Citrus Sinensis ID: 013726

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------
Protein Sequence
MRWKRHSTVHFQDDVKQIPHSSIRRSSSVFDSLSNSLCVNYFVTESKKSKNNNNSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERVNQVQEGKKERKKETMAVVESASQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Secondary Structure (PSIPRED)
cccccccEEEEcccccccccccccccccHHHcccccEEEEEEEEcccccccccccHHHHHHHHcccEEEEEEcccccEEEcccHHHHHHHHHHHHHHHHHHHccHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHHcccccccccccccHHHHHccccccccccccccccHHHHccccccEEEEccccccccHHHHHHHHcccccEEEEEEEcccccccEEEEEEEccHHHHHHHHHHcccEEccEEEEEcccccccccccccccccccccccccccEEEEccccccccHHHHHHHHHcccccEEEEEEccccccccEEEEEEEccHHHHHHHHHHcccEEcccccccEEEEEccccccc
Secondary Structure Prediction (SSPRO)
ccccEccEEEEcccccccccccccccccHHccccccEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccHccccHHEEEEcccccccEcccccEEcccccccccccccEEEEEccccccccccccccccccHHHHHHHHHHHHHHHcHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHccEEEEEEcccccccHHHHHHHHHHcccEEEEEEEccccccEEEEEEEEccHHHHHHHHHccccEccccEEEEccccccccccccccccccHHHHHHcccEEEEEcccccccHHHHHHHHHHHcccEEEEEEEcccccccEEEEEEEccHHHHHHHHHHccccEccccccHHHEccccccccc
Coil and Loop (DISEMBL)
mrwkrhstvhfqddvkqiphssirrsssvfdslsnslCVNYFVTEskksknnnnSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERVNQVQEGKKERKKETMAVVESAsqdsavssagsipasngqdhpkqnggtmvmpldqglynqnnqrsngggdfkRDMRELQELFSKlnpmaeefvppslaktnnnnhgvngfnggffannslifnnhnarngnvnaNAAVRRKksfgqgkrrmnsrtslaQREEIIRRTVYVSDIDQQVTEEQLAALFVGCgqvvdcricgdpnsvLRFAFIEFTDEEGARAALNLAGTMLgfypvrvlpsktaiapvnptflprtedEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTlfihtefyilhnpsiawleefsgeyllg
Flexible Loop (DISEMBL)
mrwkrhstvhfqddvkqiphssirrsssvfdslsNSLCVNYFVteskksknnnNSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFErvnqvqegkkerkketMAVVESASQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRrkksfgqgkrrmnsrtslaqreeiIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLpsktaiapvnptflprtedeREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Low Complexity Region (SEG)
MRWKRHSTVHFQDDVKQIPHssirrsssvfdslsnsLCVNYFVTEskksknnnnsLALRFVLHQWKEfqfqlslrlfsfIDQSKVKIFERVNQVQEGKKERKKETMAVVESASQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTnnnnhgvngfnggffannSLIFnnhnarngnvnanaavrrKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Disordered region (IsUnstruct)
*****************************FDSLSNSLCVNYFVTE********NSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERV********************************************************************************************************HGVNGFNGGFFANNSLIFNNHN************************************IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYL**
Disordered Region (DISOPRED)
********VHFQDDVKQIPHS*IRR*SSVFDSLSNSLCVNYFV**************LRFVLHQWKEFQFQLSLRLFSFIDQSKVKI*******************************************************************************RELQELFSKLNPMAEEFV*********************FANNSL***********************************************VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL**************************TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Disordered Region (DISEMBL)
*********HFQDDVKQIPHSSIRRSSSVFDSLSNSLCVNYFVTESKKSKNNNNSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERVN****************************************PKQNGGTMVMPLDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRRKK**************LAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Disordered Region (DISPRO)
****RHST*HFQDDVKQIP********SVFDSLSNSLCVNYFVTESKKSKNNNNSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERVNQVQEGKKERKKETMAVVESASQDSA****GS*P************GTMV***D**LY**********GDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNN************************************EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MRWKRHSTVHFQDDVKQIPHSSIRRSSSVFDSLSNSLCVNYFVTESKKSKNNNNSLALRFVLHQWKEFQFQLSLRLFSFIDQSKVKIFERVNQVQEGKKERKKETMAVVESASQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEEFSGEYLLG
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	437	2.2.26 [Sep-21-2011]
Q8WXA9	508	Splicing regulatory gluta	yes	no	0.183	0.157	0.407	2e-08
Q8BZX4	494	Splicing regulatory gluta	yes	no	0.183	0.161	0.407	4e-08
Q9JKL7	494	Splicing regulatory gluta	yes	no	0.183	0.161	0.407	4e-08
Q8CCS6	302	Polyadenylate-binding pro	no	no	0.189	0.274	0.351	4e-07
Q28165	306	Polyadenylate-binding pro	no	no	0.189	0.271	0.340	6e-07
Q86U42	306	Polyadenylate-binding pro	no	no	0.189	0.271	0.340	7e-07
Q7ZXB8	295	Polyadenylate-binding pro	N/A	no	0.189	0.281	0.340	3e-06
Q6NVP7	296	Polyadenylate-binding pro	no	no	0.189	0.280	0.340	3e-06
O14327	166	Polyadenylate-binding pro	yes	no	0.185	0.487	0.359	3e-06
Q9DDY9	296	Polyadenylate-binding pro	N/A	no	0.189	0.280	0.340	7e-06

>sp|Q8WXA9|SREK1_HUMAN Splicing regulatory glutamine/lysine-rich protein 1 OS=Homo sapiens GN=SREK1 PE=1 SV=1

 Score = 61.2 bits (147), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 1/81 (1%)

Query: 255 IRRTVYVSDIDQQVTE-EQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           IRRTVYV +++ Q T  +QL   F   G+V   R+ GD     RFAF+EF D+     AL
Sbjct: 64  IRRTVYVGNLNSQTTTADQLLEFFKQVGEVKFVRMAGDETQPTRFAFVEFADQNSVPRAL 123

Query: 314 NLAGTMLGFYPVRVLPSKTAI 334
              G M G  P+++  S  AI
Sbjct: 124 AFNGVMFGDRPLKINHSNNAI 144

Participates in the regulation of alternative splicing by modulating the activity of other splice facors. Inhibits the splicing activity of SFRS1, SFRS2 and SFRS6. Augments the splicing activity of SFRS3.
Homo sapiens (taxid: 9606)

>sp|Q8BZX4|SREK1_MOUSE Splicing regulatory glutamine/lysine-rich protein 1 OS=Mus musculus GN=Srek1 PE=2 SV=1

 Score = 60.1 bits (144), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 1/81 (1%)

Query: 255 IRRTVYVSDIDQQVT-EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           IRRTVYV +++ Q T  +QL   F   G+V   R+ GD     RFAF+EF D+     AL
Sbjct: 67  IRRTVYVGNLNSQTTTADQLLEFFKQVGEVKFVRMAGDETQPTRFAFVEFADQNSVPRAL 126

Query: 314 NLAGTMLGFYPVRVLPSKTAI 334
              G M G  P+++  S  AI
Sbjct: 127 AFNGVMFGDRPLKINHSNNAI 147

Participates in the regulation of alternative splicing by modulating the activity of other splice facors. Inhibits the splicing activity of SFRS1, SFRS2 and SFRS6. Augments the splicing activity of SFRS3.

Mus musculus (taxid: 10090)

>sp|Q9JKL7|SREK1_RAT Splicing regulatory glutamine/lysine-rich protein 1 OS=Rattus norvegicus GN=Srek1 PE=1 SV=1

 Score = 59.7 bits (143), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 33/81 (40%), Positives = 44/81 (54%), Gaps = 1/81 (1%)

Query: 255 IRRTVYVSDIDQQVT-EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           IRRTVYV +++ Q T  +QL   F   G+V   R+ GD     RFAF+EF D+     AL
Sbjct: 67  IRRTVYVGNLNSQTTTADQLLEFFKQVGEVKFVRMAGDETQPTRFAFVEFADQNSVPRAL 126

Query: 314 NLAGTMLGFYPVRVLPSKTAI 334
              G M G  P+++  S  AI
Sbjct: 127 AFNGVMFGDRPLKINHSNNAI 147

Participates in the regulation of alternative splicing by modulating the activity of other splice facors. Inhibits the splicing activity of SFRS1, SFRS2 and SFRS6. Augments the splicing activity of SFRS3.

Rattus norvegicus (taxid: 10116)

>sp|Q8CCS6|PABP2_MOUSE Polyadenylate-binding protein 2 OS=Mus musculus GN=Pabpn1 PE=2 SV=3

 Score = 56.2 bits (134), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 32/91 (35%), Positives = 51/91 (56%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           SL ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 158 SLEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYI 214

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF+D+E  R +L L  ++     ++V+P +T
Sbjct: 215 EFSDKESVRTSLALDESLFRGRQIKVIPKRT 245

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Is also present at various stages of mRNA metabolism including nucleocytoplasmic trafficking and nonsense-mediated decay (NMD) of mRNA. Cooperates with SKIP to synergistically activate E-box-mediated transcription through MYOD1 and may regulate the expression of muscle-specific genes. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Mus musculus (taxid: 10090)

>sp|Q28165|PABP2_BOVIN Polyadenylate-binding protein 2 OS=Bos taurus GN=PABPN1 PE=1 SV=3

 Score = 55.8 bits (133), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 162 SIEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYI 218

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF+D+E  R +L L  ++     ++V+P +T
Sbjct: 219 EFSDKESVRTSLALDESLFRGRQIKVIPKRT 249

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Is also present at various stages of mRNA metabolism including nucleocytoplasmic trafficking and nonsense-mediated decay (NMD) of mRNA. Cooperates with SKIP to synergistically activate E-box-mediated transcription through MYOD1 and may regulate the expression of muscle-specific genes. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Bos taurus (taxid: 9913)

>sp|Q86U42|PABP2_HUMAN Polyadenylate-binding protein 2 OS=Homo sapiens GN=PABPN1 PE=1 SV=3

 Score = 55.8 bits (133), Expect = 7e-07,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 162 SIEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYI 218

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF+D+E  R +L L  ++     ++V+P +T
Sbjct: 219 EFSDKESVRTSLALDESLFRGRQIKVIPKRT 249

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Is also present at various stages of mRNA metabolism including nucleocytoplasmic trafficking and nonsense-mediated decay (NMD) of mRNA. Cooperates with SKIP to synergistically activate E-box-mediated transcription through MYOD1 and may regulate the expression of muscle-specific genes. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Homo sapiens (taxid: 9606)

>sp|Q7ZXB8|PAB2B_XENLA Polyadenylate-binding protein 2-B OS=Xenopus laevis GN=pabpn1-b PE=2 SV=1

 Score = 53.9 bits (128), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 152 SVEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFTGHPKG---FAYI 208

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF+D+E  R +L L  ++     ++V+P +T
Sbjct: 209 EFSDKESVRTSLALDESLFRGRQIKVVPKRT 239

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Xenopus laevis (taxid: 8355)

>sp|Q6NVP7|PABP2_XENTR Polyadenylate-binding protein 2 OS=Xenopus tropicalis GN=pabpn1 PE=2 SV=1

 Score = 53.5 bits (127), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 51/91 (56%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 153 SIEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKYTGHPKG---FAYI 209

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF+D+E  R +L L  ++     ++V+P +T
Sbjct: 210 EFSDKESVRTSLALDESLFRGRQIKVVPKRT 240

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Xenopus tropicalis (taxid: 8364)

>sp|O14327|PAB2_SCHPO Polyadenylate-binding protein 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=pab2 PE=3 SV=1

 Score = 53.5 bits (127), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 32/89 (35%), Positives = 49/89 (55%), Gaps = 8/89 (8%)

Query: 251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFIEFTD 305
           +E I  ++VYV ++D  VT E+L + F  CG V    + C +  G P     FA+IEF++
Sbjct: 49  KESIDAQSVYVGNVDYSVTPEELQSHFASCGSVNRVTILCDKFTGHPKG---FAYIEFSE 105

Query: 306 EEGARAALNLAGTMLGFYPVRVLPSKTAI 334
                 AL L G+ML   P++V P +T +
Sbjct: 106 PSLVPNALLLNGSMLHERPLKVTPKRTNV 134

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

>sp|Q9DDY9|PAB2A_XENLA Polyadenylate-binding protein 2-A OS=Xenopus laevis GN=pabpn1-a PE=2 SV=1

 Score = 52.4 bits (124), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 31/91 (34%), Positives = 50/91 (54%), Gaps = 8/91 (8%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct: 153 SVEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFTGHPKG---FAYI 209

Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
           EF D+E  R +L L  ++     ++V+P +T
Sbjct: 210 EFCDKESVRTSLALDESLFRGRQIKVVPKRT 240

Involved in the 3'-end formation of mRNA precursors (pre-mRNA) by the addition of a poly(A) tail of 200-250 nt to the upstream cleavage product. Stimulates poly(A) polymerase (PAPOLA) conferring processivity on the poly(A) tail elongation reaction and controls also the poly(A) tail length. Increases the affinity of poly(A) polymerase for RNA. Binds to poly(A) and to poly(G) with high affinity. May protect the poly(A) tail from degradation.

Xenopus laevis (taxid: 8355)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	437
255555781	379	RNA-binding protein, putative [Ricinus c	0.670	0.773	0.666	1e-119
297742454	397	unnamed protein product [Vitis vinifera]	0.540	0.594	0.815	1e-116
147804944	369	hypothetical protein VITISV_033249 [Viti	0.551	0.653	0.803	1e-116
359474160	398	PREDICTED: polyadenylate-binding protein	0.542	0.595	0.811	1e-116
79325059	326	CTC-interacting domain 12 protein [Arabi	0.636	0.852	0.693	1e-114
15235177	336	CTC-interacting domain 12 protein [Arabi	0.636	0.827	0.693	1e-114
297809287	336	RNA-binding protein 37 [Arabidopsis lyra	0.649	0.845	0.7	1e-113
1174153	336	RNA-binding protein [Arabidopsis thalian	0.636	0.827	0.689	1e-113
79319100	406	CTC-interacting domain 11 protein [Arabi	0.638	0.687	0.722	1e-111
15223304	358	CTC-interacting domain 11 protein [Arabi	0.638	0.779	0.712	1e-110

>gi|255555781|ref|XP_002518926.1| RNA-binding protein, putative [Ricinus communis] gi|223541913|gb|EEF43459.1| RNA-binding protein, putative [Ricinus communis]

 Score =  436 bits (1120), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 230/345 (66%), Positives = 258/345 (74%), Gaps = 52/345 (15%)

Query: 106 MAVVESASQDSAVSSAGSIPAS------------NGQDHPKQN-----------GGTMVM 142
           MA+VE+AS D  +S   +  +S            N QDH   N               + 
Sbjct: 1   MAIVENASVDLGISIGSASSSSSSLDSSVSSASSNDQDHSNHNNSHDHGRSLIENSISIQ 60

Query: 143 P-------------LDQGLYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLA 189
           P             L     + ++QRS+GGGD +RD+RELQELFSKLNPMAEEFVPPSLA
Sbjct: 61  PLYMKAQVQSPPPNLQVAQLHHHHQRSSGGGDLQRDIRELQELFSKLNPMAEEFVPPSLA 120

Query: 190 K---TNNNNHGVNGFNGGFFANNSLIFNNHN--------ARNGNVNANAAVRRKKSFGQG 238
               +NN  HG+NG N GF+ NN    NN++        +RNG +N +AA RRKK++ QG
Sbjct: 121 NNKISNNYIHGLNGLNVGFYTNN----NNYDPAFMLTNASRNGQLNGSAA-RRKKNYNQG 175

Query: 239 KRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF 298
           KRR+NSRTS+AQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF
Sbjct: 176 KRRLNSRTSMAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF 235

Query: 299 AFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYC 358
           AFIEFT EEGARAALNLAGT+LG+YPVRVLPSKTAIAPVNPTFLPR++DEREMC RTIYC
Sbjct: 236 AFIEFTHEEGARAALNLAGTVLGYYPVRVLPSKTAIAPVNPTFLPRSDDEREMCIRTIYC 295

Query: 359 TNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
           TNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM
Sbjct: 296 TNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 340

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297742454|emb|CBI34603.3| unnamed protein product [Vitis vinifera]

 Score =  425 bits (1092), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 208/255 (81%), Positives = 220/255 (86%), Gaps = 19/255 (7%)

Query: 154 QRSNGG-----GDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFAN 208
            RSNGG     GD   DMRELQELFSKLNPMAEEFVPPSLA         NG NGGF++N
Sbjct: 118 HRSNGGHLQRNGDSGVDMRELQELFSKLNPMAEEFVPPSLAN--------NGLNGGFYSN 169

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQV 268
            S   NN   RNG VN     RRK +FGQGKRRMNSRTS+AQREEIIRRTVYVSDIDQQV
Sbjct: 170 GSETHNN--TRNGQVNG----RRKNNFGQGKRRMNSRTSMAQREEIIRRTVYVSDIDQQV 223

Query: 269 TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL 328
           TEE+LAALF+ CGQVVDCR+CGDPNSVLRFAF+EFTDEEGARAAL+LAGTMLG+YPVRVL
Sbjct: 224 TEEKLAALFITCGQVVDCRVCGDPNSVLRFAFVEFTDEEGARAALSLAGTMLGYYPVRVL 283

Query: 329 PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG 388
           PSKTAIAPVNPTFLPR EDEREMCARTIYCTNIDKKV+QADVKLFFESVCGEVYRLRLLG
Sbjct: 284 PSKTAIAPVNPTFLPRNEDEREMCARTIYCTNIDKKVSQADVKLFFESVCGEVYRLRLLG 343

