75)
T d2ghpa2          70 IVSHL   74 (75)
T ss_dssp             EEEEC
T ss_pred             EEEEC
Confidence            99875

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.8e-16  Score=126.56  Aligned_cols=82  Identities=15%  Similarity=0.177  Sum_probs=72.3

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||+++|+++|.++|..||.|...       | ++....++.++|||||+|.++++|++||. ||+..|.|
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~-------~-~~~~~~~g~~~G~afV~F~s~~~a~~Al~-~n~~~i~g   76 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENA-------V-HVLVDNNGQGLGQALVQFKNEDDARKSER-LHRKKLNG   76 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTT-------E-EECCCTTSSCSSCEEEECSSHHHHHHHGG-GCSEEETT
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEE-------E-EEEeCCCCCcCccEEEEECCHHHHHHHHh-cCCCeECC
Confidence            456789999999999999999999999988762       3 44555689999999999999999999997 99999999


Q ss_pred             ceEEEEecccC
Q 016532           83 NLIGVFIAESR   93 (388)
Q Consensus        83 r~I~V~~a~~~   93 (388)
                      +.|.|.++...
T Consensus        77 r~i~V~~~~~~   87 (103)
T d2cpya1          77 REAFVHVVTLE   87 (103)
T ss_dssp             EEEEEEEECHH
T ss_pred             cEEEEEECCHH
Confidence            99999998654

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=3.3e-16  Score=126.12  Aligned_cols=82  Identities=17%  Similarity=0.352  Sum_probs=72.4

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||.|||+++|+++|+++|..|+.+.         |.++.+. ++.++|||||+|.+.++|++||+ ||+..|.|
T Consensus        13 ~~~~~v~v~nLp~~~te~dl~~~F~~~~~~~---------v~~~~~~-~g~~~G~afVeF~~~~~a~~Al~-~~~~~i~g   81 (102)
T d1weza_          13 TTGHCVHMRGLPYRATENDIYNFFSPLNPMR---------VHIEIGP-DGRVTGEADVEFATHEDAVAAMA-KDKANMQH   81 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCCSE---------EEEEESS-SSCEEEEEEEECSSSHHHHHHHT-TSSCCSSS
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHhccCcce---------eeeEEec-CCcceEEEEEEECCHHHHHHHHH-cCCCEECC
Confidence            3557999999999999999999999998553         6677775 58999999999999999999997 89999999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.++.....
T Consensus        82 R~I~V~~s~~~~~   94 (102)
T d1weza_          82 RYVELFLNSTAGT   94 (102)
T ss_dssp             SCCEEEEECCCCC
T ss_pred             EEEEEEEcCCCCC
Confidence            9999999887653

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=2.1e-16  Score=123.93  Aligned_cols=78  Identities=22%  Similarity=0.304  Sum_probs=68.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ..+++|||+|||+.+|+++|+++|++||.|..        |+++     ..+++||||+|.+.++|++||.  ++..|.|
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~--------v~~~-----~~~~gfafV~f~~~~~a~~a~~--~~~~i~g   67 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMD--------VFIP-----KPFRAFAFVTFADDQIAQSLCG--EDLIIKG   67 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCE--------EECC-----SSCCSCCEEECSCHHHHHHTTT--CEEEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceE--------EEEe-----eccCceEEEEECCHHHHHHHHh--CCCEECC
Confidence            56889999999999999999999999999987        4443     3468999999999999999985  7889999


Q ss_pred             ceEEEEecccCCC
Q 016532           83 NLIGVFIAESRGK   95 (388)
Q Consensus        83 r~I~V~~a~~~~~   95 (388)
                      +.|.|.+|.++..
T Consensus        68 ~~l~v~~a~~k~~   80 (88)
T d1wf0a_          68 ISVHISNAEPKHN   80 (88)
T ss_dssp             EEEEEECCCCCCC
T ss_pred             EEeEEEeCCCCCC
Confidence            9999999987654

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=1.4e-16  Score=124.66  Aligned_cols=75  Identities=19%  Similarity=0.179  Sum_probs=67.4

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      ++|||+|||+++|+++|+++|++||.|..        |.|+.       .|||||+|.+.++|+.||..||+..|.|+.|
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~--------~~i~~-------~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i   65 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCY--------ADVYR-------DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEG   65 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEE--------EEECT-------TSEEEEEESSHHHHHHHHHHHTTCBCCCTTS
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhccccc--------ccccc-------cceeeEEeCCHHHHHHHHHHhCCCEECCcEe
Confidence            47999999999999999999999999987        65653       3899999999999999999999999999999


Q ss_pred             EEEecccCCC
Q 016532           86 GVFIAESRGK   95 (388)
Q Consensus        86 ~V~~a~~~~~   95 (388)
                      .|.++..+..
T Consensus        66 ~v~~~~~~~~   75 (87)
T d3begb1          66 ETAYIRVKVD   75 (87)
T ss_dssp             CCCBCEEEEC
T ss_pred             EEeEEecCcC
Confidence            9998876543

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=9.8e-16  Score=122.20  Aligned_cols=78  Identities=23%  Similarity=0.210  Sum_probs=69.8

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      +++++|||+|||+++|+++|+++|++||.|..        |+|+.+      ++||||+|.+.++|+.||+.||+..|.+
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~--------~~~~~~------~~~afV~f~~~~~A~~A~~~l~~~~i~g   80 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRT--------IDHVKG------DSFAYIQYESLDAAQAACAKMRGFPLGG   80 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEE--------EEECSS------SCCEEEEESSHHHHHHHHHHHTTCBCSS
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhhcccce--------Eeeecc------ccEEEeccCCHHHHHHHHHHhCCCEeCC
Confidence            56799999999999999999999999999987        666643      5799999999999999999999999986