Query: 389 DYHHSTRIAFVEFVM 403
           DYHHSTRIAFVEF+M
Sbjct: 344 DYHHSTRIAFVEFIM 358

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147804944|emb|CAN62612.1| hypothetical protein VITISV_033249 [Vitis vinifera]

 Score =  424 bits (1090), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 208/259 (80%), Positives = 222/259 (85%), Gaps = 18/259 (6%)

Query: 154 QRSNGG-----GDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFAN 208
            RSNGG     GD   DMRELQELFSKLNPMAEEFVPPSLA         NG NGGF++N
Sbjct: 118 HRSNGGXLQRNGDSGVDMRELQELFSKLNPMAEEFVPPSLAN--------NGLNGGFYSN 169

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQV 268
            S   N  N RNG VN     R+K +FGQGKRRMNSRTS+AQREEIIRRTVYVSDIDQQV
Sbjct: 170 GSETHN--NTRNGQVNGR---RKKNNFGQGKRRMNSRTSMAQREEIIRRTVYVSDIDQQV 224

Query: 269 TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL 328
           TEE+LAALF+ CGQVVDCR+CGDPNSVLRFAF+EFTDEEGARAAL+LAGTMLG+YPVRVL
Sbjct: 225 TEEKLAALFITCGQVVDCRVCGDPNSVLRFAFVEFTDEEGARAALSLAGTMLGYYPVRVL 284

Query: 329 PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG 388
           PSKTAIAPVNPTFLPR EDEREMCARTIYCTNIDKKV+QADVKLFFESVCGEVYRLRLLG
Sbjct: 285 PSKTAIAPVNPTFLPRNEDEREMCARTIYCTNIDKKVSQADVKLFFESVCGEVYRLRLLG 344

Query: 389 DYHHSTRIAFVEFVMVIAS 407
           DYHHSTRIAFVEF+M+  S
Sbjct: 345 DYHHSTRIAFVEFIMISIS 363

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359474160|ref|XP_002272303.2| PREDICTED: polyadenylate-binding protein [Vitis vinifera]

 Score =  423 bits (1088), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 207/255 (81%), Positives = 220/255 (86%), Gaps = 18/255 (7%)

Query: 154 QRSNGG-----GDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFAN 208
            RSNGG     GD   DMRELQELFSKLNPMAEEFVPPSLA         NG NGGF++N
Sbjct: 118 HRSNGGHLQRNGDSGVDMRELQELFSKLNPMAEEFVPPSLAN--------NGLNGGFYSN 169

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQV 268
            S   NN   RNG VN     R+K +FGQGKRRMNSRTS+AQREEIIRRTVYVSDIDQQV
Sbjct: 170 GSETHNN--TRNGQVNGR---RKKNNFGQGKRRMNSRTSMAQREEIIRRTVYVSDIDQQV 224

Query: 269 TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL 328
           TEE+LAALF+ CGQVVDCR+CGDPNSVLRFAF+EFTDEEGARAAL+LAGTMLG+YPVRVL
Sbjct: 225 TEEKLAALFITCGQVVDCRVCGDPNSVLRFAFVEFTDEEGARAALSLAGTMLGYYPVRVL 284

Query: 329 PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG 388
           PSKTAIAPVNPTFLPR EDEREMCARTIYCTNIDKKV+QADVKLFFESVCGEVYRLRLLG
Sbjct: 285 PSKTAIAPVNPTFLPRNEDEREMCARTIYCTNIDKKVSQADVKLFFESVCGEVYRLRLLG 344

Query: 389 DYHHSTRIAFVEFVM 403
           DYHHSTRIAFVEF+M
Sbjct: 345 DYHHSTRIAFVEFIM 359

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79325059|ref|NP_001031614.1| CTC-interacting domain 12 protein [Arabidopsis thaliana] gi|332657508|gb|AEE82908.1| CTC-interacting domain 12 protein [Arabidopsis thaliana]

 Score =  418 bits (1075), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 219/316 (69%), Positives = 241/316 (76%), Gaps = 38/316 (12%)

Query: 106 MAVVESASQDSAVSSAGSIP-------------ASNGQDHPKQNGGTMVMPLDQGLYNQ- 151
           MAV+ES   ++ V + G I              AS+  DH    GG        G++++ 
Sbjct: 1   MAVIESVGANTTVEAGGLISPSPPSSVTSQESGASSNNDH----GG-------NGIHDEI 49

Query: 152 --NNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFA-N 208
             +  RS+GG  FKRDMREL EL SKLNPMA+EF+PPSL K       VNGFNGGFFA N
Sbjct: 50  GVHVARSDGGESFKRDMRELHELLSKLNPMAKEFIPPSLTKPV-----VNGFNGGFFAVN 104

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQ-GKRRMNSRTSLAQREEIIRRTVYVSDIDQQ 267
           N  +     A N  VN + + RRKKSFGQ GKRRMN RTSLAQREEIIRRTVYVSDIDQQ
Sbjct: 105 NGFV----AAGNFPVNEDGSFRRKKSFGQQGKRRMNPRTSLAQREEIIRRTVYVSDIDQQ 160

Query: 268 VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV 327
           VTEEQLA LF+G GQVVDCRICGDPNSVLRFAFIEFTDE GAR ALNL+GTMLGFYPV+V
Sbjct: 161 VTEEQLAGLFIGFGQVVDCRICGDPNSVLRFAFIEFTDEVGARTALNLSGTMLGFYPVKV 220

Query: 328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLL 387
           +PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKK+TQ D+KLFFESVCGEVYRLRLL
Sbjct: 221 MPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKLTQTDIKLFFESVCGEVYRLRLL 280

Query: 388 GDYHHSTRIAFVEFVM 403
           GDYHH TRI FVEFVM
Sbjct: 281 GDYHHPTRIGFVEFVM 296

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15235177|ref|NP_192799.1| CTC-interacting domain 12 protein [Arabidopsis thaliana] gi|4115925|gb|AAD03436.1| contains similarity to RNA recognition motifs (Pfam: PF00076, Score=5.5e-23, N=2) [Arabidopsis thaliana] gi|4539439|emb|CAB40027.1| RNA-binding protein [Arabidopsis thaliana] gi|4959384|gb|AAD34325.1| RNA-binding protein [Arabidopsis thaliana] gi|7267758|emb|CAB78184.1| RNA-binding protein [Arabidopsis thaliana] gi|14517528|gb|AAK62654.1| AT4g10610/T4F9_70 [Arabidopsis thaliana] gi|18700204|gb|AAL77712.1| AT4g10610/T4F9_70 [Arabidopsis thaliana] gi|21592407|gb|AAM64358.1| RNA-binding protein [Arabidopsis thaliana] gi|332657507|gb|AEE82907.1| CTC-interacting domain 12 protein [Arabidopsis thaliana]

 Score =  417 bits (1073), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 219/316 (69%), Positives = 241/316 (76%), Gaps = 38/316 (12%)

Query: 106 MAVVESASQDSAVSSAGSIP-------------ASNGQDHPKQNGGTMVMPLDQGLYNQ- 151
           MAV+ES   ++ V + G I              AS+  DH    GG        G++++ 
Sbjct: 1   MAVIESVGANTTVEAGGLISPSPPSSVTSQESGASSNNDH----GG-------NGIHDEI 49

Query: 152 --NNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFA-N 208
             +  RS+GG  FKRDMREL EL SKLNPMA+EF+PPSL K       VNGFNGGFFA N
Sbjct: 50  GVHVARSDGGESFKRDMRELHELLSKLNPMAKEFIPPSLTKPV-----VNGFNGGFFAVN 104

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQ-GKRRMNSRTSLAQREEIIRRTVYVSDIDQQ 267
           N  +     A N  VN + + RRKKSFGQ GKRRMN RTSLAQREEIIRRTVYVSDIDQQ
Sbjct: 105 NGFV----AAGNFPVNEDGSFRRKKSFGQQGKRRMNPRTSLAQREEIIRRTVYVSDIDQQ 160

Query: 268 VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV 327
           VTEEQLA LF+G GQVVDCRICGDPNSVLRFAFIEFTDE GAR ALNL+GTMLGFYPV+V
Sbjct: 161 VTEEQLAGLFIGFGQVVDCRICGDPNSVLRFAFIEFTDEVGARTALNLSGTMLGFYPVKV 220

Query: 328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLL 387
           +PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKK+TQ D+KLFFESVCGEVYRLRLL
Sbjct: 221 MPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKLTQTDIKLFFESVCGEVYRLRLL 280

Query: 388 GDYHHSTRIAFVEFVM 403
           GDYHH TRI FVEFVM
Sbjct: 281 GDYHHPTRIGFVEFVM 296

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297809287|ref|XP_002872527.1| RNA-binding protein 37 [Arabidopsis lyrata subsp. lyrata] gi|297318364|gb|EFH48786.1| RNA-binding protein 37 [Arabidopsis lyrata subsp. lyrata]

 Score =  416 bits (1068), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 217/310 (70%), Positives = 235/310 (75%), Gaps = 26/310 (8%)

Query: 106 MAVVESASQDSAVSSAGSIPA---------SNGQDHPKQNGGTMVMPLDQGLYNQNNQRS 156
           MAV+ES   ++ V + G I            +G      +GG  +     G    +  RS
Sbjct: 1   MAVIESVGANTTVEAGGLISPSPPSSVTSQESGVSSNNDHGGNEI----HGEIGVHVARS 56

Query: 157 NGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNH 216
           +G   FKRDMREL EL SKLNPMA+EFVPPSL K       VNGFNGGFFA      NN 
Sbjct: 57  DGDESFKRDMRELHELLSKLNPMAKEFVPPSLTKPV-----VNGFNGGFFA-----VNNG 106

Query: 217 NARNGN--VNANAAVRRKKSFGQ-GKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQL 273
               GN  VN +   RRKKSFGQ GKRRMN RTSLAQREEIIRRTVYVSDIDQQVTEEQL
Sbjct: 107 FGAAGNFPVNEDGGFRRKKSFGQQGKRRMNPRTSLAQREEIIRRTVYVSDIDQQVTEEQL 166

Query: 274 AALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
           A LF+G GQVVDCRICGDPNSVLRFAFIEFTDE GARAAL+L+GTMLGFYPV+V+PSKTA
Sbjct: 167 AGLFIGFGQVVDCRICGDPNSVLRFAFIEFTDEVGARAALSLSGTMLGFYPVKVMPSKTA 226

Query: 334 IAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHS 393
           IAPVNPTFLPRTEDEREMCARTIYCTNIDKK+TQAD+KLFFESVCGEVYRLRLLGDYHH 
Sbjct: 227 IAPVNPTFLPRTEDEREMCARTIYCTNIDKKLTQADIKLFFESVCGEVYRLRLLGDYHHP 286

Query: 394 TRIAFVEFVM 403
           TRI FVEFVM
Sbjct: 287 TRIGFVEFVM 296

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|1174153|gb|AAA86641.1| RNA-binding protein [Arabidopsis thaliana]

 Score =  414 bits (1063), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 218/316 (68%), Positives = 240/316 (75%), Gaps = 38/316 (12%)

Query: 106 MAVVESASQDSAVSSAGSIP-------------ASNGQDHPKQNGGTMVMPLDQGLYNQ- 151
           MAV+ES   ++ V + G I              AS+  DH    GG        G++++ 
Sbjct: 1   MAVIESVGANTTVEAGGLISPSPPSSVTSQESGASSNNDH----GG-------NGIHDEI 49

Query: 152 --NNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFA-N 208
             +  RS+GG  FKRDMREL EL SKLNPMA+EF+PPSL K       VNGFNGGFFA N
Sbjct: 50  GVHVARSDGGESFKRDMRELHELLSKLNPMAKEFIPPSLTKPV-----VNGFNGGFFAVN 104

Query: 209 NSLIFNNHNARNGNVNANAAVRRKKSFGQ-GKRRMNSRTSLAQREEIIRRTVYVSDIDQQ 267
           N  +     A N  VN + + RRKKSFGQ GKRRMN RTSLAQREEIIRRTVYVSDI QQ
Sbjct: 105 NGFV----AAGNFPVNEDGSFRRKKSFGQQGKRRMNPRTSLAQREEIIRRTVYVSDIYQQ 160

Query: 268 VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV 327
           VTEEQLA LF+G GQVVDCRICGDPNSVLRFAFIEFTDE GAR ALNL+GTMLGFYPV+V
Sbjct: 161 VTEEQLAGLFIGFGQVVDCRICGDPNSVLRFAFIEFTDEVGARTALNLSGTMLGFYPVKV 220

Query: 328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLL 387
           +PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKK+TQ D+KLFFESVCGEVYRLRLL
Sbjct: 221 MPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKLTQTDIKLFFESVCGEVYRLRLL 280

Query: 388 GDYHHSTRIAFVEFVM 403
           GDYHH TRI FVEFVM
Sbjct: 281 GDYHHPTRIGFVEFVM 296

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|79319100|ref|NP_001031131.1| CTC-interacting domain 11 protein [Arabidopsis thaliana] gi|332193409|gb|AEE31530.1| CTC-interacting domain 11 protein [Arabidopsis thaliana]

 Score =  407 bits (1046), Expect = e-111,   Method: Compositional matrix adjust.
 Identities = 216/299 (72%), Positives = 233/299 (77%), Gaps = 20/299 (6%)

Query: 113 SQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQ---NNQRSNG---GGDFKRDM 166
           SQDS VSS       + Q+H  +     V+  DQGLY++   +  RS+G   G  FKRDM
Sbjct: 33  SQDSGVSS-------DDQNHHSRID--QVLRHDQGLYSKIGSHVARSDGVDGGESFKRDM 83

Query: 167 RELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFN--GGFFANNSLIFNNHNARNGNVN 224
           RELQELFSKLNPMAEEFVPPSL K   N      F   G FF NN           G  N
Sbjct: 84  RELQELFSKLNPMAEEFVPPSLNKQGGNGVNGGFFTSAGSFFRNNGF---AGTGNGGYGN 140

Query: 225 ANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV 284
            N   RRKKSFGQGKRRMN+RTS+AQRE++IRRTVYVSD+DQQVTEEQLA LFV CGQVV
Sbjct: 141 ENGGFRRKKSFGQGKRRMNARTSMAQREDVIRRTVYVSDLDQQVTEEQLAGLFVSCGQVV 200

Query: 285 DCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPR 344
           DCRICGDPNSVLRFAFIEFTDEEGA  ALNL+GTMLGFYPV+VLPSKTAIAPVNPTFLPR
Sbjct: 201 DCRICGDPNSVLRFAFIEFTDEEGAMTALNLSGTMLGFYPVKVLPSKTAIAPVNPTFLPR 260

Query: 345 TEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
           TEDEREMCARTIYCTNIDKKVTQ+DVK+FFES CGEVYRLRLLGDY HSTRIAFVEFVM
Sbjct: 261 TEDEREMCARTIYCTNIDKKVTQSDVKIFFESFCGEVYRLRLLGDYQHSTRIAFVEFVM 319

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15223304|ref|NP_174556.1| CTC-interacting domain 11 protein [Arabidopsis thaliana] gi|6714278|gb|AAF25974.1|AC017118_11 F6N18.17 [Arabidopsis thaliana] gi|332193408|gb|AEE31529.1| CTC-interacting domain 11 protein [Arabidopsis thaliana]

 Score =  405 bits (1041), Expect = e-110,   Method: Compositional matrix adjust.
 Identities = 213/299 (71%), Positives = 231/299 (77%), Gaps = 20/299 (6%)

Query: 113 SQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQ------NNQRSNGGGDFKRDM 166
           SQDS VSS       + Q+H   +    V+  DQGLY++       +   +GG  FKRDM
Sbjct: 33  SQDSGVSS-------DDQNH--HSRIDQVLRHDQGLYSKIGSHVARSDGVDGGESFKRDM 83

Query: 167 RELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFN--GGFFANNSLIFNNHNARNGNVN 224
           RELQELFSKLNPMAEEFVPPSL K   N      F   G FF NN      +       N
Sbjct: 84  RELQELFSKLNPMAEEFVPPSLNKQGGNGVNGGFFTSAGSFFRNNGFAGTGNGG---YGN 140

Query: 225 ANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV 284
            N   RRKKSFGQGKRRMN+RTS+AQRE++IRRTVYVSD+DQQVTEEQLA LFV CGQVV
Sbjct: 141 ENGGFRRKKSFGQGKRRMNARTSMAQREDVIRRTVYVSDLDQQVTEEQLAGLFVSCGQVV 200

Query: 285 DCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPR 344
           DCRICGDPNSVLRFAFIEFTDEEGA  ALNL+GTMLGFYPV+VLPSKTAIAPVNPTFLPR
Sbjct: 201 DCRICGDPNSVLRFAFIEFTDEEGAMTALNLSGTMLGFYPVKVLPSKTAIAPVNPTFLPR 260

Query: 345 TEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
           TEDEREMCARTIYCTNIDKKVTQ+DVK+FFES CGEVYRLRLLGDY HSTRIAFVEFVM
Sbjct: 261 TEDEREMCARTIYCTNIDKKVTQSDVKIFFESFCGEVYRLRLLGDYQHSTRIAFVEFVM 319