Q ss_pred             --ceEEEEecccCC
Q 016532           83 --NLIGVFIAESRG   94 (388)
Q Consensus        83 --r~I~V~~a~~~~   94 (388)
                        .+|+|++|++.+
T Consensus        81 ~~~~l~v~~ak~~~   94 (97)
T d1whya_          81 PDRRLRVDFAKSGP   94 (97)
T ss_dssp             SSCBCEEEECCCCC
T ss_pred             CceEEEEEeCCCCC
Confidence              589999998643

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=1.2e-15  Score=122.04  Aligned_cols=77  Identities=14%  Similarity=0.060  Sum_probs=69.7

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      ...+|||+|||+.+++++|+++|++||.|..        |.|.       +++||||+|.+.++|++||+.||+..|.|+
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~--------~~i~-------~~g~afV~f~~~~~a~~Ai~~lng~~~~g~   78 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVCY--------ADVQ-------KDGMGMVEYLRKEDMEYALRKLDDTKFRSH   78 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEEE--------EEEE-------TTTEEEEEESSHHHHHHHHHHHSSEEEECT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhccccc--------cccc-------ccceEEEEECCHHHHHHHHHHhCCCEeCCe
Confidence            4568999999999999999999999999987        5554       248999999999999999999999999999


Q ss_pred             eEEEEecccCCC
Q 016532           84 LIGVFIAESRGK   95 (388)
Q Consensus        84 ~I~V~~a~~~~~   95 (388)
                      .|.|.+++.+..
T Consensus        79 ~i~v~~~~~~~~   90 (98)
T d1wg4a_          79 EGETSYIRVYPE   90 (98)
T ss_dssp             TSCEEEEEEECC
T ss_pred             EEEEEEEecCCC
Confidence            999999987654

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=1.2e-15  Score=124.00  Aligned_cols=81  Identities=17%  Similarity=0.166  Sum_probs=71.0

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceec-
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFH-   81 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~-   81 (388)
                      ++..+|||+|||+.+|+++|.++|++||.|..        |.|+.++    .++||||+|.++++|+.||..||+..|. 
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~--------~~i~~~~----~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~   72 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLK--------IITFTKN----NQFQALLQYADPVSAQHAKLSLDGQNIYN   72 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTSCEEE--------EEEEEET----TEEEEEEEESCHHHHHHHHHHHHSCCSST
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCCcEEE--------EEEEeeC----CCCeEEEEECCHHHHHHHHHHHCCCEecc
Confidence            45568899999999999999999999999988        6677765    4799999999999999999999999884 


Q ss_pred             -CceEEEEecccCCC
Q 016532           82 -GNLIGVFIAESRGK   95 (388)
Q Consensus        82 -Gr~I~V~~a~~~~~   95 (388)
                       +..|.|.+++++..
T Consensus        73 ~~~~l~v~~s~~~~~   87 (108)
T d2adba1          73 ACCTLRIDFSKLTSL   87 (108)
T ss_dssp             TCCCCEEEECSSCSC
T ss_pred             CCcEEEEEecCCccc
Confidence             68899998876543

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=3.8e-15  Score=116.43  Aligned_cols=79  Identities=13%  Similarity=0.203  Sum_probs=69.9

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCce
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKD   79 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l--ng~~   79 (388)
                      ..|+.+|||+|||+.+|+++|.++|++||.|..        |+++.+      ++||||+|.+.++|++||..|  ++..
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~--------v~~~~~------~~~afV~f~~~e~A~~a~~~~~~~~~~   70 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTN--------ILMLKG------KNQAFLELATEEAAITMVNYYSAVTPH   70 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEE--------EEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccccccc--------cccccc------ceEEEEEeCCHHHHHHHHHHHccCCCc
Confidence            357889999999999999999999999999988        666643      479999999999999999865  5778


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|+.|.|.+++.+.
T Consensus        71 ~~g~~l~v~~sk~~~   85 (88)
T d2cq1a1          71 LRNQPIYIQYSNHKE   85 (88)
T ss_dssp             ETTEECEEEECSCSS
T ss_pred             cCCCEEEEEECCCCC
Confidence            999999999998764

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.57  E-value=5.1e-15  Score=112.56  Aligned_cols=72  Identities=21%  Similarity=0.350  Sum_probs=63.7

Q ss_pred             EEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEE
Q 016532            8 VYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGV   87 (388)
Q Consensus         8 lfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V   87 (388)
                      |||+|||+++|+++|+++|++|| +..        +.+      +.+++||||+|.+.++|++||..||+..|.|+.|.|
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~--------~~~------~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V   65 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKY--------CFV------DKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSV   65 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEE--------EEE------ETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccc--------eee------cccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEE
Confidence            89999999999999999999999 333        222      346799999999999999999999999999999999


Q ss_pred             EecccCC
Q 016532           88 FIAESRG   94 (388)
Q Consensus        88 ~~a~~~~   94 (388)
                      +++....
T Consensus        66 ~~a~~d~   72 (75)
T d1wi6a1          66 QLQPTDA   72 (75)
T ss_dssp             EECCSTT
T ss_pred             EEeCCCC
Confidence            9997654

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.56  E-value=1e-14  Score=117.63  Aligned_cols=80  Identities=20%  Similarity=0.140  Sum_probs=69.9