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	437
TAIR|locus:2035629	406	CID11 "CTC-interacting domain	0.661	0.711	0.684	5.8e-98
TAIR|locus:2139242	336	CID12 "CTC-interacting domain	0.393	0.511	0.913	2.3e-97
TAIR|locus:2082961	353	CID10 "CTC-interacting domain	0.425	0.526	0.75	2.4e-85
TAIR|locus:2091657	327	CID9 "CTC-interacting domain 9	0.405	0.541	0.759	1.6e-75
TAIR|locus:2024842	314	CID8 "CTC-interacting domain 8	0.393	0.547	0.745	9.7e-72
TAIR|locus:2184022	320	CID13 "CTC-interacting domain	0.510	0.696	0.545	8.8e-63
UNIPROTKB|B4DEH8	168	PABPN1 "cDNA FLJ57714, highly	0.189	0.494	0.340	6.9e-08
UNIPROTKB|G3V4T2	178	PABPN1 "Polyadenylate-binding	0.189	0.466	0.340	6.9e-08
ZFIN|ZDB-GENE-040801-132	515	srek1 "splicing regulatory glu	0.203	0.172	0.384	3e-07
POMBASE|SPBC16E9.12c	166	pab2 "poly(A) binding protein	0.185	0.487	0.359	3.1e-07

TAIR|locus:2035629 CID11 "CTC-interacting domain 11" [Arabidopsis thaliana (taxid:3702)]

 Score = 973 (347.6 bits), Expect = 5.8e-98, P = 5.8e-98
 Identities = 204/298 (68%), Positives = 227/298 (76%)

Query:   112 ASQDSAVSSAGSIPASNGQDHPKQNGGTMVMPLDQGLYNQNNQ---RSNG--GGD-FKRD 165
             +S  S+++S  S  +S+ Q+H  +     V+  DQGLY++      RS+G  GG+ FKRD
Sbjct:    25 SSPPSSMTSQDSGVSSDDQNHHSRID--QVLRHDQGLYSKIGSHVARSDGVDGGESFKRD 82

Query:   166 MRELQELFSKLNPMAEEFVPPSLAKTXXXXXXXXXXXXXXXXXXSLIFXXXXXXXXXXXX 225
             MRELQELFSKLNPMAEEFVPPSL K                   +  F            
Sbjct:    83 MRELQELFSKLNPMAEEFVPPSLNKQGGNGVNGGFFTSAGSFFRNNGFAGTGNGGYGNEN 142

Query:   226 XXXXXXKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD 285
                   KKSFGQGKRRMN+RTS+AQRE++IRRTVYVSD+DQQVTEEQLA LFV CGQVVD
Sbjct:   143 GGFRR-KKSFGQGKRRMNARTSMAQREDVIRRTVYVSDLDQQVTEEQLAGLFVSCGQVVD 201

Query:   286 CRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRT 345
             CRICGDPNSVLRFAFIEFTDEEGA  ALNL+GTMLGFYPV+VLPSKTAIAPVNPTFLPRT
Sbjct:   202 CRICGDPNSVLRFAFIEFTDEEGAMTALNLSGTMLGFYPVKVLPSKTAIAPVNPTFLPRT 261

Query:   346 EDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
             EDEREMCARTIYCTNIDKKVTQ+DVK+FFES CGEVYRLRLLGDY HSTRIAFVEFVM
Sbjct:   262 EDEREMCARTIYCTNIDKKVTQSDVKIFFESFCGEVYRLRLLGDYQHSTRIAFVEFVM 319

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0046482 "para-aminobenzoic acid metabolic process" evidence=RCA

TAIR|locus:2139242 CID12 "CTC-interacting domain 12" [Arabidopsis thaliana (taxid:3702)]

 Score = 822 (294.4 bits), Expect = 2.3e-97, Sum P(2) = 2.3e-97
 Identities = 158/173 (91%), Positives = 164/173 (94%)

Query:   232 KKSFGQ-GKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICG 290
             KKSFGQ GKRRMN RTSLAQREEIIRRTVYVSDIDQQVTEEQLA LF+G GQVVDCRICG
Sbjct:   124 KKSFGQQGKRRMNPRTSLAQREEIIRRTVYVSDIDQQVTEEQLAGLFIGFGQVVDCRICG 183

Query:   291 DPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDERE 350
             DPNSVLRFAFIEFTDE GAR ALNL+GTMLGFYPV+V+PSKTAIAPVNPTFLPRTEDERE
Sbjct:   184 DPNSVLRFAFIEFTDEVGARTALNLSGTMLGFYPVKVMPSKTAIAPVNPTFLPRTEDERE 243

Query:   351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
             MCARTIYCTNIDKK+TQ D+KLFFESVCGEVYRLRLLGDYHH TRI FVEFVM
Sbjct:   244 MCARTIYCTNIDKKLTQTDIKLFFESVCGEVYRLRLLGDYHHPTRIGFVEFVM 296

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2082961 CID10 "CTC-interacting domain 10" [Arabidopsis thaliana (taxid:3702)]

 Score = 763 (273.6 bits), Expect = 2.4e-85, Sum P(2) = 2.4e-85
 Identities = 141/188 (75%), Positives = 167/188 (88%)

Query:   232 KKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD 291
             ++SFGQGKRRMN RTSLAQ++++IRRTVYVSDIDQQVTEE LA +F+ CGQVVDCR+CGD
Sbjct:   144 RRSFGQGKRRMNKRTSLAQKDDVIRRTVYVSDIDQQVTEENLAGVFINCGQVVDCRVCGD 203

Query:   292 PNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREM 351
             PNSVLRFAFIEFT+EEGARAAL+++GT+LGFYP++VLPSKTAIAPVNPTFLPR+EDEREM
Sbjct:   204 PNSVLRFAFIEFTNEEGARAALSMSGTVLGFYPLKVLPSKTAIAPVNPTFLPRSEDEREM 263

Query:   352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLF 411
             C RT+YCTNIDK++TQ D+K FFE +CGEV+RLRL GDYHH TRIAFVEF M   S+   
Sbjct:   264 CVRTVYCTNIDKRITQIDLKGFFEMLCGEVHRLRL-GDYHHQTRIAFVEFAMA-ESAIAA 321

Query:   412 IHTEFYIL 419
             +H    +L
Sbjct:   322 LHCSGIVL 329

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2091657 CID9 "CTC-interacting domain 9" [Arabidopsis thaliana (taxid:3702)]

 Score = 704 (252.9 bits), Expect = 1.6e-75, Sum P(2) = 1.6e-75
 Identities = 136/179 (75%), Positives = 152/179 (84%)

Query:   232 KKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD 291
             ++++ QG+RR+  R S AQRE+ IRRTVYVSDIDQ VTEE LA LF  CGQVVDCRICGD
Sbjct:   116 RRNYSQGRRRLTGRISKAQREDSIRRTVYVSDIDQSVTEEGLAGLFSNCGQVVDCRICGD 175

Query:   292 PNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREM 351
             P+SVLRFAF+EF D++GA  AL+L GTMLGFYPVRVLPSKTAI PVNPTFLPR+EDEREM
Sbjct:   176 PHSVLRFAFVEFADDQGAHEALSLGGTMLGFYPVRVLPSKTAILPVNPTFLPRSEDEREM 235

Query:   352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTL 410
             C RTIYCTNIDKKV+QADV+ FFES CGEV RLRLLGD  HSTRIAFVEF +  A S L
Sbjct:   236 CTRTIYCTNIDKKVSQADVRNFFESACGEVTRLRLLGDQLHSTRIAFVEFAL--ADSAL 292

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2024842 CID8 "CTC-interacting domain 8" [Arabidopsis thaliana (taxid:3702)]

 Score = 685 (246.2 bits), Expect = 9.7e-72, Sum P(2) = 9.7e-72
 Identities = 129/173 (74%), Positives = 148/173 (85%)

Query:   232 KKSFGQGKR-RMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICG 290
             + ++ QG+R R+  R S AQRE+ IRRTVYVSDIDQ VTEE LA LF  CGQVVDCRICG
Sbjct:   102 RNNYNQGRRVRLPGRASKAQREDSIRRTVYVSDIDQSVTEEGLAGLFSSCGQVVDCRICG 161

Query:   291 DPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDERE 350
             DPNSVLRFAF+EF+D++GAR+AL+L GTM+G+YPVRVLPSKTAI PVNPTFLPR+EDERE
Sbjct:   162 DPNSVLRFAFVEFSDDQGARSALSLGGTMIGYYPVRVLPSKTAILPVNPTFLPRSEDERE 221

Query:   351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
             MC+RTIYCTN+DK  T+ DV  FF+S CGEV RLRLLGD  HSTRIAFVEF M
Sbjct:   222 MCSRTIYCTNVDKNATEDDVNTFFQSACGEVTRLRLLGDQVHSTRIAFVEFAM 274

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005634 "nucleus" evidence=ISM

GO:0005737 "cytoplasm" evidence=ISM

GO:0005515 "protein binding" evidence=IPI

GO:0000278 "mitotic cell cycle" evidence=RCA

GO:0006396 "RNA processing" evidence=RCA

TAIR|locus:2184022 CID13 "CTC-interacting domain 13" [Arabidopsis thaliana (taxid:3702)]

 Score = 641 (230.7 bits), Expect = 8.8e-63, P = 8.8e-63
 Identities = 127/233 (54%), Positives = 165/233 (70%)

Query:   169 LQELFSKLNPMAEEFVPPSLAKTXXXXXXXXXXXXXXXXXXSLIFXXXXXXXXXXXXXXX 228
             L+   S LNPMA+EFVP  LA+T                    IF               
Sbjct:    59 LKSEISHLNPMAKEFVPSFLAQTHHSEFWGNRFWFTNHFPKQTIFLIGQFATM------- 111

Query:   229 XXXKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRI 288
                +++FG+G+  +  +T+L Q E++I+RTVYVSDID QVTEEQLA+LF+ CGQVVDCR+
Sbjct:   112 ---RRNFGKGRPWITKKTNLVQNEDMIKRTVYVSDIDNQVTEEQLASLFLSCGQVVDCRM 168

Query:   289 CGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDE 348
             CGD  S+LRFAFIEFTD EGAR+AL  +GTM G +P+RV  SKTAIAPVNP+FLP+++DE
Sbjct:   169 CGDYKSILRFAFIEFTDAEGARSALRKSGTMFGSHPIRVFMSKTAIAPVNPSFLPQSKDE 228

Query:   349 REMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF 401
              E C +T+YCTNIDK+VT+ +++ FF++VCGEV+ LRLLGD++H TRIAFVEF
Sbjct:   229 LEKCGKTVYCTNIDKEVTKMELENFFKTVCGEVHHLRLLGDFYHQTRIAFVEF 281

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=ISS

GO:0005737 "cytoplasm" evidence=ISM

GO:0008150 "biological_process" evidence=ND

UNIPROTKB|B4DEH8 PABPN1 "cDNA FLJ57714, highly similar to Poly(A)-binding protein 2" [Homo sapiens (taxid:9606)]

 Score = 130 (50.8 bits), Expect = 6.9e-08, P = 6.9e-08
 Identities = 31/91 (34%), Positives = 51/91 (56%)

Query:   247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
             S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct:    34 SIEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYI 90

Query:   302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
             EF+D+E  R +L L  ++     ++V+P +T
Sbjct:    91 EFSDKESVRTSLALDESLFRGRQIKVIPKRT 121

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

UNIPROTKB|G3V4T2 PABPN1 "Polyadenylate-binding protein 2" [Homo sapiens (taxid:9606)]

 Score = 130 (50.8 bits), Expect = 6.9e-08, P = 6.9e-08
 Identities = 31/91 (34%), Positives = 51/91 (56%)

Query:   247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
             S+ ++ E   R++YV ++D   T E+L A F GCG V    + C +  G P     FA+I
Sbjct:    34 SIEEKMEADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYI 90

Query:   302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
             EF+D+E  R +L L  ++     ++V+P +T
Sbjct:    91 EFSDKESVRTSLALDESLFRGRQIKVIPKRT 121

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005634 "nucleus" evidence=IDA

GO:0005730 "nucleolus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

ZFIN|ZDB-GENE-040801-132 srek1 "splicing regulatory glutamine/lysine-rich protein 1" [Danio rerio (taxid:7955)]

 Score = 147 (56.8 bits), Expect = 3.0e-07, P = 3.0e-07
 Identities = 35/91 (38%), Positives = 47/91 (51%)

Query:   255 IRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
             IRRTVYV +++ Q  T +QL   F   G V   R+ GD     RFAF+EF D++    AL
Sbjct:   169 IRRTVYVGNLNSQSTTADQLLKFFKQVGDVKFVRMAGDETQPTRFAFVEFADQDSVARAL 228

Query:   314 NLAGTMLGFYPVRVLPSKTAIAPVNPTFLPR 344
                G M G  P+++  S  AI    P   P+
Sbjct:   229 TYNGVMFGDRPLKINHSNNAIVKP-PELTPQ 258

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

POMBASE|SPBC16E9.12c pab2 "poly(A) binding protein Pab2" [Schizosaccharomyces pombe (taxid:4896)]

 Score = 124 (48.7 bits), Expect = 3.1e-07, P = 3.1e-07
 Identities = 32/89 (35%), Positives = 49/89 (55%)

Query:   251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFIEFTD 305
             +E I  ++VYV ++D  VT E+L + F  CG V    + C +  G P     FA+IEF++
Sbjct:    49 KESIDAQSVYVGNVDYSVTPEELQSHFASCGSVNRVTILCDKFTGHPKG---FAYIEFSE 105

Query:   306 EEGARAALNLAGTMLGFYPVRVLPSKTAI 334
                   AL L G+ML   P++V P +T +
Sbjct:   106 PSLVPNALLLNGSMLHERPLKVTPKRTNV 134

GO:0000289 "nuclear-transcribed mRNA poly(A) tail shortening" evidence=IMP

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

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

GO:0010972 "negative regulation of G2/M transition of mitotic cell cycle" evidence=IMP

---

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:
	CID12	CID12; RNA binding; RNA-binding protein, putative. Member of a family of proteins having an PABC binding domain (PAM motif). (336 aa)
		(Arabidopsis thaliana)
Predicted Functional Partners:
	MPC	MPC (MATERNALLY EXPRESSED PAB C-TERMINAL); poly(A) binding; Encodes a the C-terminal domain of [...] (103 aa)					•		•		0.931
	AT3G19530	unknown protein; unknown protein; FUNCTIONS IN- molecular_function unknown; INVOLVED IN- biolog [...] (94 aa)							•		0.877
	CID7	CID7; ATP binding / damaged DNA binding / protein binding; smr (Small MutS Related) domain-cont [...] (567 aa)							•		0.873
	PAB2	PAB2 (POLY(A) BINDING 2); RNA binding / translation initiation factor; Putative poly-A binding [...] (629 aa)					•			•	0.859
	CID5	CID5; protein binding; Interacts with PAB (poly A binding protein) in yeast two hybrid experime [...] (155 aa)							•		0.659
	AT3G12130	KH domain-containing protein / zinc finger (CCCH type) family protein; KH domain-containing pro [...] (248 aa)							•		0.571
	AT3G08620	KH domain-containing protein; KH domain-containing protein; FUNCTIONS IN- RNA binding, nucleic [...] (283 aa)							•		0.569
	UGT76D1	UGT76D1 (UDP-GLUCOSYL TRANSFERASE 76D1); UDP-glycosyltransferase/ quercetin 7-O-glucosyltransfe [...] (452 aa)							•		0.569
	AT1G09660	KH domain-containing quaking protein, putative; KH domain-containing quaking protein, putative; [...] (298 aa)							•		0.569
	AT2G38610	KH domain-containing protein; KH domain-containing protein; FUNCTIONS IN- RNA binding, nucleic [...] (286 aa)							•		0.563