Q ss_pred             CCCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCce
Q 016532            2 TMANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKD   79 (388)
Q Consensus         2 ~~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l--ng~~   79 (388)
                      ..++.+|||.|||+.+|+++|.++|++||.|..        |+|++      .+++|||+|.+.++|+.||..|  +...
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~--------~~~~~------~k~~AfV~f~~~e~A~~ai~~~~~~~~~   77 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICY--------VMMMP------FKRQALVEFENIDSAKECVTFAADVPVY   77 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEE--------EEEET------TTTEEEEEESSHHHHHHHHHHHHHSCCB
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceE--------EEEEe------cceeEEEEeCCHHHHHHHHHHHcCCCcE
Confidence            357889999999999999999999999999988        66654      3589999999999999999987  5567


Q ss_pred             ecCceEEEEecccCCC
Q 016532           80 FHGNLIGVFIAESRGK   95 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~~   95 (388)
                      +.+++|.|.+++.+..
T Consensus        78 ~~g~~l~v~~s~~~~~   93 (104)
T d1wexa_          78 IAGQQAFFNYSTSKRI   93 (104)
T ss_dssp             SSSSBCEEEECSSSSC
T ss_pred             EeeEEEEEEEcCCCcc
Confidence            8899999999977544

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=2e-15  Score=123.51  Aligned_cols=81  Identities=15%  Similarity=0.258  Sum_probs=72.0

Q ss_pred             CCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCc
Q 016532            4 ANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGN   83 (388)
Q Consensus         4 ~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr   83 (388)
                      +..+|||+|||+.+|+++|.++|+.||.+...        .++.+..+|.++|||||+|.+.++|++||. ||+..|.++
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~--------~~~~~~~~g~~~G~afVeF~~~e~a~~al~-~~~~~i~gR   87 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDS--------IYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNR   87 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTT--------CEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTS
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccc--------eeeecCcccceeeEEEEEECCHHHHHHHHH-cCCCcCCCE
Confidence            45699999999999999999999999988763        355566689999999999999999999997 999999999


Q ss_pred             eEEEEecccC
Q 016532           84 LIGVFIAESR   93 (388)
Q Consensus        84 ~I~V~~a~~~   93 (388)
                      .|.|..+...
T Consensus        88 ~i~V~~~~~~   97 (112)
T d1wela1          88 FIQVHPITKK   97 (112)
T ss_dssp             CBEEEEECHH
T ss_pred             EEEEEEcChH
Confidence            9999988654

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.54  E-value=5.6e-15  Score=119.49  Aligned_cols=81  Identities=12%  Similarity=0.232  Sum_probs=70.4

Q ss_pred             CCCcEEEeccCCCCC-CH----HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCC
Q 016532            3 MANGSVYVCNLPHGT-DE----DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNN   77 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~-te----edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng   77 (388)
                      +.+++|||+||+..+ ++    ++|+.+|++||.|..        |.+++      +++||||+|.+.++|++||..||+
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~--------~~~~k------~~~~afV~f~~~~~A~~Ai~~lng   68 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTT--------FQYFK------SFKRVRINFSNPLSAADARLRLHK   68 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCE--------EEEET------TTTEEEEECSSTTHHHHHHHTSTT
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceE--------EEEec------CCCEEEEEECCHHHHHHHHHHhcc
Confidence            567899999999876 33    569999999999988        66653      468999999999999999999999


Q ss_pred             ceecCceEEEEecccCCCCC
Q 016532           78 KDFHGNLIGVFIAESRGKDD   97 (388)
Q Consensus        78 ~~i~Gr~I~V~~a~~~~~~~   97 (388)
                      ..|.|+.|+|.+|++.....
T Consensus        69 ~~~~g~~l~v~~a~~~~~~~   88 (104)
T d1weya_          69 TEFLGKEMKLYFAQTLHIGS   88 (104)
T ss_dssp             SEETTEECEEECCCCSSCCS
T ss_pred             cccCCCEeEEeecccCCCCC
Confidence            99999999999998776544

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=3e-14  Score=124.77  Aligned_cols=83  Identities=22%  Similarity=0.315  Sum_probs=77.1

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ....+|||+|||..+|+++|.++|+.||.|..        |.|+.+..|+.++|||||+|.+.++|++||+ +++..|.|
T Consensus        95 ~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~--------~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G  165 (183)
T d1u1qa_          95 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEV--------IEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNG  165 (183)
T ss_dssp             CCCSEEEEECCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEETT
T ss_pred             cccceeEEccCCCcCCHHHHhhhhccCCceee--------eeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeECC
Confidence            35679999999999999999999999999988        8899999999999999999999999999997 78899999


Q ss_pred             ceEEEEecccCC
Q 016532           83 NLIGVFIAESRG   94 (388)
Q Consensus        83 r~I~V~~a~~~~   94 (388)
                      +.|+|.+|.++.
T Consensus       166 ~~i~V~~A~~k~  177 (183)
T d1u1qa_         166 HNCEVRKALSKQ  177 (183)
T ss_dssp             EEEEEEECCCHH
T ss_pred             EEEEEEecCCcc
Confidence            999999997754

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.49  E-value=1.6e-14  Score=115.63  Aligned_cols=78  Identities=23%  Similarity=0.278  Sum_probs=68.2

Q ss_pred             CCCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH--HhCCce
Q 016532            3 MANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE--WFNNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~--~lng~~   79 (388)
                      .++.+|||+|||.. +|+++|..+|++||.|..        |.|+.+      ++||||+|.+.++|..||+  .+++..
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~--------v~~~~~------k~~afV~f~~~~~A~~Ai~~~~~~~~~   81 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKN--------YILMRM------KSQAFIEMETREDAMAMVDHCLKKALW   81 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSE--------EEEETT------TTEEEEECSSHHHHHHHHHHHHHSCCC
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeE--------EEEeec------CCcEEEEecchHHHHHHHHHHhcCCce
Confidence            35679999999985 899999999999999988        667644      5899999999999999997  478889