---

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	437
cd12459	80	cd12459, RRM1_CID8_like, RNA recognition motif 1 i	4e-56
cd12460	82	cd12460, RRM2_CID8_like, RNA recognition motif 2 i	1e-36
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	3e-31
cd12260	85	cd12260, RRM2_SREK1, RNA recognition motif 2 in sp	8e-18
cd12460	82	cd12460, RRM2_CID8_like, RNA recognition motif 2 i	2e-16
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	2e-16
smart00360	73	smart00360, RRM, RNA recognition motif	1e-12
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	6e-11
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-10
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-10
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	2e-10
cd12336	75	cd12336, RRM_RBM7_like, RNA recognition motif in R	3e-10
cd12459	80	cd12459, RRM1_CID8_like, RNA recognition motif 1 i	8e-10
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	1e-09
cd12298	78	cd12298, RRM3_Prp24, RNA recognition motif 3 in fu	2e-09
cd12334	74	cd12334, RRM1_SF3B4, RNA recognition motif 1 in sp	1e-08
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	1e-08
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	3e-08
cd12352	72	cd12352, RRM1_TIA1_like, RNA recognition motif 1 i	7e-08
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	8e-08
cd12454	80	cd12454, RRM2_RIM4_like, RNA recognition motif 2 i	1e-07
cd12550	76	cd12550, RRM_II_PABPN1, RNA recognition motif in t	2e-07
cd12283	73	cd12283, RRM1_RBM39_like, RNA recognition motif 1	2e-07
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	2e-07
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	4e-07
cd12260	85	cd12260, RRM2_SREK1, RNA recognition motif 2 in sp	5e-07
cd12451	79	cd12451, RRM2_NUCLs, RNA recognition motif 2 in nu	6e-07
cd12296	71	cd12296, RRM1_Prp24, RNA recognition motif 1 in fu	8e-07
cd12271	72	cd12271, RRM1_PHIP1, RNA recognition motif 1 in Ar	9e-07
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	1e-06
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	3e-06
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	5e-06
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	8e-06
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	2e-05
cd12551	77	cd12551, RRM_II_PABPN1L, RNA recognition motif in	3e-05
cd12592	75	cd12592, RRM_RBM7, RNA recognition motif in verteb	3e-05
cd12268	68	cd12268, RRM_Vip1, RNA recognition motif in fissio	3e-05
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	5e-05
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	5e-05
cd12344	81	cd12344, RRM1_SECp43_like, RNA recognition motif 1	5e-05
cd12378	80	cd12378, RRM1_I_PABPs, RNA recognition motif 1 in	5e-05
cd12259	76	cd12259, RRM_SRSF11_SREK1, RNA recognition motif i	7e-05
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	8e-05
cd12272	72	cd12272, RRM2_PHIP1, RNA recognition motif 2 in Ar	8e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	1e-04
cd12240	78	cd12240, RRM_NCBP2, RNA recognition motif found in	1e-04
cd12671	75	cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif i	1e-04
cd12297	78	cd12297, RRM2_Prp24, RNA recognition motif 2 in fu	1e-04
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	1e-04
cd12608	69	cd12608, RRM1_CoAA, RNA recognition motif 1 in ver	1e-04
cd12283	73	cd12283, RRM1_RBM39_like, RNA recognition motif 1	2e-04
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	2e-04
cd12381	79	cd12381, RRM4_I_PABPs, RNA recognition motif 4 in	2e-04
cd12565	76	cd12565, RRM1_MRD1, RNA recognition motif 1 in yea	2e-04
cd12564	76	cd12564, RRM1_RBM19, RNA recognition motif 1 in RN	2e-04
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	3e-04
cd12249	78	cd12249, RRM1_hnRNPR_like, RNA recognition motif 1	3e-04
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	4e-04
smart00360	73	smart00360, RRM, RNA recognition motif	5e-04
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	5e-04
cd12343	66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	5e-04
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	7e-04
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	8e-04
cd12290	80	cd12290, RRM1_LARP7, RNA recognition motif 1 in La	9e-04
TIGR01628	562	TIGR01628, PABP-1234, polyadenylate binding protei	0.001
cd12318	82	cd12318, RRM5_RBM19_like, RNA recognition motif 5	0.001
cd12651	79	cd12651, RRM2_SXL, RNA recognition motif 2 in Dros	0.001
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	0.002
cd12652	79	cd12652, RRM2_Hu, RNA recognition motif 2 in the H	0.002
cd12280	81	cd12280, RRM_FET, RNA recognition motif in the FET	0.002
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	0.003
cd12380	80	cd12380, RRM3_I_PABPs, RNA recognition motif 3 fou	0.003
cd12482	79	cd12482, RRM1_hnRNPR, RNA recognition motif 1 in v	0.003
cd12619	75	cd12619, RRM2_PUB1, RNA recognition motif 2 in yea	0.004
cd12536	85	cd12536, RRM1_RBM39, RNA recognition motif 1 in ve	0.004
cd12397	73	cd12397, RRM2_Nop13p_fungi, RNA recognition motif	0.004
cd12251	72	cd12251, RRM3_hnRNPR_like, RNA recognition motif 3	0.004
cd12353	75	cd12353, RRM2_TIA1_like, RNA recognition motif 2 i	0.004
cd12299	71	cd12299, RRM4_Prp24, RNA recognition motif 4 in fu	0.004
cd12593	75	cd12593, RRM_RBM11, RNA recognition motif in verte	0.004

>gnl|CDD|240905 cd12459, RRM1_CID8_like, RNA recognition motif 1 in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score =  179 bits (456), Expect = 4e-56
 Identities = 75/80 (93%), Positives = 78/80 (97%)

Query: 255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN 314
           IRRTVYVSDIDQQVTEEQLAALF  CGQVVDCR+CGDPNSVLRFAFIEFTDEEGARAAL+
Sbjct: 1   IRRTVYVSDIDQQVTEEQLAALFSNCGQVVDCRVCGDPNSVLRFAFIEFTDEEGARAALS 60

Query: 315 LAGTMLGFYPVRVLPSKTAI 334
           L+GTMLGFYPVRVLPSKTAI
Sbjct: 61  LSGTMLGFYPVRVLPSKTAI 80

This subgroup corresponds to the RRM1 domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 80

>gnl|CDD|240906 cd12460, RRM2_CID8_like, RNA recognition motif 2 in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score =  128 bits (324), Expect = 1e-36
 Identities = 50/54 (92%), Positives = 52/54 (96%)

Query: 350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM 403
           EMCARTIYCTNIDKKVTQ+DVKLFFES+CGEV RLRLLGDYHHSTRIAFVEF M
Sbjct: 1   EMCARTIYCTNIDKKVTQSDVKLFFESLCGEVSRLRLLGDYHHSTRIAFVEFAM 54

This subgroup corresponds to the RRM2 domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 82

>gnl|CDD|240671 cd12225, RRM1_2_CID8_like, RNA recognition motif 1 and 2 (RRM1, RRM2) in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score =  114 bits (287), Expect = 3e-31
 Identities = 39/77 (50%), Positives = 52/77 (67%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
           RT++V  ID  ++E+ L   F  CG+V   R+CGD     RFAF+EF D E A +ALNL+
Sbjct: 1   RTIHVGGIDGSLSEDDLKEFFSNCGEVTRVRLCGDRQHSARFAFVEFADAESALSALNLS 60

Query: 317 GTMLGFYPVRVLPSKTA 333
           GT+LG +P+RV PSKT 
Sbjct: 61  GTLLGGHPLRVSPSKTP 77

This subgroup corresponds to the RRM domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 77

>gnl|CDD|240706 cd12260, RRM2_SREK1, RNA recognition motif 2 in splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 77.3 bits (191), Expect = 8e-18
 Identities = 33/82 (40%), Positives = 45/82 (54%)

Query: 253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAA 312
           E IRRT+YV ++D   T +QL   F   G+V   R+ GD     R+AF+EF ++     A
Sbjct: 1   EEIRRTIYVGNLDPTTTADQLLEFFSQAGEVKYVRMAGDETQPTRYAFVEFAEQTSVINA 60

Query: 313 LNLAGTMLGFYPVRVLPSKTAI 334
           L L G M G  P++V  S  AI
Sbjct: 61  LKLNGAMFGGRPLKVNHSNNAI 82

This subfamily corresponds to the RRM2 of SREK1, also termed serine/arginine-rich-splicing regulatory protein 86-kDa (SRrp86), or splicing factor arginine/serine-rich 12 (SFRS12), or splicing regulatory protein 508 amino acid (SRrp508). SREK1 belongs to a family of proteins containing regions rich in serine-arginine dipeptides (SR proteins family), which is involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. It is a unique SR family member and it may play a crucial role in determining tissue specific patterns of alternative splicing. SREK1 can alter splice site selection by both positively and negatively modulating the activity of other SR proteins. For instance, SREK1 can activate SRp20 and repress SC35 in a dose-dependent manner both in vitro and in vivo. In addition, SREK1 contains two (some contain only one) RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and two serine-arginine (SR)-rich domains (SR domains) separated by an unusual glutamic acid-lysine (EK) rich region. The RRM and SR domains are highly conserved among other members of the SR superfamily. However, the EK domain is unique to SREK1. It plays a modulatory role controlling SR domain function by involvement in the inhibition of both constitutive and alternative splicing and in the selection of splice-site. . Length = 85

>gnl|CDD|240906 cd12460, RRM2_CID8_like, RNA recognition motif 2 in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 73.7 bits (181), Expect = 2e-16
 Identities = 36/81 (44%), Positives = 51/81 (62%), Gaps = 1/81 (1%)

Query: 253 EIIRRTVYVSDIDQQVTEEQLAALFVG-CGQVVDCRICGDPNSVLRFAFIEFTDEEGARA 311
           E+  RT+Y ++ID++VT+  +   F   CG+V   R+ GD +   R AF+EF   E A A
Sbjct: 1   EMCARTIYCTNIDKKVTQSDVKLFFESLCGEVSRLRLLGDYHHSTRIAFVEFAMAESAIA 60

Query: 312 ALNLAGTMLGFYPVRVLPSKT 332
           ALN +G +LG  P+RV PSKT
Sbjct: 61  ALNCSGAVLGSLPIRVSPSKT 81

This subgroup corresponds to the RRM2 domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 82

>gnl|CDD|240671 cd12225, RRM1_2_CID8_like, RNA recognition motif 1 and 2 (RRM1, RRM2) in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 73.5 bits (181), Expect = 2e-16
 Identities = 26/49 (53%), Positives = 33/49 (67%), Gaps = 1/49 (2%)

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFV 402
           RTI+   ID  +++ D+K FF + CGEV R+RL GD  HS R AFVEF 
Sbjct: 1   RTIHVGGIDGSLSEDDLKEFFSN-CGEVTRVRLCGDRQHSARFAFVEFA 48

This subgroup corresponds to the RRM domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 77

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

 Score = 62.6 bits (153), Expect = 1e-12
 Identities = 26/73 (35%), Positives = 37/73 (50%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL--RFAFIEFTDEEGARAALNL 315
           T++V ++    TEE+L  LF   G+V   R+  D  +     FAF+EF  EE A  AL  
Sbjct: 1   TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 316 A-GTMLGFYPVRV 327
             G  L   P++V
Sbjct: 61  LNGKELDGRPLKV 73

Length = 73

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

 Score = 57.7 bits (140), Expect = 6e-11
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LA 316
           ++V ++    TEE L  LF   G++   RI  D +   + FAF+EF   E A  AL  L 
Sbjct: 1   LFVGNLPPDTTEEDLRELFSKFGEIESVRIVRDKDGKSKGFAFVEFESPEDAEKALEALN 60

Query: 317 GTMLGFYPVRV 327
           G  L    ++V
Sbjct: 61  GKELDGRKLKV 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|215696 pfam00076, RRM_1, RNA recognition motif

 Score = 56.4 bits (137), Expect = 2e-10
 Identities = 26/65 (40%), Positives = 33/65 (50%), Gaps = 2/65 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-NLA 316
           ++V ++    TEE L  LF   G +   RI  D     + FAF+EF DEE A  AL  L 
Sbjct: 1   LFVGNLPPDTTEEDLKDLFSKFGPIESIRIVRDETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 317 GTMLG 321
           G  LG
Sbjct: 61  GKELG 65

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

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

 Score = 56.0 bits (136), Expect = 2e-10
 Identities = 21/56 (37%), Positives = 29/56 (51%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN 314
           +YV ++   VTEE L   F   G+V   R+  + +    FAF+EF   E A AAL 
Sbjct: 1   LYVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNKDRPRGFAFVEFASPEDAEAALK 56

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

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

 Score = 56.2 bits (136), Expect = 2e-10
 Identities = 25/71 (35%), Positives = 38/71 (53%), Gaps = 1/71 (1%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNLA 316
           T++V ++     ++ L   F  CG+VVD RI  D +   + F  +EF  EEGA+ AL  +
Sbjct: 1   TLFVGNLSWSAEQDDLEEFFKECGEVVDVRIAQDDDGRSKGFGHVEFATEEGAQKALEKS 60

Query: 317 GTMLGFYPVRV 327
           G  L    +RV
Sbjct: 61  GEELLGREIRV 71

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

>gnl|CDD|240782 cd12336, RRM_RBM7_like, RNA recognition motif in RNA-binding protein 7 (RBM7) and similar proteins

 Score = 55.8 bits (135), Expect = 3e-10
 Identities = 23/61 (37%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
            RT++V ++D +VTEE L  LF+  G +   +I  DPN   + FAF+ F  E     A+ 
Sbjct: 1   DRTLFVGNLDARVTEEILYELFLQAGPLEGVKIPKDPNGKPKSFAFVTFKHEVSVPYAIQ 60

Query: 315 L 315
           L
Sbjct: 61  L 61

This subfamily corresponds to the RRM of RBM7, RBM11 and their eukaryotic homologous. RBM7 is an ubiquitously expressed pre-mRNA splicing factor that enhances messenger RNA (mRNA) splicing in a cell-specific manner or in a certain developmental process, such as spermatogenesis. It interacts with splicing factors SAP145 (the spliceosomal splicing factor 3b subunit 2) and SRp20, and may play a more specific role in meiosis entry and progression. Together with additional testis-specific RNA-binding proteins, RBM7 may regulate the splicing of specific pre-mRNA species that are important in the meiotic cell cycle. RBM11 is a novel tissue-specific splicing regulator that is selectively expressed in brain, cerebellum and testis, and to a lower extent in kidney. It is localized in the nucleoplasm and enriched in SRSF2-containing splicing speckles. It may play a role in the modulation of alternative splicing during neuron and germ cell differentiation. Both, RBM7 and RBM11, contain an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. The RRM is responsible for RNA binding, whereas the C-terminal region permits nuclear localization and homodimerization. . Length = 75

>gnl|CDD|240905 cd12459, RRM1_CID8_like, RNA recognition motif 1 in Arabidopsis thaliana CTC-interacting domain protein CID8, CID9, CID10, CID11, CID12, CID 13 and similar proteins

 Score = 54.7 bits (132), Expect = 8e-10
 Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 1/48 (2%)

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF 401
           RT+Y ++ID++VT+  +   F + CG+V   R+ GD +   R AF+EF
Sbjct: 3   RTVYVSDIDQQVTEEQLAALFSN-CGQVVDCRVCGDPNSVLRFAFIEF 49

This subgroup corresponds to the RRM1 domains found in A. thaliana CID8, CID9, CID10, CID11, CID12, CID 13 and mainly their plant homologs. These highly related RNA-binding proteins contain an N-terminal PAM2 domain (PABP-interacting motif 2), two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a basic region that resembles a bipartite nuclear localization signal. The biological role of this family remains unclear. Length = 80

>gnl|CDD|240837 cd12391, RRM1_SART3, RNA recognition motif 1 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 54.2 bits (131), Expect = 1e-09
 Identities = 22/59 (37%), Positives = 37/59 (62%), Gaps = 1/59 (1%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNL 315
           TV+VS++D  V E++L  LF  CG++ D R+  +     + +A++EF +EE  + AL L
Sbjct: 1   TVFVSNLDYSVPEDELRKLFSKCGEITDVRLVKNYKGKSKGYAYVEFENEESVQEALKL 59

This subfamily corresponds to the RRM1 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 72

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

 Score = 53.8 bits (130), Expect = 2e-09
 Identities = 25/70 (35%), Positives = 34/70 (48%), Gaps = 5/70 (7%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRI-CGDPNSVLR----FAFIEFTDEEGARA 311
           R +YV ++D ++ E+ L  +F   G+V   RI         R    FAF+ F D   A  
Sbjct: 1   REIYVRNLDFKLDEDDLRGIFSKFGEVESIRIPKKQDEKQGRLNNGFAFVTFKDASSAEN 60

Query: 312 ALNLAGTMLG 321
           AL L GT LG
Sbjct: 61  ALQLNGTELG 70

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

 Score = 51.4 bits (124), Expect = 1e-08
 Identities = 27/76 (35%), Positives = 40/76 (52%), Gaps = 11/76 (14%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDC-----RICGDPNSVLRFAFIEFTDEEGARAAL 313
           VYV ++D++VTEE L  LF+  G VV+      R+         + F+EF  EE A  A+
Sbjct: 1   VYVGNLDEKVTEELLWELFIQAGPVVNVHIPKDRVTQAHQG---YGFVEFLSEEDADYAI 57

Query: 314 NLAGTMLGFY--PVRV 327
            +   M+  Y  P+RV
Sbjct: 58  KIMN-MIKLYGKPIRV 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|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 = 51.5 bits (124), Expect = 1e-08
 Identities = 26/72 (36%), Positives = 36/72 (50%), Gaps = 3/72 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL-NL 315
           V+V +I    TEEQL  +F   G VV  R+  D ++     + F EF D E A +A+ NL
Sbjct: 1   VFVGNIPYDATEEQLIEIFSEVGPVVSFRLVTDRDTGKPKGYGFCEFEDIETAASAIRNL 60

Query: 316 AGTMLGFYPVRV 327
            G       +RV
Sbjct: 61  NGYEFNGRALRV 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|240845 cd12399, RRM_HP0827_like, RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins

 Score = 50.3 bits (121), Expect = 3e-08
 Identities = 25/73 (34%), Positives = 34/73 (46%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL-N 314
            +YV ++   VTEE L  LF   G+V   R+  D  +     F F+E    E A AA+  
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

Query: 315 LAGTMLGFYPVRV 327
           L GT  G   + V
Sbjct: 61  LNGTDFGGRTLTV 73

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

 Score = 48.8 bits (117), Expect = 7e-08
 Identities = 22/70 (31%), Positives = 40/70 (57%), Gaps = 2/70 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NLAG 317
           +YV ++D+ VTE+ LA LF   G +  C++  +  +   +AF+E+ D   A AAL  + G
Sbjct: 1   LYVGNLDRTVTEDLLAELFSQIGPIKSCKLIREHGND-PYAFVEYYDHRSAAAALQTMNG 59

Query: 318 TMLGFYPVRV 327
            ++    ++V
Sbjct: 60  RLILGQEIKV 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|240752 cd12306, RRM_II_PABPs, RNA recognition motif in type II polyadenylate-binding proteins

 Score = 48.8 bits (117), Expect = 8e-08
 Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALNLA 316
           ++V ++D   T E+L   F  CG +    I  D  +     FA+IEF D+     AL L 
Sbjct: 2   IFVGNVDYGTTPEELQEHFKSCGTINRITILCDKFTGQPKGFAYIEFLDKSSVENALLLN 61

Query: 317 GTML 320
            +  
Sbjct: 62  ESEF 65

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

 Score = 48.5 bits (116), Expect = 1e-07
 Identities = 17/60 (28%), Positives = 32/60 (53%)

Query: 254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           I + +++V  +   VT+E+L   F   G++++  +    N    FAFI+F  E+ A  A+
Sbjct: 1   IDKYSIFVGQLSPDVTKEELNERFSRHGKILEVNLIKRANHTNAFAFIKFEREQAAARAV 60

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

>gnl|CDD|240994 cd12550, RRM_II_PABPN1, RNA recognition motif in type II polyadenylate-binding protein 2 (PABP-2) and similar proteins

 Score = 48.3 bits (115), Expect = 2e-07
 Identities = 30/79 (37%), Positives = 43/79 (54%), Gaps = 8/79 (10%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRI-C----GDPNSVLRFAFIEFTDEEGARAA 312
           +VYV ++D   T E+L A F GCG V    I C    G P     FA+IEF+D+E  R A
Sbjct: 1   SVYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYIEFSDKESVRTA 57

Query: 313 LNLAGTMLGFYPVRVLPSK 331
           L L  ++     ++V+P +
Sbjct: 58  LALDESLFRGRQIKVMPKR 76

This subgroup corresponds to the RRM of PABP-2, also termed poly(A)-binding protein 2, or nuclear poly(A)-binding protein 1 (PABPN1), or poly(A)-binding protein II (PABII), which is a ubiquitously expressed type II nuclear poly(A)-binding protein that directs the elongation of mRNA poly(A) tails during pre-mRNA processing. Although PABP-2 binds poly(A) with high affinity and specificity as type I poly(A)-binding proteins, it contains only one highly conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is responsible for the poly(A) binding. In addition, PABP-2 possesses an acidic N-terminal domain that is essential for the stimulation of PAP, and an arginine-rich C-terminal domain. . Length = 76

>gnl|CDD|240729 cd12283, RRM1_RBM39_like, RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins

 Score = 48.0 bits (115), Expect = 2e-07
 Identities = 29/74 (39%), Positives = 36/74 (48%), Gaps = 6/74 (8%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR----FAFIEFTDEEGARAAL 313
           TV+V  +  +V E  L   F   G+V D RI  D NS  R     A++EF DEE    AL
Sbjct: 1   TVFVMQLSLKVRERDLYEFFSKAGKVRDVRIIRDRNS--RRSKGVAYVEFYDEESVPLAL 58

Query: 314 NLAGTMLGFYPVRV 327
            L G  L   P+ V
Sbjct: 59  GLTGQRLLGQPIMV 72

This subfamily corresponds to the RRM1 of RNA-binding protein 39 (RBM39), RNA-binding protein 23 (RBM23) and similar proteins. RBM39 (also termed HCC1) is 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

>gnl|CDD|240841 cd12395, RRM2_RBM34, RNA recognition motif 2 in RNA-binding protein 34 (RBM34) and similar proteins

 Score = 47.9 bits (115), Expect = 2e-07
 Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 2/72 (2%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALNL 315
           +V+V ++   + EE+L   F  CG V   RI  D  + +   F ++ F  ++    AL L
Sbjct: 1   SVFVGNLPFDIEEEELRKHFEDCGDVEAVRIVRDRKTGIGKGFGYVLFKTKDSVALALKL 60

Query: 316 AGTMLGFYPVRV 327
            G  L    +RV
Sbjct: 61  NGIKLKGRKIRV 72

This subfamily corresponds to the RRM2 of RBM34, a putative RNA-binding protein containing two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Although the function of RBM34 remains unclear currently, its RRM domains may participate in mRNA processing. RBM34 may act as an mRNA processing-related protein. . Length = 73

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

 Score = 46.8 bits (112), Expect = 4e-07
 Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 2/57 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL 313
           +YV  + ++V E+ L A F+  G + D +I  D  +     FAF+EF + E A AA+
Sbjct: 1   LYVGGLAEEVDEKVLHAAFIPFGDIKDIQIPLDYETQKHRGFAFVEFEEPEDAAAAI 57

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|240706 cd12260, RRM2_SREK1, RNA recognition motif 2 in splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 46.9 bits (112), Expect = 5e-07
 Identities = 22/49 (44%), Positives = 26/49 (53%), Gaps = 1/49 (2%)

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFV 402
           RTIY  N+D   T   +  FF    GEV  +R+ GD    TR AFVEF 
Sbjct: 5   RTIYVGNLDPTTTADQLLEFFSQ-AGEVKYVRMAGDETQPTRYAFVEFA 52

This subfamily corresponds to the RRM2 of SREK1, also termed serine/arginine-rich-splicing regulatory protein 86-kDa (SRrp86), or splicing factor arginine/serine-rich 12 (SFRS12), or splicing regulatory protein 508 amino acid (SRrp508). SREK1 belongs to a family of proteins containing regions rich in serine-arginine dipeptides (SR proteins family), which is involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. It is a unique SR family member and it may play a crucial role in determining tissue specific patterns of alternative splicing. SREK1 can alter splice site selection by both positively and negatively modulating the activity of other SR proteins. For instance, SREK1 can activate SRp20 and repress SC35 in a dose-dependent manner both in vitro and in vivo. In addition, SREK1 contains two (some contain only one) RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and two serine-arginine (SR)-rich domains (SR domains) separated by an unusual glutamic acid-lysine (EK) rich region. The RRM and SR domains are highly conserved among other members of the SR superfamily. However, the EK domain is unique to SREK1. It plays a modulatory role controlling SR domain function by involvement in the inhibition of both constitutive and alternative splicing and in the selection of splice-site. . Length = 85

>gnl|CDD|240897 cd12451, RRM2_NUCLs, RNA recognition motif 2 in nucleolin-like proteins mainly from plants

 Score = 46.6 bits (111), Expect = 6e-07
 Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 6/79 (7%)

Query: 258 TVYVSDIDQQVTEEQLAA----LFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARA 311
           T++V   D  + E+ +       F  CG++    I  D  +     FA+IEF   +G   
Sbjct: 1   TIFVKGFDSSLGEDDIRRSLTEHFSSCGEITRVSIPTDRETGASKGFAYIEFKSVDGVEK 60

Query: 312 ALNLAGTMLGFYPVRVLPS 330
           AL L G+ LG   + V  +
Sbjct: 61  ALELDGSDLGGGNLVVDEA 79

This subfamily corresponds to the RRM2 of a group of plant nucleolin-like proteins, including nucleolin 1 (also termed protein nucleolin like 1) and nucleolin 2 (also termed protein nucleolin like 2, or protein parallel like 1). They play roles in the regulation of ribosome synthesis and in the growth and development of plants. Like yeast nucleolin, nucleolin-like proteins possess two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

>gnl|CDD|240742 cd12296, RRM1_Prp24, RNA recognition motif 1 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 46.1 bits (110), Expect = 8e-07
 Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           TV V ++ +  TE ++   F  CG++ + +I          A IEF  E+ A AAL
Sbjct: 2   TVKVKNLPKDTTENKIRQFFKDCGEIREVKIVESEGG--LVAVIEFETEDEALAAL 55

This subfamily corresponds to the RRM1 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 = 71

>gnl|CDD|240717 cd12271, RRM1_PHIP1, RNA recognition motif 1 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 45.8 bits (109), Expect = 9e-07
 Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQV--VDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
           VYV  I    TE+++ + F  CG++  +D     D       AFI F  EE A+ AL L 
Sbjct: 1   VYVGGIPYYSTEDEIRSYFSYCGEIEELDLMTFPDTGRFRGIAFITFKTEEAAKRALALD 60

Query: 317 GTMLGFYPVRV 327
           G  +G   ++V
Sbjct: 61  GEDMGGRFLKV 71

This subfamily corresponds to the RRM1 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

>gnl|CDD|240676 cd12230, RRM1_U2AF65, RNA recognition motif 1 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 45.6 bits (109), Expect = 1e-06
 Identities = 26/82 (31%), Positives = 39/82 (47%), Gaps = 15/82 (18%)

Query: 257 RTVYVSDIDQQVTEEQLAALF------VGCGQ-----VVDCRICGDPNSVLRFAFIEFTD 305
           R +YV ++   +TEE+L   F       G  Q     V+  +I  + N    FAF+EF  
Sbjct: 2   RRLYVGNLPPGITEEELVDFFNQAMLAAGLNQAPGNPVLSVQINPEKN----FAFVEFRT 57

Query: 306 EEGARAALNLAGTMLGFYPVRV 327
            E A AAL L G +    P+++
Sbjct: 58  VEEATAALALDGIIFKGQPLKI 79

The subfamily corresponds to the RRM1 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 = 82

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

 Score = 48.4 bits (114), Expect = 3e-06
 Identities = 41/209 (19%), Positives = 66/209 (31%), Gaps = 19/209 (9%)

Query: 187 SLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRRKKSFGQGKRR----- 241
                  N    +       +  S      + R          +     G  K       
Sbjct: 40  EANSKELNLEVNSRKIESEISPPSKKRLLSSERKEENEREMEEQNDGERGYTKEFEEELF 99

Query: 242 -MNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL--RF 298
             +      Q+ +    T++V ++   VTEE L  LF   G V   R+  D  +     F
Sbjct: 100 RSSESPKSRQKSKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGF 159

Query: 299 AFIEFTDEEGARAAL-NLAGTMLGFYPVRV----------LPSKTAIAPVNPTFLPRTED 347
           AF+EF  EE A  A+  L G  L   P+RV                +       L R + 
Sbjct: 160 AFVEFESEESAEKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDASFAKKLSRGKA 219

Query: 348 EREMCARTIYCTNIDKKVTQADVKLFFES 376
                +  +Y  N+  K  + ++   F+S
Sbjct: 220 LLLEKSDNLYVGNLPLKTAEEELADLFKS 248

Length = 306

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

 Score = 43.7 bits (104), Expect = 5e-06
 Identities = 16/46 (34%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF 401
           +Y  N+   VT+ D++ FF    G+V  +RL+ +       AFVEF
Sbjct: 1   LYVRNLPPSVTEEDLREFFSP-YGKVEGVRLVRNKDRPRGFAFVEF 45

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

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

 Score = 47.6 bits (113), Expect = 8e-06
 Identities = 49/196 (25%), Positives = 75/196 (38%), Gaps = 17/196 (8%)

Query: 219 RNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQR------EEIIRRTVYVSDIDQQVTEEQ 272
           R G   + +  R  +  G    R + R S           E   RTV+V  +  +  E  
Sbjct: 46  RRGRSRSRSPNRYYRPRGDRSYRRDDRRSGRNTKEPLTEAERDDRTVFVLQLALKARERD 105

Query: 273 LAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS 330
           L   F   G+V D +   D NS      A++EF D E    AL L G ML   P+ V  S
Sbjct: 106 LYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQSS 165

Query: 331 KTA--IAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG 388
           +     A    T  P            +Y  N+   +T+ +++  FE   G++  ++L  
Sbjct: 166 QAEKNRAAKAATHQPGDIPN----FLKLYVGNLHFNITEQELRQIFEPF-GDIEDVQLHR 220

Query: 389 DYH--HSTRIAFVEFV 402
           D     S    F++F 
Sbjct: 221 DPETGRSKGFGFIQFH 236

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|240792 cd12346, RRM3_NGR1_NAM8_like, RNA recognition motif 3 in yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8 and similar proteins

 Score = 41.9 bits (99), Expect = 2e-05
 Identities = 25/75 (33%), Positives = 39/75 (52%), Gaps = 15/75 (20%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRI-----CGDPNSVLRFAFIEFTDEEGARAA 312
           TV+V  +D  VTE++L +LF   G++V  +I     CG         F++F     A AA
Sbjct: 3   TVFVGGLDPAVTEDELRSLFGPFGEIVYVKIPPGKGCG---------FVQFVHRAAAEAA 53

Query: 313 LN-LAGTMLGFYPVR 326
           +  L GT++G   +R
Sbjct: 54  IQQLQGTIIGGSRIR 68

This subfamily corresponds to the RRM3 of NGR1 and NAM8. NGR1, also termed RNA-binding protein RBP1, is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA) in yeast. It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the carboxyl terminus which also harbors a methionine-rich region. The family also includes protein NAM8, which is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. Like NGR1, NAM8 contains two RRMs. . Length = 72

>gnl|CDD|240995 cd12551, RRM_II_PABPN1L, RNA recognition motif in vertebrate type II embryonic polyadenylate-binding protein 2 (ePABP-2)

 Score = 41.8 bits (98), Expect = 3e-05
 Identities = 26/80 (32%), Positives = 41/80 (51%), Gaps = 8/80 (10%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFIEFTDEEGARAA 312
           +VYV ++D   T E+L A F GCG +    + C +  G P     +A+IEF   +   AA
Sbjct: 1   SVYVGNVDYGSTAEELEAHFSGCGPINRVTILCDKFSGHPKG---YAYIEFATRDSVEAA 57

Query: 313 LNLAGTMLGFYPVRVLPSKT 332
           + L  +      ++VLP +T
Sbjct: 58  VALDESSFRGRVIKVLPKRT 77

This subgroup corresponds to the RRM of ePABP-2, also termed embryonic poly(A)-binding protein 2, or poly(A)-binding protein nuclear-like 1 (PABPN1L). ePABP-2 is a novel embryonic-specific cytoplasmic type II poly(A)-binding protein that is expressed during the early stages of vertebrate development and in adult ovarian tissue. It may play an important role in the poly(A) metabolism of stored mRNAs during early vertebrate development. ePABP-2 shows significant sequence similarity to the ubiquitously expressed nuclear polyadenylate-binding protein 2 (PABP-2 or PABPN1). Like PABP-2, ePABP-2 contains one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is responsible for the poly(A) binding. In addition, it possesses an acidic N-terminal domain predicted to form a coiled-coil and an arginine-rich C-terminal domain. . Length = 77

>gnl|CDD|241036 cd12592, RRM_RBM7, RNA recognition motif in vertebrate RNA-binding protein 7 (RBM7)

 Score = 41.8 bits (98), Expect = 3e-05
 Identities = 22/60 (36%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNL 315
           RT++V ++D +VTEE +  LF+  G V+  +I  D +   + FAF+ F  E     A+NL
Sbjct: 2   RTLFVGNLDPKVTEELIFELFLQAGPVIKVKIPKDKDGKPKQFAFVNFKHEVSVPYAMNL 61

This subfamily corresponds to the RRM of RBM7, a ubiquitously expressed pre-mRNA splicing factor that enhances messenger RNA (mRNA) splicing in a cell-specific manner or in a certain developmental process, such as spermatogenesis. RBM7 interacts with splicing factors SAP145 (the spliceosomal splicing factor 3b subunit 2) and SRp20. It may play a more specific role in meiosis entry and progression. Together with additional testis-specific RNA-binding proteins, RBM7 may regulate the splicing of specific pre-mRNA species that are important in the meiotic cell cycle. RBM7 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. . Length = 75

>gnl|CDD|240714 cd12268, RRM_Vip1, RNA recognition motif in fission yeast protein Vip1 and similar proteins

 Score = 41.4 bits (97), Expect = 3e-05
 Identities = 23/69 (33%), Positives = 37/69 (53%), Gaps = 2/69 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGT 318
           VYVS+I  + TE+Q++  F  CG++ +  +  D  S  + A I F     A+ AL L   
Sbjct: 1   VYVSNISPKTTEKQISDFFSFCGKISNLDLTNDGES--QTATITFEKPSAAKTALLLDNA 58

Query: 319 MLGFYPVRV 327
           +LG   ++V
Sbjct: 59  LLGGKVIQV 67

This subfamily corresponds to Vip1, an RNA-binding protein encoded by gene vip1 from fission yeast Schizosaccharomyces pombe. Its biological role remains unclear. Vip1 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 68

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 45.2 bits (107), Expect = 5e-05
 Identities = 40/161 (24%), Positives = 65/161 (40%), Gaps = 26/161 (16%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-NLA 316
           +YV ++D  V E++L  LF   G++    +  D +   R FAF+ F   E A  A+  + 
Sbjct: 181 LYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMN 240

Query: 317 GTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCAR---------------TIYCTNI 361
           G  +G      L  +     V      R E E E+  +                +Y  N+
Sbjct: 241 GKKIG------LAKEGKKLYVGR-AQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNL 293

Query: 362 DKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTR-IAFVEF 401
           D  VT   ++  F   CGE+   +++ D    +R   FV F
Sbjct: 294 DDTVTDEKLRELFSE-CGEITSAKVMLDEKGVSRGFGFVCF 333

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 45.2 bits (107), Expect = 5e-05
 Identities = 26/71 (36%), Positives = 41/71 (57%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LA 316
           +YV ++D  VT+E+L  LF  CG++   ++  D   V R F F+ F++ E A  A+  + 
Sbjct: 288 LYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMH 347

Query: 317 GTMLGFYPVRV 327
           G MLG  P+ V
Sbjct: 348 GRMLGGKPLYV 358

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|240790 cd12344, RRM1_SECp43_like, RNA recognition motif 1 in tRNA selenocysteine-associated protein 1 (SECp43) and similar proteins

 Score = 41.1 bits (97), Expect = 5e-05
 Identities = 15/59 (25%), Positives = 29/59 (49%), Gaps = 2/59 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN 314
           T+++ D++  + E  + + F  CG+V   +I  +  +     + F+EF   E A  AL 
Sbjct: 1   TLWMGDLEPWMDEAYIYSAFAECGEVTSVKIIRNKQTGKSAGYGFVEFATHEAAEQALQ 59