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|+.|.|.+|+.+.
T Consensus        82 ~~gr~l~V~~s~~~~   96 (99)
T d1x4fa1          82 FQGRCVKVDLSEKYK   96 (99)
T ss_dssp             SSSSCCEEEEECSCS
T ss_pred             ECCEEEEEEEcCCcc
Confidence            999999999997654

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.49  E-value=9.8e-16  Score=120.31  Aligned_cols=81  Identities=19%  Similarity=0.237  Sum_probs=67.9

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||..+|+++|+++|++||.|.......   ...+.+..++.+++||||+|.+.++|++|+. ||+..|+|+.|
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~---~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l   77 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAP---GNPVLAVQINQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSL   77 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSS---SCSEEECCEETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEec---cceeeecccCCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEE
Confidence            5899999999999999999999999887643111   1223456678899999999999999999996 99999999999


Q ss_pred             EEEec
Q 016532           86 GVFIA   90 (388)
Q Consensus        86 ~V~~a   90 (388)
                      +|..+
T Consensus        78 ~V~r~   82 (90)
T d1u2fa_          78 KIRRP   82 (90)
T ss_dssp             CCBCT
T ss_pred             EECCC
Confidence            99643

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.47  E-value=4.2e-14  Score=110.97  Aligned_cols=78  Identities=14%  Similarity=0.241  Sum_probs=68.2

Q ss_pred             CCCcEEEeccCCCC-CCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHh--CCce
Q 016532            3 MANGSVYVCNLPHG-TDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWF--NNKD   79 (388)
Q Consensus         3 ~~~~tlfV~nLp~~-~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~l--ng~~   79 (388)
                      .++.+|||+|||.. +|+++|.++|++||.|..        |.|+.+      +++|||+|++.++|+.||..|  ++..
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~--------i~i~~~------k~~afV~f~~~~~A~~A~~~l~~~~~~   71 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISN--------HLILNK------INEAFIEMATTEDAQAAVDYYTTTPAL   71 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEE--------EEECSS------SSCEEEEESSHHHHHHHHHHHHHSCCE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEE--------EEeecc------ceEEEEEEcchhhHHHHHHHHhhCCCc
Confidence            46789999999986 889999999999999998        667654      368999999999999999965  6788


Q ss_pred             ecCceEEEEecccCC
Q 016532           80 FHGNLIGVFIAESRG   94 (388)
Q Consensus        80 i~Gr~I~V~~a~~~~   94 (388)
                      |.|++|.|.+|++..
T Consensus        72 ~~gr~l~V~~s~~~~   86 (89)
T d1x4da1          72 VFGKPVRVHLSQKYK   86 (89)
T ss_dssp             ETTEECEEEEECCCT
T ss_pred             cCCceEEEEECCCcc
Confidence            999999999997643

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=5.2e-14  Score=113.65  Aligned_cols=75  Identities=19%  Similarity=0.184  Sum_probs=68.7

Q ss_pred             EEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEE
Q 016532            7 SVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIG   86 (388)
Q Consensus         7 tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~   86 (388)
                      .|+|.+|+..++|++|+++|++||.|..        |.|+.+ .|+.++|||||+|.+.++|++||..|||..|.|++|.
T Consensus        29 ~~~v~~~~~~~~ed~l~e~f~k~G~I~~--------v~I~~~-~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~   99 (104)
T d1jmta_          29 DVEMQEHYDEFFEEVFTEMEEKYGEVEE--------MNVCDN-LGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIH   99 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCCEEE--------EEECCS-SSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECC
T ss_pred             hHHhhhhhhhhhHHHHHHHhccCCCEEE--------EEeecC-CCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEE
Confidence            4677788888899999999999999998        778776 4799999999999999999999999999999999999


Q ss_pred             EEec
Q 016532           87 VFIA   90 (388)
Q Consensus        87 V~~a   90 (388)
                      |+++
T Consensus       100 v~~s  103 (104)
T d1jmta_         100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEC
Confidence            9986

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=2.5e-12  Score=112.29  Aligned_cols=80  Identities=24%  Similarity=0.297  Sum_probs=71.6

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceE
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLI   85 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I   85 (388)
                      .+|||+|||+.+|+++|.++|++||.|..        |.|+.++.++.+++||||+|.+.++|++|+. +++..+....+
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G~v~~--------~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~   77 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWGTLTD--------CVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVV   77 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGSCEEE--------EEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcCCEEE--------EEeeecccCCCccCceecccCCHHHHHHHHH-hcCCcccccch
Confidence            69999999999999999999999999988        7899999999999999999999999999998 55666888888


Q ss_pred             EEEecccCC
Q 016532           86 GVFIAESRG   94 (388)
Q Consensus        86 ~V~~a~~~~   94 (388)
                      .+....+..
T Consensus        78 ~~~~~~~~~   86 (183)
T d1u1qa_          78 EPKRAVSRE   86 (183)
T ss_dssp             EEEECCCTT
T ss_pred             hhhhhhhcc
Confidence            877765443

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.33  E-value=1.3e-12  Score=104.80  Aligned_cols=66  Identities=21%  Similarity=0.269  Sum_probs=57.2