This subfamily corresponds to the RRM1 in tRNA selenocysteine-associated protein 1 (SECp43), yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8, and similar proteins. SECp43 is an RNA-binding protein associated specifically with eukaryotic selenocysteine tRNA [tRNA(Sec)]. It may play an adaptor role in the mechanism of selenocysteine insertion. SECp43 is located primarily in the nucleus and contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal polar/acidic region. Yeast proteins, NGR1 and NAM8, show high sequence similarity with SECp43. NGR1 is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA). It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains three RRMs, two of which are followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the C-terminus which also harbors a methionine-rich region. NAM8 is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. NAM8 also contains three RRMs. . Length = 81

>gnl|CDD|240824 cd12378, RRM1_I_PABPs, RNA recognition motif 1 in type I polyadenylate-binding proteins

 Score = 41.4 bits (98), Expect = 5e-05
 Identities = 23/74 (31%), Positives = 38/74 (51%), Gaps = 3/74 (4%)

Query: 260 YVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LA 316
           YV D+   VTE  L  +F   G V+  R+C D  +   L +A++ F +   A  AL+ L 
Sbjct: 3   YVGDLHPDVTEAMLYEIFSPAGPVLSIRVCRDLITRRSLGYAYVNFQNPADAERALDTLN 62

Query: 317 GTMLGFYPVRVLPS 330
             ++   P+R++ S
Sbjct: 63  FDVIKGKPIRIMWS 76

This subfamily corresponds to the RRM1 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 a 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. Moreover, 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 mammals, 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 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|240705 cd12259, RRM_SRSF11_SREK1, RNA recognition motif in serine/arginine-rich splicing factor 11 (SRSF11), splicing regulatory glutamine/lysine-rich protein 1 (SREK1) and similar proteins

 Score = 40.7 bits (96), Expect = 7e-05
 Identities = 18/67 (26%), Positives = 34/67 (50%), Gaps = 4/67 (5%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL----RFAFIEFTDEEGARAAL 313
            V V+++  Q TEEQ+  LF   G++ + R+    + +     +  F+++ D E    AL
Sbjct: 1   VVQVTNVSPQATEEQMRTLFGFLGKIEELRLYPSDDDLAPVLSKVCFVKYEDPEDVGVAL 60

Query: 314 NLAGTML 320
           +L  T+ 
Sbjct: 61  HLTNTVF 67

This subfamily corresponds to the RRM domain of SRSF11 (SRp54 or p54), SREK1 ( SFRS12 or SRrp86) and similar proteins, a group of proteins containing regions rich in serine-arginine dipeptides (SR protein family). These are involved in bridge-complex formation and splicing by mediating protein-protein interactions across either introns or exons. SR proteins have been identified as crucial regulators of alternative splicing. Different SR proteins display different substrate specificity, have distinct functions in alternative splicing of different pre-mRNAs, and can even negatively regulate splicing. All SR family members are characterized by the presence of one or two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and the C-terminal regions rich in serine and arginine dipeptides (SR domains). The RRM domain is responsible for RNA binding and specificity in both alternative and constitutive splicing. In contrast, SR domains are thought to be protein-protein interaction domains that are often interchangeable. . Length = 76

>gnl|CDD|240766 cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition motif 6 in RNA-binding protein 19 (RBM19 or RBD-1) and RNA recognition motif 5 in multiple RNA-binding domain-containing protein 1 (MRD1)

 Score = 40.7 bits (96), Expect = 8e-05
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 2/56 (3%)

Query: 267 QVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LAGTML 320
           + T+++L  LF   GQV   R+    +   R FAF+EF  ++ A+ A+  L  T L
Sbjct: 11  EATKKELRELFSPFGQVKSVRLPKKFDGSHRGFAFVEFVTKQEAQNAMEALKSTHL 66

This subfamily corresponds to the RRM6 of RBM19 and RRM5 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes. It is 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 = 76

>gnl|CDD|240718 cd12272, RRM2_PHIP1, RNA recognition motif 2 in Arabidopsis thaliana phragmoplastin interacting protein 1 (PHIP1) and similar proteins

 Score = 40.5 bits (95), Expect = 8e-05
 Identities = 22/72 (30%), Positives = 37/72 (51%), Gaps = 3/72 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNL 315
           TVY+ ++   +TE+ +   F    ++   R+  D  +     F  ++F DEE   AAL L
Sbjct: 1   TVYIGNLAWDITEDDVREFF-KGCEITSVRLATDKETGEFKGFGHVDFADEESLDAALKL 59

Query: 316 AGTMLGFYPVRV 327
            GT+L   P+R+
Sbjct: 60  DGTVLCGRPIRI 71

The CD corresponds to the RRM2 of PHIP1. A. thaliana PHIP1 and its homologs represent a novel class of plant-specific RNA-binding proteins that may play a unique role in the polarized mRNA transport to the vicinity of the cell plate. The family members consist of multiple functional domains, including a lysine-rich domain (KRD domain) that contains three nuclear localization motifs (KKKR/NK), two RNA recognition motifs (RRMs), and three CCHC-type zinc fingers. PHIP1 is a peripheral membrane protein and is localized at the cell plate during cytokinesis in plants. In addition to phragmoplastin, PHIP1 interacts with two Arabidopsis small GTP-binding proteins, Rop1 and Ran2. However, PHIP1 interacted only with the GTP-bound form of Rop1 but not the GDP-bound form. It also binds specifically to Ran2 mRNA. . Length = 72

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

 Score = 40.0 bits (94), Expect = 1e-04
 Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%)

Query: 356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH-HSTRIAFVEF 401
           ++  N+    T+ D++  F    GE+  +R++ D    S   AFVEF
Sbjct: 1   LFVGNLPPDTTEEDLRELFSK-FGEIESVRIVRDKDGKSKGFAFVEF 46

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|240686 cd12240, RRM_NCBP2, RNA recognition motif found in nuclear cap-binding protein subunit 2 (CBP20) and similar proteins

 Score = 40.2 bits (95), Expect = 1e-04
 Identities = 26/81 (32%), Positives = 35/81 (43%), Gaps = 21/81 (25%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRI-----------CGDPNSVLRFAFIEFTDEE 307
           +YV ++    TEEQ+  LF  CG +   RI           CG       F F+E+   E
Sbjct: 1   LYVGNLSFYTTEEQIYELFSRCGDIK--RIIMGLDRFTKTPCG-------FCFVEYYTRE 51

Query: 308 GARAALN-LAGTMLGFYPVRV 327
            A  A+  L GT L    +RV
Sbjct: 52  DAENAVKYLNGTKLDDRIIRV 72

This subfamily corresponds to the RRM of CBP20, also termed nuclear cap-binding protein subunit 2 (NCBP2), or cell proliferation-inducing gene 55 protein, or NCBP-interacting protein 1 (NIP1). CBP20 is the small subunit of the nuclear cap binding complex (CBC), which is a conserved eukaryotic heterodimeric protein complex binding to 5'-capped polymerase II transcripts and plays a central role in the maturation of pre-mRNA and uracil-rich small nuclear RNA (U snRNA). CBP20 is most likely responsible for the binding of capped RNA. It contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and interacts with the second and third domains of CBP80, the large subunit of CBC. . Length = 78

>gnl|CDD|241115 cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif in cleavage stimulation factor subunit 2 (CSTF2), cleavage stimulation factor subunit 2 tau variant (CSTF2T) and similar proteins

 Score = 39.8 bits (93), Expect = 1e-04
 Identities = 27/75 (36%), Positives = 38/75 (50%), Gaps = 9/75 (12%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRIC-----GDPNSVLRFAFIEFTDEEGARAAL 313
           V+V +I  + TEEQL  +F   G VV  R+      G P     + F E+ D+E A +A+
Sbjct: 1   VFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKG---YGFCEYKDQETALSAM 57

Query: 314 -NLAGTMLGFYPVRV 327
            NL G  L    +RV
Sbjct: 58  RNLNGYELNGRQLRV 72

This subgroup 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. . Length = 75

>gnl|CDD|240743 cd12297, RRM2_Prp24, RNA recognition motif 2 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 7/68 (10%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP----NSVLRFAFIEFTDEEGARAAL 313
           T++V++      +  +  LF   G+++  R    P    N   RF +++FT  E A AA+
Sbjct: 2   TLWVTNFPPSFDQSDIRDLFEQYGEILSIRF---PSLRFNKTRRFCYVQFTSPESAAAAV 58

Query: 314 NLAGTMLG 321
            L    LG
Sbjct: 59  ALLNGKLG 66

This subfamily corresponds to the RRM2 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|240800 cd12354, RRM3_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1

 Score = 39.9 bits (94), Expect = 1e-04
 Identities = 22/71 (30%), Positives = 35/71 (49%), Gaps = 5/71 (7%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEF-TDEEGARAALNLA 316
           TVYV ++   +TEE+L   F   G + + R+  D      +AF+ F T E  A A + + 
Sbjct: 2   TVYVGNLPHGLTEEELQRTFSPFGAIEEVRVFKDKG----YAFVRFDTHEAAATAIVAVN 57

Query: 317 GTMLGFYPVRV 327
           GT +    V+ 
Sbjct: 58  GTSINGQTVKC 68

This subfamily corresponds to the RRM3 of TIA-1, TIAR, and PUB1. Nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR) are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. They share high sequence similarity and 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. This subfamily also includes a yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1, termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein, which has been identified as both a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP). It may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. PUB1 is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA); however, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RRMs, and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 73

>gnl|CDD|241052 cd12608, RRM1_CoAA, RNA recognition motif 1 in vertebrate RRM-containing coactivator activator/modulator (CoAA)

 Score = 39.4 bits (92), Expect = 1e-04
 Identities = 22/64 (34%), Positives = 34/64 (53%), Gaps = 9/64 (14%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGA-RAALNLA 316
           ++V ++D+  ++E+L ALF   G V+ C       +V+R FAF+    E  A RA   L 
Sbjct: 3   IFVGNVDEDTSQEELRALFEAYGAVLSC-------AVMRQFAFVHLRGEAAADRAIEELN 55

Query: 317 GTML 320
           G  L
Sbjct: 56  GREL 59

This subgroup corresponds to the RRM1 of CoAA, also termed RNA-binding protein 14 (RBM14), or paraspeckle protein 2 (PSP2), or synaptotagmin-interacting protein (SYT-interacting protein), a heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein identified as a nuclear receptor coactivator. It mediates transcriptional coactivation and RNA splicing effects in a promoter-preferential manner and is enhanced by thyroid hormone receptor-binding protein (TRBP). CoAA contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a TRBP-interacting domain. It stimulates transcription through its interactions with coactivators, such as TRBP and CREB-binding protein CBP/p300, via the TRBP-interacting domain and interaction with an RNA-containing complex, such as DNA-dependent protein kinase-poly(ADP-ribose) polymerase complexes, via the RRMs. . Length = 69

>gnl|CDD|240729 cd12283, RRM1_RBM39_like, RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins

 Score = 39.1 bits (92), Expect = 2e-04
 Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 5/50 (10%)

Query: 355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTR---IAFVEF 401
           T++   +  KV + D+  FF    G+V  +R++ D  +S R   +A+VEF
Sbjct: 1   TVFVMQLSLKVRERDLYEFFSKA-GKVRDVRIIRD-RNSRRSKGVAYVEF 48

This subfamily corresponds to the RRM1 of RNA-binding protein 39 (RBM39), RNA-binding protein 23 (RBM23) and similar proteins. RBM39 (also termed HCC1) is 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

>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 = 39.9 bits (94), Expect = 2e-04
 Identities = 20/59 (33%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN 314
            ++VS +  + TE++L ALF   G+V +  +  DP +   R F F+ F   E A AA+ 
Sbjct: 3   KLFVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGFGFVTFESVEDADAAIR 61

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|240827 cd12381, RRM4_I_PABPs, RNA recognition motif 4 in type I polyadenylate-binding proteins

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 18/70 (25%), Positives = 34/70 (48%), Gaps = 2/70 (2%)

Query: 260 YVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTD-EEGARAALNLAG 317
           YV ++D  + +E+L   F   G +   ++  D     + F F+ F+  EE  +A   + G
Sbjct: 5   YVKNLDDSIDDERLREEFSPFGTITSAKVMTDEKGRSKGFGFVCFSSPEEATKAVTEMNG 64

Query: 318 TMLGFYPVRV 327
            ++G  P+ V
Sbjct: 65  RIIGGKPLYV 74

This subfamily corresponds to the RRM4 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 theThe CD corresponds to the RRM. 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. Moreover, 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 = 79

>gnl|CDD|241009 cd12565, RRM1_MRD1, RNA recognition motif 1 in yeast multiple RNA-binding domain-containing protein 1 (MRD1) and similar proteins

 Score = 39.1 bits (92), Expect = 2e-04
 Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 1/57 (1%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
           + V ++ + VTE++L   F   G+V D ++    +   R F F+ F  EE A+ A+ 
Sbjct: 3   IIVKNLPKYVTEDRLREHFESKGEVTDVKVMRTRDGKSRRFGFVGFKSEEDAQQAVK 59

This subgroup corresponds to the RRM1 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). MRD1 is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. It 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 = 76

>gnl|CDD|241008 cd12564, RRM1_RBM19, RNA recognition motif 1 in RNA-binding protein 19 (RBM19) and similar proteins

 Score = 39.2 bits (92), Expect = 2e-04
 Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 1/48 (2%)

Query: 268 VTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
           + E++L  LF   G + D ++    +   R F F+ +  EE A+ AL 
Sbjct: 12  IKEDKLRKLFEAFGTITDVQLKYTKDGKFRKFGFVGYKTEEEAQKALK 59

This subgroup corresponds to the RRM1 of RBM19, also termed RNA-binding domain-1 (RBD-1), 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 = 76

>gnl|CDD|240838 cd12392, RRM2_SART3, RNA recognition motif 2 in squamous cell carcinoma antigen recognized by T-cells 3 (SART3) and similar proteins

 Score = 38.9 bits (91), Expect = 3e-04
 Identities = 19/68 (27%), Positives = 36/68 (52%), Gaps = 2/68 (2%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGA-RAAL 313
           +  ++VS +   VT+E+L  LF   G V   R+  + +   +  A++E+ +E  A +A L
Sbjct: 2   KHKLFVSGLPFSVTKEELEKLFKKHGVVKSVRLVTNRSGKPKGLAYVEYENESSASQAVL 61

Query: 314 NLAGTMLG 321
            + GT + 
Sbjct: 62  KMDGTEIK 69

This subfamily corresponds to the RRM2 of SART3, also termed Tat-interacting protein of 110 kDa (Tip110), is an RNA-binding protein expressed in the nucleus of the majority of proliferating cells, including normal cells and malignant cells, but not in normal tissues except for the testes and fetal liver. It is involved in the regulation of mRNA splicing probably via its complex formation with RNA-binding protein with a serine-rich domain (RNPS1), a pre-mRNA-splicing factor. SART3 has also been identified as a nuclear Tat-interacting protein that regulates Tat transactivation activity through direct interaction and functions as an important cellular factor for HIV-1 gene expression and viral replication. In addition, SART3 is required for U6 snRNP targeting to Cajal bodies. It binds specifically and directly to the U6 snRNA, interacts transiently with the U6 and U4/U6 snRNPs, and promotes the reassembly of U4/U6 snRNPs after splicing in vitro. SART3 contains an N-terminal half-a-tetratricopeptide repeat (HAT)-rich domain, a nuclearlocalization signal (NLS) domain, and two C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 81

>gnl|CDD|240695 cd12249, RRM1_hnRNPR_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein R (hnRNP R) and similar proteins

 Score = 38.7 bits (91), Expect = 3e-04
 Identities = 17/56 (30%), Positives = 34/56 (60%), Gaps = 1/56 (1%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL 313
           V+V  I + + E++L  LF   G + + R+  D + + R +AF+ +T++E A+ A+
Sbjct: 4   VFVGKIPRDLFEDELVPLFEKAGPIYELRLMMDFSGLNRGYAFVTYTNKEAAQRAV 59

This subfamily corresponds to the RRM1 in hnRNP R, hnRNP Q, APOBEC-1 complementation factor (ACF), and dead end protein homolog 1 (DND1). hnRNP R is a ubiquitously expressed nuclear RNA-binding protein that specifically binds mRNAs with a preference for poly(U) stretches. It has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. hnRNP Q is also a ubiquitously expressed nuclear RNA-binding protein. It has been identified as a component of the spliceosome complex, as well as a component of the apobec-1 editosome, and has been implicated in the regulation of specific mRNA transport. ACF is an RNA-binding subunit of a core complex that interacts with apoB mRNA to facilitate C to U RNA editing. It may also act as an apoB mRNA recognition factor and chaperone, and play a key role in cell growth and differentiation. DND1 is essential for maintaining viable germ cells in vertebrates. It interacts with the 3'-untranslated region (3'-UTR) of multiple messenger RNAs (mRNAs) and prevents micro-RNA (miRNA) mediated repression of mRNA. This family also includes two functionally unknown RNA-binding proteins, RBM46 and RBM47. All members in this family, except for DND1, contain three conserved RNA recognition motifs (RRMs); DND1 harbors only two RRMs. . Length = 78

>gnl|CDD|240893 cd12447, RRM1_gar2, RNA recognition motif 1 in yeast protein gar2 and similar proteins

 Score = 38.5 bits (90), Expect = 4e-04
 Identities = 21/73 (28%), Positives = 35/73 (47%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN- 314
           T++V ++   V +E L A F   G VV  R+  D  +     F +++F   E A+ A+  
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFEKFGTVVGARVITDRETGRSRGFGYVDFESPEDAKKAIEA 60

Query: 315 LAGTMLGFYPVRV 327
           + G  L   P+ V
Sbjct: 61  MDGKELDGRPINV 73

This subfamily corresponds to the RRM1 of yeast protein gar2, a novel nucleolar protein required for 18S rRNA and 40S ribosomal subunit accumulation. It shares similar domain architecture with nucleolin from vertebrates and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of gar2 is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of gar2 contains two closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The C-terminal RGG (or GAR) domain of gar2 is rich in glycine, arginine and phenylalanine residues. . Length = 76

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

 Score = 38.0 bits (89), Expect = 5e-04
 Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 3/49 (6%)

Query: 355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHH--STRIAFVEF 401
           T++  N+    T+ +++  F    G+V  +RL+ D     S   AFVEF
Sbjct: 1   TLFVGNLPPDTTEEELRELFSK-FGKVESVRLVRDKETGKSKGFAFVEF 48

Length = 73

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 25/76 (32%), Positives = 39/76 (51%), Gaps = 3/76 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNL 315
           ++YV D+D  VTE +L  LF   G V+  R+C D  +   L + ++ F +   A  AL  
Sbjct: 2   SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALET 61

Query: 316 AG-TMLGFYPVRVLPS 330
                LG  P+R++ S
Sbjct: 62  MNFKRLGGKPIRIMWS 77

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

>gnl|CDD|240789 cd12343, RRM1_2_CoAA_like, RNA recognition motif 1 and 2 in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

 Score = 38.0 bits (89), Expect = 5e-04
 Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 7/63 (11%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NLAG 317
           ++V ++    T E+L ALF   G V +C +      V  + F+   +EE A  A+  L G
Sbjct: 2   LFVGNLPDATTSEELRALFEKYGTVTECDV------VKNYGFVHMEEEEDAEDAIKALNG 55

Query: 318 TML 320
              
Sbjct: 56  YEF 58

This subfamily corresponds to the RRM in CoAA (also known as RBM14 or PSP2) and RNA-binding protein 4 (RBM4). CoAA is a heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein identified as a nuclear receptor coactivator. It mediates transcriptional coactivation and RNA splicing effects in a promoter-preferential manner, and is enhanced by thyroid hormone receptor-binding protein (TRBP). CoAA contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a TRBP-interacting domain. RBM4 is a ubiquitously expressed splicing factor with two isoforms, RBM4A (also known as Lark homolog) and RBM4B (also known as RBM30), which are very similar in structure and sequence. RBM4 may also function as a translational regulator of stress-associated mRNAs as well as play a role in micro-RNA-mediated gene regulation. RBM4 contains two N-terminal RRMs, a CCHC-type zinc finger, and three alanine-rich regions within their C-terminal regions. This family also includes Drosophila RNA-binding protein lark (Dlark), a homolog of human RBM4. It plays an important role in embryonic development and in the circadian regulation of adult eclosion. Dlark shares high sequence similarity with RBM4 at the N-terminal region. However, Dlark has three proline-rich segments instead of three alanine-rich segments within the C-terminal region. . Length = 66

>gnl|CDD|240821 cd12375, RRM1_Hu_like, RNA recognition motif 1 in the Hu proteins family, Drosophila sex-lethal (SXL), and similar proteins

 Score = 37.7 bits (88), Expect = 7e-04
 Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 2/56 (3%)

Query: 261 VSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN 314
           V+ + Q +T+E+L +LF   G +  C+I  D  +   L + F+++ DE  A+ A+N
Sbjct: 5   VNYLPQDMTQEELRSLFEAIGPIESCKIVRDRITGQSLGYGFVDYVDENDAQKAIN 60

This subfamily corresponds to the RRM1 of Hu proteins and SXL. The Hu proteins family represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. This family also includes the sex-lethal protein (SXL) from Drosophila melanogaster. SXL governs sexual differentiation and X chromosome dosage compensation in flies. 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 to its own pre-mRNA and promotes female-specific alternative splicing. It contains an N-terminal Gly/Asn-rich domain that may be responsible for the protein-protein interaction, and tandem RRMs that show high preference to bind single-stranded, uridine-rich target RNA transcripts. . Length = 77

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

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL 313
           RTV++ ++    TEE+L  LF   G+V   RI  D  +      AF++F  +E A+  L
Sbjct: 1   RTVFIRNLPFDATEEELKELFSQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESAQKCL 59

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

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

 Score = 37.7 bits (88), Expect = 9e-04
 Identities = 23/65 (35%), Positives = 27/65 (41%), Gaps = 16/65 (24%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVV---------DCRICGDPNSVLRFAFIEFTDEEG 308
           TVYV  + +  T E L A+F   G VV            I G       FAFIEF   E 
Sbjct: 1   TVYVECLPKNATHEWLKAVFSKYGTVVYVSLPRYKHTGDIKG-------FAFIEFETPEE 53

Query: 309 ARAAL 313
           A+ A 
Sbjct: 54  AQKAC 58

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

>gnl|CDD|130689 TIGR01628, PABP-1234, polyadenylate binding protein, human types 1, 2, 3, 4 family

 Score = 40.9 bits (96), Expect = 0.001
 Identities = 42/166 (25%), Positives = 75/166 (45%), Gaps = 21/166 (12%)

Query: 245 RTSLAQREEIIRRT----VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FA 299
           R   +QR+  +RR+    ++V ++D+ V  + L   F   G ++ C++  D N   R + 
Sbjct: 73  RIMWSQRDPSLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKVATDENGKSRGYG 132

Query: 300 FIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCAR--TI 356
           F+ F  EE A+AA+  + G +L    V V             F+ + E E     +   +
Sbjct: 133 FVHFEKEESAKAAIQKVNGMLLNDKEVYVGR-----------FIKKHEREAAPLKKFTNL 181

Query: 357 YCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTR-IAFVEF 401
           Y  N+D  V +  ++  F +  GE+    ++ D    +R  AFV F
Sbjct: 182 YVKNLDPSVNEDKLRELF-AKFGEITSAAVMKDGSGRSRGFAFVNF 226

These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis (GP:11610605_PABP3 ), platelets (SP:Q13310_PABP4 ), broadly expressed (SP:P11940_PABP1) and of unknown tissue range (SP:Q15097_PABP2). Length = 562

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

 Score = 37.6 bits (88), Expect = 0.001
 Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 8/72 (11%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC-----GDPNSVLR--FAFIEFTDEEGA 309
            T++V +++ + TEE L   F  CG V    I        P  +L   + F+EF  +E A
Sbjct: 1   TTLFVKNLNFKTTEETLKKHFEKCGGVRSVTIAKKKDPKGPGKLLSMGYGFVEFKSKEAA 60

Query: 310 RAAL-NLAGTML 320
           + AL  L GT+L
Sbjct: 61  QKALKRLQGTVL 72

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

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

 Score = 37.2 bits (86), Expect = 0.001
 Identities = 25/83 (30%), Positives = 42/83 (50%), Gaps = 12/83 (14%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD-----PNSVLRFAFIEFTDEEGARAAL 313
           +YV+++ +Q+TE++L  +F   G +V C +  D     P  V   AF+ +   E A+AA+
Sbjct: 3   LYVTNLPRQLTEDELRKIFEAYGNIVQCNLLRDKSTGLPRGV---AFVRYDKREEAQAAI 59

Query: 314 N-LAGTMLGFYPVRVLPSKTAIA 335
           + L GT     P   +P     A
Sbjct: 60  SSLNGT---IPPGSTMPLSVRYA 79

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

 Score = 36.2 bits (84), Expect = 0.002
 Identities = 22/62 (35%), Positives = 35/62 (56%), Gaps = 3/62 (4%)

Query: 269 TEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPV 325
            E+ +   F   G++   R+  DP+S     F ++EF+ +E A+AAL+ L GT L   PV
Sbjct: 11  DEDSIYEAFGEYGEISSVRLPTDPDSGRPKGFGYVEFSSQEAAQAALDALGGTDLLGRPV 70

Query: 326 RV 327
           R+
Sbjct: 71  RL 72

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

>gnl|CDD|241096 cd12652, RRM2_Hu, RNA recognition motif 2 in the Hu proteins family

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 3/65 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEF-TDEEGARAALNL 315
           +YVS + + +T+++L ALF   G+++  RI  D  + L     FI F    E  RA   L
Sbjct: 3   LYVSGLPKTMTQQELEALFSPYGRIITSRILCDNVTGLSRGVGFIRFDKRIEAERAIKAL 62

Query: 316 AGTML 320
            GT+ 
Sbjct: 63  NGTIP 67

This subfamily corresponds to the RRM2 of Hu proteins family which represents a group of RNA-binding proteins involved in diverse biological processes. Since the Hu proteins share high homology with the Drosophila embryonic lethal abnormal vision (ELAV) protein, the Hu family is sometimes referred to as the ELAV family. Drosophila ELAV is exclusively expressed in neurons and is required for the correct differentiation and survival of neurons in flies. The neuronal members of the Hu family include Hu-antigen B (HuB or ELAV-2 or Hel-N1), Hu-antigen C (HuC or ELAV-3 or PLE21), and Hu-antigen D (HuD or ELAV-4), which play important roles in neuronal differentiation, plasticity and memory. HuB is also expressed in gonads. Hu-antigen R (HuR or ELAV-1 or HuA) is the ubiquitously expressed Hu family member. It has a variety of biological functions mostly related to the regulation of cellular response to DNA damage and other types of stress. Moreover, HuR has an anti-apoptotic function during early cell stress response. It binds to mRNAs and enhances the expression of several anti-apoptotic proteins, such as p21waf1, p53, and prothymosin alpha. HuR also has pro-apoptotic function by promoting apoptosis when cell death is unavoidable. Furthermore, HuR may be important in muscle differentiation, adipogenesis, suppression of inflammatory response and modulation of gene expression in response to chronic ethanol exposure and amino acid starvation. Hu proteins perform their cytoplasmic and nuclear molecular functions by coordinately regulating functionally related mRNAs. In the cytoplasm, Hu proteins recognize and bind to AU-rich RNA elements (AREs) in the 3' untranslated regions (UTRs) of certain target mRNAs, such as GAP-43, vascular epithelial growth factor (VEGF), the glucose transporter GLUT1, eotaxin and c-fos, and stabilize those ARE-containing mRNAs. They also bind and regulate the translation of some target mRNAs, such as neurofilament M, GLUT1, and p27. In the nucleus, Hu proteins function as regulators of polyadenylation and alternative splicing. Each Hu protein contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). RRM1 and RRM2 may cooperate in binding to an ARE. RRM3 may help to maintain the stability of the RNA-protein complex, and might also bind to poly(A) tails or be involved in protein-protein interactions. . Length = 79

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

 Score = 36.5 bits (85), Expect = 0.002
 Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 6/51 (11%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGA 309
           +Y+S +   VTE+ LA LF G G +   +    P   +      +TD+E  
Sbjct: 1   IYISGLPDDVTEDSLAELFGGIGIIKRDKRTWPPMIKI------YTDKETE 45

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

 Score = 36.1 bits (84), Expect = 0.003
 Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 3/71 (4%)

Query: 260 YVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP--NSVLRFAFIEFTDEEGARAAL-NLA 316
           YV ++   +TE+ L  +F   G++   ++  DP       + FI+F D E A+ AL  L 
Sbjct: 2   YVGNLHFNITEDDLRGIFEPFGEIEFVQLQRDPETGRSKGYGFIQFADAEDAKKALEQLN 61

Query: 317 GTMLGFYPVRV 327
           G  L   P++V
Sbjct: 62  GFELAGRPIKV 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

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

 Score = 36.4 bits (85), Expect = 0.003
 Identities = 15/55 (27%), Positives = 29/55 (52%), Gaps = 1/55 (1%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAA 312
           VYV ++ + + +E+L  LF   G++   ++  D     + F F+ F + E A+ A
Sbjct: 4   VYVKNLGEDMDDEKLKELFGKYGKITSAKVMKDDEGKSKGFGFVNFENHEAAQKA 58

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|240926 cd12482, RRM1_hnRNPR, RNA recognition motif 1 in vertebrate heterogeneous nuclear ribonucleoprotein R (hnRNP R)

 Score = 36.1 bits (83), Expect = 0.003
 Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 2/59 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALNL 315
           V+V  I + + E++L  LF   G + D R+  DP S     +AFI F  +E A+ A+ L
Sbjct: 4   VFVGKIPRDLYEDELVPLFEKAGPIWDLRLMMDPLSGQNRGYAFITFCGKEAAQEAVKL 62

This subgroup corresponds to the RRM1 of hnRNP R, which is a ubiquitously expressed nuclear RNA-binding protein that specifically binds mRNAs with a preference for poly(U) stretches. Upon binding of RNA, hnRNP R forms oligomers, most probably dimers. hnRNP R has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. It is predominantly located in axons of motor neurons and to a much lower degree in sensory axons. In axons of motor neurons, it also functions as a cytosolic protein and interacts with wild type of survival motor neuron (SMN) proteins directly, further providing a molecular link between SMN and the spliceosome. Moreover, hnRNP R plays an important role in neural differentiation and development, and in retinal development and light-elicited cellular activities. hnRNP R contains an acidic auxiliary N-terminal region, followed by two well defined and one degenerated RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal RGG motif; it binds RNA through its RRM domains. . Length = 79

>gnl|CDD|241063 cd12619, RRM2_PUB1, RNA recognition motif 2 in yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1 and similar proteins

 Score = 35.9 bits (83), Expect = 0.004
 Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 3/72 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-L 315
           ++V D+  +VT+  L A F       D R+  D  S     + F+ F  ++ A  A+N +
Sbjct: 2   IFVGDLSPEVTDATLFAAFSAFPSCSDARVMWDMKSGRSRGYGFVSFRSQQDAENAINEM 61

Query: 316 AGTMLGFYPVRV 327
            G  LG  P+R 
Sbjct: 62  NGKWLGSRPIRC 73

This subgroup corresponds to the RRM2 of yeast protein PUB1, also termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein. PUB1 has been identified as both, a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP), which may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. It is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA). However, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 75

>gnl|CDD|240980 cd12536, RRM1_RBM39, RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39)

 Score = 35.8 bits (82), Expect = 0.004
 Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 2/77 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN 314
           RTV+   +  ++    L   F   G+V D R+  D NS      A++EF D      A+ 
Sbjct: 2   RTVFCMQLAARIRPRDLEEFFSTVGKVRDVRMISDRNSRRSKGIAYVEFVDVSSVPLAIG 61

Query: 315 LAGTMLGFYPVRVLPSK 331
           L G  +   P+ V  S+
Sbjct: 62  LTGQRVLGVPIIVQASQ 78

This subgroup corresponds to the RRM1 of RBM39, also termed hepatocellular carcinoma protein 1, or RNA-binding region-containing protein 2, or splicing factor 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. Based on the specific domain composition, RBM39 has been classified into a family of non-snRNP (small nuclear ribonucleoprotein) splicing factors that are usually not complexed to snRNAs. . Length = 85

>gnl|CDD|240843 cd12397, RRM2_Nop13p_fungi, RNA recognition motif 2 in yeast nucleolar protein 13 (Nop13p) and similar proteins

 Score = 35.5 bits (82), Expect = 0.004
 Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 4/71 (5%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICG--DPNSVLRFAFIEFTDEEGARAALNLA 316
           ++V ++  + TE++L A F   G++   R+    D      FAF++F + E A  A  L 
Sbjct: 1   LFVGNLSFETTEDELRAHFGRVGRIRRVRMMTFEDSGKCKGFAFVDFEEIEFATNA--LK 58

Query: 317 GTMLGFYPVRV 327
           G  L    +RV
Sbjct: 59  GKHLNGRALRV 69

This subfamily corresponds to the RRM2 of Nop13p encoded by YNL175c from Saccharomyces cerevisiae. It shares high sequence similarity with nucleolar protein 12 (Nop12p). Both Nop12p and Nop13p are not essential for growth. However, unlike Nop12p that is localized to the nucleolus, Nop13p localizes primarily to the nucleolus but is also present in the nucleoplasm to a lesser extent. Nop13p contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 73

>gnl|CDD|240697 cd12251, RRM3_hnRNPR_like, RNA recognition motif 3 in heterogeneous nuclear ribonucleoprotein R (hnRNP R) and similar proteins

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 6/57 (10%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
           + +YV ++    TEEQL  LF   G+V   +   D      +AF+ F + + A  A+
Sbjct: 2   KVLYVRNLPLSTTEEQLRELFSEYGEVERVKKIKD------YAFVHFEERDDAVKAM 52

This subfamily corresponds to the RRM3 in hnRNP R, hnRNP Q, and APOBEC-1 complementation factor (ACF). hnRNP R is a ubiquitously expressed nuclear RNA-binding protein that specifically bind mRNAs with a preference for poly(U) stretches and has been implicated in mRNA processing and mRNA transport, and also acts as a regulator to modify binding to ribosomes and RNA translation. hnRNP Q is also a ubiquitously expressed nuclear RNA-binding protein. It has been identified as a component of the spliceosome complex, as well as a component of the apobec-1 editosome, and has been implicated in the regulation of specific mRNA transport. ACF is an RNA-binding subunit of a core complex that interacts with apoB mRNA to facilitate C to U RNA editing. It may also act as an apoB mRNA recognition factor and chaperone and play a key role in cell growth and differentiation. This family also includes two functionally unknown RNA-binding proteins, RBM46 and RBM47. All members contain three conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Length = 72

>gnl|CDD|240799 cd12353, RRM2_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins p40-TIA-1 and TIAR

 Score = 35.4 bits (82), Expect = 0.004
 Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 7/73 (9%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP--NSVLRFAFIEFT---DEEGARAAL 313
           ++V D+  ++  E L A F   G++ D R+  D        + F+ F    D E A  ++
Sbjct: 2   IFVGDLSPEIDTETLRAAFAPFGEISDARVVKDMQTGKSKGYGFVSFVKKEDAENAIQSM 61