Q ss_pred             CCCCcEEEecc--CCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCce
Q 016532            2 TMANGSVYVCN--LPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKD   79 (388)
Q Consensus         2 ~~~~~tlfV~n--Lp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~   79 (388)
                      ..++.+|||.|  ||+.+|+++|+.+|++||.|..        |.++.+      ++||||+|.+.++|+.||..|||..
T Consensus        15 ~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~--------i~~~~~------k~~aFV~f~~~e~A~~A~~~lng~~   80 (101)
T d2cq2a1          15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDA--------LLMPPN------KPYSFARYRTTEESKRAYVTLNGKE   80 (101)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEE--------EECCTT------CSCEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCCceEEEECCCCCCCCCHHHHHHHHHhhCcccE--------EeeccC------ccEEEEEECCHHHHHHHHHHhCCCC
Confidence            35678899955  9999999999999999999987        555443      5799999999999999999999988


Q ss_pred             ec
Q 016532           80 FH   81 (388)
Q Consensus        80 i~   81 (388)
                      |.
T Consensus        81 i~   82 (101)
T d2cq2a1          81 VV   82 (101)
T ss_dssp             EE
T ss_pred             CC
Confidence            74

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.27  E-value=2e-12  Score=105.53  Aligned_cols=73  Identities=16%  Similarity=0.111  Sum_probs=62.0

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCH-HHHHHHHHHhCCceecCce
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDP-HAALAAVEWFNNKDFHGNL   84 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~-e~A~~Ai~~lng~~i~Gr~   84 (388)
                      -.+||+|||+.+|+++|+++|++||.|..        |.|+.+      ++||||.|.+. ++|..||..|++..|.+..
T Consensus        12 ~~~fvgnL~~~~tee~Lk~~F~~fG~V~~--------v~i~~~------kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~   77 (113)
T d1owxa_          12 LLKFSGDLDDQTCREDLHILFSNHGEIKW--------IDFVRG------AKEGIILFKEKAKEALGKAKDANNGNLQLRN   77 (113)
T ss_dssp             EEEEEESCCSSCCHHHHHHHTCSSCCEEE--------EECCTT------CSEEEEEESSCHHHHHHHHHHTTTSCBCTTS
T ss_pred             eEEEECCCCCCCCHHHHHHHHHhcCChhe--------EEEecC------CceEEEEecCcHHHHHHHHHHhcCCceecCc
Confidence            35799999999999999999999999998        667643      68999999985 6899999999999888776


Q ss_pred             EEEEeccc
Q 016532           85 IGVFIAES   92 (388)
Q Consensus        85 I~V~~a~~   92 (388)
                      +.|.++..
T Consensus        78 ~~v~~~~~   85 (113)
T d1owxa_          78 KEVTWEVL   85 (113)
T ss_dssp             SSEEEEEC
T ss_pred             eEEEEeec
Confidence            66666543

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=5.7e-12  Score=96.95  Aligned_cols=75  Identities=19%  Similarity=0.222  Sum_probs=61.9

Q ss_pred             CCCcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecC
Q 016532            3 MANGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHG   82 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~G   82 (388)
                      ++.+.|||.|||++++++.| .+|++||.|..        +.+.      ..++||||+|.++++|++||. +||..|.|
T Consensus         2 ~~~~wV~V~G~p~~~~~~il-~~F~~~G~I~~--------~~~~------~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g   65 (81)
T d1wwha1           2 LDDTWVTVFGFPQASASYIL-LQFAQYGNILK--------HVMS------NTGNWMHIRYQSKLQARKALS-KDGRIFGE   65 (81)
T ss_dssp             GGGGEEEEECCCGGGHHHHH-HHHHTTSCEEE--------EEEC------SSSSEEEEEESSHHHHHHHHT-TTTCEETT
T ss_pred             CcccEEEEECCChHHHHHHH-HHHHhhhhhhe--------EEec------CCCCEEEEEEcccHHHHHHHh-cCCCeECC
Confidence            35678999999999987655 57999999987        4443      346899999999999999996 99999999


Q ss_pred             c-eEEEEecccC
Q 016532           83 N-LIGVFIAESR   93 (388)
Q Consensus        83 r-~I~V~~a~~~   93 (388)
                      + .|.|..+..+
T Consensus        66 ~~~vgV~~~~~k   77 (81)
T d1wwha1          66 SIMIGVKPCIDK   77 (81)
T ss_dssp             TEECEEEECCCH
T ss_pred             cEEEEEEeCCCh
Confidence            7 4668876543

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

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

Probab=99.23  E-value=1e-11  Score=99.02  Aligned_cols=81  Identities=20%  Similarity=0.278  Sum_probs=67.8

Q ss_pred             CCCcEEEeccC--CCCC---------CHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHH
Q 016532            3 MANGSVYVCNL--PHGT---------DEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAA   71 (388)
Q Consensus         3 ~~~~tlfV~nL--p~~~---------teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~A   71 (388)
                      ..+.+|+|.||  |.++         .+++|...|++||.|..        |.++.+    .++|||||+|.++++|++|
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~--------v~~~~~----~~~G~~fV~f~~~e~A~~A   73 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRK--------LLLFDR----HPDGVASVSFRDPEEADYC   73 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSE--------EEEETT----CTTCEEEEECSCHHHHHHH
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEE--------EeccCC----CCccEEEEEECCHHHHHHH
Confidence            35679999999  5432         13678899999999987        666554    4679999999999999999


Q ss_pred             HHHhCCceecCceEEEEecccCCC
Q 016532           72 VEWFNNKDFHGNLIGVFIAESRGK   95 (388)
Q Consensus        72 i~~lng~~i~Gr~I~V~~a~~~~~   95 (388)
                      |..|||..|.|++|.|+++.++.+
T Consensus        74 ~~~lng~~~~gr~i~v~~~~g~~~   97 (99)
T d2dita1          74 IQTLDGRWFGGRQITAQAWDGTTD   97 (99)
T ss_dssp             HHHSTTCEETTEECEEEECCSCCC
T ss_pred             HHHhCCcEECCEEEEEEEeCCcCC
Confidence            999999999999999999877654

>d1n0za_ g.41.11.1 (A:) Znf265, first zinc-finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Znf265, first zinc-finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.13  E-value=1.8e-11  Score=82.65  Aligned_cols=34  Identities=41%  Similarity=0.951  Sum_probs=31.0

Q ss_pred             CCCCCCCccCC--CCCccccccccccccCCCCCCCC
Q 016532          209 GLFGPNDWSCP--MCGNINWAKRTKCNICNTNKPGH  242 (388)
Q Consensus       209 ~~~~~~dw~c~--~c~~~n~~~~~~c~~c~~~~~~~  242 (388)
                      ..+++|||+|+  .|+|+|||+|+.||+|++||+..
T Consensus         8 ~~~~~GDW~C~~~~C~~~NFa~R~~C~rC~~~r~~g   43 (45)
T d1n0za_           8 FRVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTG   43 (45)
T ss_dssp             CSSCSSSCBCSSTTTCCBCCSSCSBCSSSCCBCCCC
T ss_pred             CCCCCCCccCCCCCCCCeeccccCcccCCCCcCCCC
Confidence            45789999997  79999999999999999999863

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

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

Probab=99.12  E-value=2.6e-11  Score=97.32  Aligned_cols=82  Identities=12%  Similarity=0.154  Sum_probs=68.8

Q ss_pred             CCCcEEEeccC--CCCCC--------HHHHHHHHHhcCceeecCCCCCCeEEEEecCCCC--CcccEEEEEeCCHHHHHH
Q 016532            3 MANGSVYVCNL--PHGTD--------EDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTN--EYKGDATVTYEDPHAALA   70 (388)
Q Consensus         3 ~~~~tlfV~nL--p~~~t--------eedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg--~srG~aFVeF~s~e~A~~   70 (388)
                      +|+.+|.|.||  |..+.        .++|++.|++||.|..        |.|+++..+.  ...|++||+|.+.++|.+
T Consensus         2 ~Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~--------v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~   73 (104)
T d1o0pa_           2 HPTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKS--------IEIPRPVDGVEVPGCGKIFVEFTSVFDCQK   73 (104)
T ss_dssp             CCCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEE--------EECCCCTTSSSCTTCCEEEEEESCHHHHHH
T ss_pred             CCCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEE--------EEEeecCCCCccCCceEEEEEECCHHHHHH
Confidence            47889999999  44432        3578899999999998        7787766543  345899999999999999


Q ss_pred             HHHHhCCceecCceEEEEeccc
Q 016532           71 AVEWFNNKDFHGNLIGVFIAES   92 (388)
Q Consensus        71 Ai~~lng~~i~Gr~I~V~~a~~   92 (388)
                      |+..|||..|.|+.|.|.++..
T Consensus        74 A~~~l~Gr~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          74 AMQGLTGRKFANRVVVTKYCDP   95 (104)
T ss_dssp             HHHHHSSCCSSSSCCEEEEECH
T ss_pred             HHHHHCCCEECCeEEEEEEcCH
Confidence            9999999999999999999864

>d1n0za_ g.41.11.1 (A:) Znf265, first zinc-finger domain {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Znf265, first zinc-finger domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.06  E-value=7.1e-11  Score=79.64  Aligned_cols=36  Identities=50%  Similarity=1.170  Sum_probs=32.7

Q ss_pred             ccccCCCCCCCCCCCcccccccccccccCCCCCCCC
Q 016532          142 TWQQDGDWMCPNTSCSNVNFAFRGVCNRCGTARPVG  177 (388)
Q Consensus       142 ~~~r~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~~~  177 (388)
                      ....+|||+|++++|+++||++|+.||+|+++|+++
T Consensus         8 ~~~~~GDW~C~~~~C~~~NFa~R~~C~rC~~~r~~g   43 (45)
T d1n0za_           8 FRVSDGDWICPDKKCGNVNFARRTSCDRCGREKTTG   43 (45)
T ss_dssp             CSSCSSSCBCSSTTTCCBCCSSCSBCSSSCCBCCCC
T ss_pred             CCCCCCCccCCCCCCCCeeccccCcccCCCCcCCCC
Confidence            345789999998899999999999999999999975

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.23  E-value=0.00029  Score=53.55  Aligned_cols=71  Identities=20%  Similarity=0.282  Sum_probs=55.2

Q ss_pred             CCCcEEEeccCCCCC------CH---HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHH
Q 016532            3 MANGSVYVCNLPHGT------DE---DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVE   73 (388)
Q Consensus         3 ~~~~tlfV~nLp~~~------te---edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~   73 (388)
                      ++..||.|.=+.+..      .+   .+|.+.|..||.|.-        |+++.+        -..|+|.+-++|.+|+.
T Consensus        13 PpDgTIvV~i~~~s~e~~~~FDe~l~~~Llq~l~~~GeViL--------vRFv~d--------~mwVTF~dG~SAL~al~   76 (95)
T d1ufwa_          13 PLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVL--------VRINQG--------QMLVTFADSHSALSVLD   76 (95)
T ss_dssp             CTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSE--------EEEETT--------EEEEECSCSHHHHHHHH
T ss_pred             CCCcEEEEEeccCCccccccCCHHHHHHHHHHHhhCCeEEE--------EEEeCC--------eEEEEECCcHHHHHHhc
Confidence            355688886554333      22   467788999999876        666654        47999999999999998


Q ss_pred             HhCCceecCceEEEEec
Q 016532           74 WFNNKDFHGNLIGVFIA   90 (388)
Q Consensus        74 ~lng~~i~Gr~I~V~~a   90 (388)
                       +++.++.|+.|+|...
T Consensus        77 -l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          77 -VDGMKVKGRAVKISGP   92 (95)
T ss_dssp             -GGGSEETTEEEEEECC
T ss_pred             -cCCeEEcceEEEEecC
Confidence             9999999999999864

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=0.0013  Score=50.22  Aligned_cols=79  Identities=14%  Similarity=0.108  Sum_probs=59.2

Q ss_pred             cEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCc--ccEEEEEeCCHHHHHHHHHHhCCceecC-
Q 016532            6 GSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEY--KGDATVTYEDPHAALAAVEWFNNKDFHG-   82 (388)
Q Consensus         6 ~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~s--rG~aFVeF~s~e~A~~Ai~~lng~~i~G-   82 (388)
                      ++|.|..||+.+||+++.+.+...+.+.-        +.....+.+-++  -.-|+|.|.+.+++....+.++|+.|.+ 
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~--------~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D~   73 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDY--------FEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLDN   73 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEE--------EEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEECT
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEE--------EEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEcC
Confidence            58999999999999999999987776654        333333333222  2479999999999999999999998864 


Q ss_pred             ----ceEEEEeccc
Q 016532           83 ----NLIGVFIAES   92 (388)
Q Consensus        83 ----r~I~V~~a~~   92 (388)
                          ..-.|++|..
T Consensus        74 ~g~~~~a~VE~AP~   87 (91)
T d1uw4a_          74 KGQEYPAIVEFAPF   87 (91)
T ss_dssp             TCCEEECEEEECSS
T ss_pred             CCCEeeeEEEEcCc
Confidence                2345666543

>d2gqea1 g.41.11.1 (A:3-31) Nuclear pore complex protein nup153 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Nuclear pore complex protein nup153
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.58  E-value=0.00045  Score=41.41  Aligned_cols=27  Identities=37%  Similarity=0.807  Sum_probs=26.2

Q ss_pred             CCccCCCCCccccccccccccCCCCCC
Q 016532          214 NDWSCPMCGNINWAKRTKCNICNTNKP  240 (388)
Q Consensus       214 ~dw~c~~c~~~n~~~~~~c~~c~~~~~  240 (388)
                      |.|.|..|--.|-+..+.|.-|.+|||
T Consensus         3 GsWeC~~C~v~N~~~~~~CvAC~tpkP   29 (29)
T d2gqea1           3 GTWDCDTCLVQNKPEAIKCVACETPKP   29 (29)
T ss_dssp             CCEECSSSCCEECTTCSBCSSSCCBCC
T ss_pred             ceeECCceEeEChhhCCEEeecCCCCC
Confidence            789999999999999999999999998

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.23  E-value=0.013  Score=42.09  Aligned_cols=61  Identities=28%  Similarity=0.316  Sum_probs=49.0

Q ss_pred             HHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhCCceecCceEEEEecc
Q 016532           20 DMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFNNKDFHGNLIGVFIAE   91 (388)
Q Consensus        20 edL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~lng~~i~Gr~I~V~~a~   91 (388)
                      +.|...|.+++.|.+        |.|....   ...-.|-|...+.++|..||..|+-..|..++|.|.++.
T Consensus        11 q~L~~~f~~h~~V~s--------v~l~~~~---dg~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          11 QLLQEAFARHGKVKS--------VELSPHT---DYQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHSCEEE--------EEECSCC---STTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHhheeEEE--------EEEEecc---CCcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            445678899999987        4443322   122479999999999999999999999999999999975

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.11  E-value=0.13  Score=39.03  Aligned_cols=56  Identities=20%  Similarity=0.224  Sum_probs=46.1

Q ss_pred             CcEEEeccCCCCCCHHHHHHHHHhcCceeecCCCCCCeEEEEecCCCCCcccEEEEEeCCHHHHHHHHHHhC
Q 016532            5 NGSVYVCNLPHGTDEDMLAEYFGTIGLLKKDKRTGRPKVWLYRDKTTNEYKGDATVTYEDPHAALAAVEWFN   76 (388)
Q Consensus         5 ~~tlfV~nLp~~~teedL~~~F~~~G~i~~~~~tg~p~V~i~~dk~Tg~srG~aFVeF~s~e~A~~Ai~~ln   76 (388)
                      -.-||.-..|......||.++|+.||.|..         ..+-+.       -|||...+.+.|+.++..+.
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~V---------swIddT-------Sa~V~L~~~e~~~~v~~~~~   70 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAFGNIQI---------SWIDDT-------SAFVSLSQPEQVQIAVNTSK   70 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTTCSCCC---------EEEETT-------EEEEECSCHHHHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCCCceEE---------EEecCc-------eEEEEecCHHHHHHHHHHhc
Confidence            356888899999999999999999999874         344332       59999999999999887554

>d1q5wa_ g.41.11.1 (A:) Npl4 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Npl4
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=92.73  E-value=0.021  Score=33.53  Aligned_cols=27  Identities=22%  Similarity=0.736  Sum_probs=24.9

Q ss_pred             CCCccCCCCCccccccccccccCCCCC
Q 016532          213 PNDWSCPMCGNINWAKRTKCNICNTNK  239 (388)
Q Consensus       213 ~~dw~c~~c~~~n~~~~~~c~~c~~~~  239 (388)
                      ..-|.|..|-.+|-.--..|.+|.-|+
T Consensus         4 samWsC~HCTf~N~pgtd~CeMC~LPr   30 (31)
T d1q5wa_           4 SAMWACQHCTFMNQPGTGHCEMCSLPR   30 (31)
T ss_dssp             CCCEECSSSCCEECTTCSBCTTTCCBC
T ss_pred             cceeEeeeeeeecCCCCCcchhhccCC
Confidence            467999999999999999999999886

>d2gqea1 g.41.11.1 (A:3-31) Nuclear pore complex protein nup153 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Nuclear pore complex protein nup153
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.26  E-value=0.11  Score=30.58  Aligned_cols=28  Identities=32%  Similarity=0.650  Sum_probs=25.9

Q ss_pred             CCCCCCCCCCCcccccccccccccCCCCCC
Q 016532          146 DGDWMCPNTSCSNVNFAFRGVCNRCGTARP  175 (388)
Q Consensus       146 ~gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~  175 (388)
                      -|.|.|.  .|--.|-+....|.-|.+|+|
T Consensus         2 ~GsWeC~--~C~v~N~~~~~~CvAC~tpkP   29 (29)
T d2gqea1           2 IGTWDCD--TCLVQNKPEAIKCVACETPKP   29 (29)
T ss_dssp             CCCEECS--SSCCEECTTCSBCSSSCCBCC
T ss_pred             cceeECC--ceEeEChhhCCEEeecCCCCC
Confidence            3789999  899999999999999999987

>d1nnqa2 g.41.5.1 (A:135-171) Rubrerythrin, C-terminal domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Rubrerythrin, C-terminal domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=84.92  E-value=0.15  Score=31.77  Aligned_cols=26  Identities=27%  Similarity=0.773  Sum_probs=20.4

Q ss_pred             CccCCCCCccccccc-cccccCCCCCC
Q 016532          215 DWSCPMCGNINWAKR-TKCNICNTNKP  240 (388)
Q Consensus       215 dw~c~~c~~~n~~~~-~~c~~c~~~~~  240 (388)
                      -|.|+.||++-...- ..|-.|++|+.
T Consensus         5 ~~~C~vCG~i~~g~~P~~CPvCg~~~~   31 (37)
T d1nnqa2           5 VYICPICGYTAVDEAPEYCPVCGAPKE   31 (37)
T ss_dssp             EEECTTTCCEEESCCCSBCTTTCCBGG
T ss_pred             EEECCCCCCEecCCCCCcCCCCCCcHH
Confidence            599999999865432 57999999864

>d1yuza2 g.41.5.1 (A:167-202) Nigerythrin, C-terminal domain {Desulfovibrio vulgaris [TaxId: 881]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Rubredoxin-like
family: Rubredoxin
domain: Nigerythrin, C-terminal domain
species: Desulfovibrio vulgaris [TaxId: 881]

Probab=82.79  E-value=0.2  Score=30.96  Aligned_cols=27  Identities=37%  Similarity=0.719  Sum_probs=21.0

Q ss_pred             CCccCCCCCcccc-ccccccccCCCCCC
Q 016532          214 NDWSCPMCGNINW-AKRTKCNICNTNKP  240 (388)
Q Consensus       214 ~dw~c~~c~~~n~-~~~~~c~~c~~~~~  240 (388)
                      --|.|+.||++-. .--.+|-.|++|+.
T Consensus         4 ~~~vC~vCGyi~~g~~Pe~CPvCg~~~~   31 (36)
T d1yuza2           4 KFHLCPICGYIHKGEDFEKCPICFRPKD   31 (36)
T ss_dssp             CEEECSSSCCEEESSCCSBCTTTCCBGG
T ss_pred             CEEECCCCCCEeeCCCCCcCCCCCCcHH
Confidence            3599999999855 24468999999864

>d1q5wa_ g.41.11.1 (A:) Npl4 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: Npl4
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=82.07  E-value=0.29  Score=28.47  Aligned_cols=27  Identities=30%  Similarity=0.749  Sum_probs=24.0

Q ss_pred             CCCCCCCCCCcccccccccccccCCCCCC
Q 016532          147 GDWMCPNTSCSNVNFAFRGVCNRCGTARP  175 (388)
Q Consensus       147 gDW~C~~~~cg~~Nfa~R~~C~rC~~~r~  175 (388)
                      --|.|.  .|.++|..--..|.+|+-|+.
T Consensus         5 amWsC~--HCTf~N~pgtd~CeMC~LPrt   31 (31)
T d1q5wa_           5 AMWACQ--HCTFMNQPGTGHCEMCSLPRT   31 (31)
T ss_dssp             CCEECS--SSCCEECTTCSBCTTTCCBCC
T ss_pred             ceeEee--eeeeecCCCCCcchhhccCCC
Confidence            469998  799999999999999998863

>d2c6aa1 g.41.11.1 (A:290-335) MDM2 {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: Rubredoxin-like
superfamily: Ran binding protein zinc finger-like
family: Ran binding protein zinc finger-like
domain: MDM2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=81.89  E-value=0.34  Score=31.22  Aligned_cols=31  Identities=23%  Similarity=0.554  Sum_probs=26.9

Q ss_pred             CCCCCccCCCCCccccccccccccCCCCCCC
Q 016532          211 FGPNDWSCPMCGNINWAKRTKCNICNTNKPG  241 (388)
Q Consensus       211 ~~~~dw~c~~c~~~n~~~~~~c~~c~~~~~~  241 (388)
                      -.+.-|+|+.|...|--....|++|-+-+..
T Consensus         9 t~~D~WkC~~C~~~N~Pl~ryC~rCWaLR~~   39 (46)
T d2c6aa1           9 SLADYWKCTSCNEMNPPLPSHCNRCWALREN   39 (46)
T ss_dssp             CGGGCEECTTTCCEECSSCSSCTTTCCCCSS
T ss_pred             chhhhccCccccccCCcchhHhHHHHHHhhc
Confidence            3467899999999999999999999987653