Query: 314 NLAGTMLGFYPVR 326
           N  G  LG   +R
Sbjct: 62  N--GQWLGGRAIR 72

This subfamily corresponds to the RRM2 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 = 75

>gnl|CDD|240745 cd12299, RRM4_Prp24, RNA recognition motif 4 in fungal pre-messenger RNA splicing protein 24 (Prp24) and similar proteins

 Score = 35.3 bits (82), Expect = 0.004
 Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 4/49 (8%)

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFV 402
           RTI   N+   V +  +K FFE +  +V ++ L  D+      A VEF 
Sbjct: 1   RTIGLFNVSDTVNEEQIKAFFEKIGPDVRKIELFPDHEG----ALVEFE 45

This subfamily corresponds to the RRM4 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 = 71

>gnl|CDD|241037 cd12593, RRM_RBM11, RNA recognition motif in vertebrate RNA-binding protein 11 (RBM11)

 Score = 35.7 bits (82), Expect = 0.004
 Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 12/78 (15%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC----GDPNSVLRFAFIEFTDEEG---A 309
           RT++V +++ +V EE L  LF+  G +    IC    G P S   F F+ F   E    A
Sbjct: 2   RTLFVGNLECRVREEILYELFLQAGPLTKVTICKDKEGKPKS---FGFVCFKHSESVPYA 58

Query: 310 RAALNLAGTMLGFYPVRV 327
            A LN  G  L   P++V
Sbjct: 59  IALLN--GIRLYGRPIKV 74

This subfamily corresponds to the RRM or RBM11, a novel tissue-specific splicing regulator that is selectively expressed in brain, cerebellum and testis, and to a lower extent in kidney. RBM11 is localized in the nucleoplasm and enriched in SRSF2-containing splicing speckles. It may play a role in the modulation of alternative splicing during neuron and germ cell differentiation. RBM11 contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a region lacking known homology at the C-terminus. The RRM of RBM11 is responsible for RNA binding, whereas the C-terminal region permits nuclear localization and homodimerization. . Length = 75

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	437
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	100.0
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.95
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.92
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.92
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.92
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.92
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.91
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.89
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.89
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.88
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.87
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.87
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	99.86
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.86
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.86
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.85
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.85
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.85
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.84
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.81
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.81
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	99.81
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.8
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.79
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	99.77
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	99.76
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	99.75
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	99.73
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.7
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	99.64
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.63
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	99.6
KOG0144	510	consensus RNA-binding protein CUGBP1/BRUNO (RRM su	99.59
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	99.58
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	99.56
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.5
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	99.47
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	99.47
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.43
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	99.38
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.37
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.36
PLN03120	260	nucleic acid binding protein; Provisional	99.35
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	99.35
KOG1457	284	consensus RNA binding protein (contains RRM repeat	99.34
KOG1548	382	consensus Transcription elongation factor TAT-SF1	99.3
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.3
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.28
PLN03213	759	repressor of silencing 3; Provisional	99.28
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.28
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	99.27
smart00362	72	RRM_2 RNA recognition motif.	99.25
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	99.24
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	99.24
PLN03121	243	nucleic acid binding protein; Provisional	99.24
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	99.22
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	99.22
KOG0122	270	consensus Translation initiation factor 3, subunit	99.19
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	99.19
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	99.16
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.12
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.1
smart00360	71	RRM RNA recognition motif.	99.07
PLN03120	260	nucleic acid binding protein; Provisional	99.07
KOG4207	256	consensus Predicted splicing factor, SR protein su	99.06
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	99.06
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	99.04
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	99.01
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	99.0
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.99
KOG0122	270	consensus Translation initiation factor 3, subunit	98.98
KOG0149	247	consensus Predicted RNA-binding protein SEB4 (RRM	98.98
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.96
smart00362	72	RRM_2 RNA recognition motif.	98.95
PLN03121	243	nucleic acid binding protein; Provisional	98.93
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	98.93
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.91
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	98.91
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.89
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	98.88
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.87
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.87
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	98.86
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.86
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	98.81
KOG0120	500	consensus Splicing factor U2AF, large subunit (RRM	98.81
smart00360	71	RRM RNA recognition motif.	98.77
smart00361	70	RRM_1 RNA recognition motif.	98.75
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.75
KOG0113	335	consensus U1 small nuclear ribonucleoprotein (RRM	98.72
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.71
PLN03213	759	repressor of silencing 3; Provisional	98.67
KOG4211	510	consensus Splicing factor hnRNP-F and related RNA-	98.65
KOG0146	371	consensus RNA-binding protein ETR-3 (RRM superfami	98.64
KOG1456	494	consensus Heterogeneous nuclear ribonucleoprotein	98.63
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	98.63
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	98.57
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	98.57
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	98.53
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	98.51
KOG0126	219	consensus Predicted RNA-binding protein (RRM super	98.51
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	98.5
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	98.49
KOG4210	285	consensus Nuclear localization sequence binding pr	98.45
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.44
KOG4207	256	consensus Predicted splicing factor, SR protein su	98.42
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.42
KOG1365	508	consensus RNA-binding protein Fusilli, contains RR	98.41
KOG4205	311	consensus RNA-binding protein musashi/mRNA cleavag	98.41
KOG1190	492	consensus Polypyrimidine tract-binding protein [RN	98.37
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	98.37
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	98.36
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	98.36
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	98.35
KOG0226	290	consensus RNA-binding proteins [General function p	98.35
smart00361	70	RRM_1 RNA recognition motif.	98.35
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	98.34
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	98.32
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	98.27
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	98.25
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	98.21
KOG0151	877	consensus Predicted splicing regulator, contains R	98.15
KOG0533	243	consensus RRM motif-containing protein [RNA proces	98.1
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.08
KOG4660	549	consensus Protein Mei2, essential for commitment t	98.0
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.98
KOG0132	894	consensus RNA polymerase II C-terminal domain-bind	97.97
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	97.96
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	97.95
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	97.94
KOG0226	290	consensus RNA-binding proteins [General function p	97.86
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	97.85
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	97.68
KOG0153	377	consensus Predicted RNA-binding protein (RRM super	97.67
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	97.65
KOG0116	419	consensus RasGAP SH3 binding protein rasputin, con	97.55
KOG0533	243	consensus RRM motif-containing protein [RNA proces	97.49
KOG4661	940	consensus Hsp27-ERE-TATA-binding protein/Scaffold	97.26
KOG0128	881	consensus RNA-binding protein SART3 (RRM superfami	97.23
KOG1457	284	consensus RNA binding protein (contains RRM repeat	97.23
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.21
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.19
KOG4660	549	consensus Protein Mei2, essential for commitment t	97.14
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	97.13
KOG2193	584	consensus IGF-II mRNA-binding protein IMP, contain	97.07
KOG4454	267	consensus RNA binding protein (RRM superfamily) [G	96.96
KOG4307	944	consensus RNA binding protein RBM12/SWAN [General	96.83
KOG4676	479	consensus Splicing factor, arginine/serine-rich [R	96.83
KOG0151	877	consensus Predicted splicing regulator, contains R	96.77
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.75
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.62
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.61
KOG1548	382	consensus Transcription elongation factor TAT-SF1	96.37
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.35
KOG1995	351	consensus Conserved Zn-finger protein [General fun	96.26
KOG0129	520	consensus Predicted RNA-binding protein (RRM super	96.09
KOG1855	484	consensus Predicted RNA-binding protein [General f	95.96
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.9
KOG4210	285	consensus Nuclear localization sequence binding pr	95.87
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	95.79
KOG3152	278	consensus TBP-binding protein, activator of basal	95.67
KOG1855	484	consensus Predicted RNA-binding protein [General f	95.65
KOG2314	698	consensus Translation initiation factor 3, subunit	95.58
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	95.19
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	95.18
KOG2314	698	consensus Translation initiation factor 3, subunit	94.56
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	94.35
KOG1995	351	consensus Conserved Zn-finger protein [General fun	94.17
KOG2253	668	consensus U1 snRNP complex, subunit SNU71 and rela	93.76
KOG1996	378	consensus mRNA splicing factor [RNA processing and	93.44
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	93.33
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	93.25
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	92.79
KOG2591	684	consensus c-Mpl binding protein, contains La domai	92.57
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	91.91
KOG0112	975	consensus Large RNA-binding protein (RRM superfami	91.71
KOG4849	498	consensus mRNA cleavage factor I subunit/CPSF subu	91.59
KOG2135	526	consensus Proteins containing the RNA recognition	91.45
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	91.45
COG5175	480	MOT2 Transcriptional repressor [Transcription]	91.44
PF07292	88	NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909	90.3
KOG3152	278	consensus TBP-binding protein, activator of basal	90.08
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	89.82
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	89.46
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	89.37
KOG0115	275	consensus RNA-binding protein p54nrb (RRM superfam	89.37
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	87.64
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	87.59
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	87.41
KOG4285	350	consensus Mitotic phosphoprotein [Cell cycle contr	86.54
KOG2416	718	consensus Acinus (induces apoptotic chromatin cond	86.14
KOG2591	684	consensus c-Mpl binding protein, contains La domai	83.71
KOG1996	378	consensus mRNA splicing factor [RNA processing and	83.41
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	83.19
KOG2068	327	consensus MOT2 transcription factor [Transcription	82.09

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

Probab=100.00  E-value=3.7e-38  Score=330.12  Aligned_cols=318  Identities=19%  Similarity=0.236  Sum_probs=235.4

Q ss_pred             hhhhHhhhhhhhcCCCCCCCCCCCCCCCcccccC-CCcccCCCccccccCCCCCC--------------CCCCCccChHH
Q 013726          104 ETMAVVESASQDSAVSSAGSIPASNGQDHPKQNG-GTMVMPLDQGLYNQNNQRSN--------------GGGDFKRDMRE  168 (437)
Q Consensus       104 ~~~av~~s~a~~~gv~ks~~~~~~~~~~~~k~~~-et~vi~~~~~~~~~~g~r~~--------------~~~~~~~~~~e  168 (437)
                      ..+||+.++|.++||.|+.++|++...++|++|+ ||+++++++.+|+.+|++-+              +..|+||..++
T Consensus       322 ~~~ava~~~a~k~~v~k~~i~d~~~~gsavr~al~etr~~~e~~~~~ee~gV~l~~F~~~~rs~~vil~kNlpa~t~~~e  401 (725)
T KOG0110|consen  322 GANAVAGILAQKLGVEKSRILDGSLSGSAVRLALGETRVVQEVRRFFEENGVKLDAFSQAERSDTVILVKNLPAGTLSEE  401 (725)
T ss_pred             cccHHHHHHHHHhCCeeeeeechhhcchHHHHHHHHhhhchhhhhhHHhhCcccccchhhhhhcceeeeccCccccccHH
Confidence            3579999999999999999999999888999996 99999999999999997433              23699999999


Q ss_pred             HHHHHHhcCCCCcccCCCCCCcCCCCC----CCCCCCCCCcc------------CCCCcccCCCCCCCC--CCCCcc---
Q 013726          169 LQELFSKLNPMAEEFVPPSLAKTNNNN----HGVNGFNGGFF------------ANNSLIFNNHNARNG--NVNANA---  227 (437)
Q Consensus       169 l~~~f~~~gp~~~~llPP~~~~~~~~~----~~~~~~~~~~~------------~~~~~l~~~~~~~~p--~~~~~~---  227 (437)
                      +.++|..||+..+++|||.|+.+++.+    +++.++..++|            +|...++.. +....  ..+...   
T Consensus       402 lt~~F~~fG~i~rvllp~~G~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~aP~dvf~~~-pka~~~~~e~~~~~ee  480 (725)
T KOG0110|consen  402 LTEAFLRFGEIGRVLLPPGGTGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEWAPEDVFTED-PKADDLSAESRSKMEE  480 (725)
T ss_pred             HHHHhhcccccceeecCcccceeeeeecCccchHHHHHHhchhhhccCccccccChhhhccCC-cccccccccccccccc
Confidence            999999999999999999999988833    45666666655            222333311 00000  000000   


Q ss_pred             cc--ccccCCCCCCCCCC---CCcchhhhhccCCcE-EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-----Cc
Q 013726          228 AV--RRKKSFGQGKRRMN---SRTSLAQREEIIRRT-VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-----VL  296 (437)
Q Consensus       228 ~~--~~~~~~~~g~r~~~---~~~~~~~~~~~~~rt-LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-----s~  296 (437)
                      ++  +.....++-..-..   ..............| |||.||++++|.++|...|...|.|.++.|...++.     ++
T Consensus       481 ~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSm  560 (725)
T KOG0110|consen  481 NPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSM  560 (725)
T ss_pred             CcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEecccccccccccc
Confidence            00  00000111000000   000011111222233 999999999999999999999999999988644422     68


Q ss_pred             eEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhh
Q 013726          297 RFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFE  375 (437)
Q Consensus       297 GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~  375 (437)
                      |||||+|.+.++|++|++ |+|+.++||.|.|..+... ...  +-.  .........++|.|+|||+.++..+|+.+|.
T Consensus       561 GfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k-~~~--~~g--K~~~~kk~~tKIlVRNipFeAt~rEVr~LF~  635 (725)
T KOG0110|consen  561 GFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENK-PAS--TVG--KKKSKKKKGTKILVRNIPFEATKREVRKLFT  635 (725)
T ss_pred             ceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCc-ccc--ccc--cccccccccceeeeeccchHHHHHHHHHHHh
Confidence            999999999999999999 9999999999999998711 111  111  1111122368999999999999999999999


Q ss_pred             hcCCceEEEEEeccCC--CcceEEEEEeCCHHHH---HHHHhhcCceeccCchhhhhhh
Q 013726          376 SVCGEVYRLRLLGDYH--HSTRIAFVEFVMVIAS---STLFIHTEFYILHNPSIAWLEE  429 (437)
Q Consensus       376 ~f~G~I~~v~i~kd~g--~srGfAFVeF~s~e~A---~kal~~~~~~~~~~~~i~~~~~  429 (437)
                      .| |+|.+|+|++..+  .++|||||+|.++++|   ..+|..||+|++|+ +|+||+.
T Consensus       636 aF-GqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrL-VLEwA~~  692 (725)
T KOG0110|consen  636 AF-GQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRL-VLEWAKS  692 (725)
T ss_pred             cc-cceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhh-heehhcc
Confidence            95 9999999999844  4799999999997655   67788999999999 9999974

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.95  E-value=1.6e-26  Score=234.59  Aligned_cols=164  Identities=21%  Similarity=0.342  Sum_probs=142.0

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .....++|||+|||+++|+++|+++|+.||.|++|+++.|+.+  ++|||||+|.++++|.+|++ |++..+.+++|+|.
T Consensus       103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~  182 (346)
T TIGR01659       103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS  182 (346)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence            4456789999999999999999999999999999999998765  68999999999999999998 99999999999999


Q ss_pred             ccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHH
Q 013726          329 PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIA  406 (437)
Q Consensus       329 ~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~  406 (437)
                      +++...              .....++|||+|||.++|+++|+++|++| |.|..|+|++|  +++++|||||+|.+.++
T Consensus       183 ~a~p~~--------------~~~~~~~lfV~nLp~~vtee~L~~~F~~f-G~V~~v~i~~d~~tg~~kG~aFV~F~~~e~  247 (346)
T TIGR01659       183 YARPGG--------------ESIKDTNLYVTNLPRTITDDQLDTIFGKY-GQIVQKNILRDKLTGTPRGVAFVRFNKREE  247 (346)
T ss_pred             cccccc--------------cccccceeEEeCCCCcccHHHHHHHHHhc-CCEEEEEEeecCCCCccceEEEEEECCHHH
Confidence            875211              01124689999999999999999999995 99999999988  67899999999999999


Q ss_pred             HHHHHhhcCceecc----Cchhhhhhhh
Q 013726          407 SSTLFIHTEFYILH----NPSIAWLEEF  430 (437)
Q Consensus       407 A~kal~~~~~~~~~----~~~i~~~~~~  430 (437)
                      |++|+...+...+.    ...|.||++.
T Consensus       248 A~~Ai~~lng~~~~g~~~~l~V~~a~~~  275 (346)
T TIGR01659       248 AQEAISALNNVIPEGGSQPLTVRLAEEH  275 (346)
T ss_pred             HHHHHHHhCCCccCCCceeEEEEECCcc
Confidence            99999887776543    2247777754

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

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

Probab=99.92  E-value=1e-24  Score=233.17  Aligned_cols=169  Identities=22%  Similarity=0.352  Sum_probs=140.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |||..++|+.|+|.+.
T Consensus       105 ~~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp  184 (612)
T TIGR01645       105 AIMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRP  184 (612)
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeeccc
Confidence            35678999999999999999999999999999999988755  69999999999999999999 9999999999999865


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASS  408 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~  408 (437)
                      ...... .+. ... ........++|||+|||+++++++|+++|++| |.|.+|+|.++  .++++|||||+|.+.++|.
T Consensus       185 ~~~p~a-~~~-~~~-~~~~~~~~~rLfVgnLp~~vteedLk~lFs~F-G~I~svrl~~D~~tgksKGfGFVeFe~~e~A~  260 (612)
T TIGR01645       185 SNMPQA-QPI-IDM-VQEEAKKFNRIYVASVHPDLSETDIKSVFEAF-GEIVKCQLARAPTGRGHKGYGFIEYNNLQSQS  260 (612)
T ss_pred             cccccc-ccc-ccc-ccccccccceEEeecCCCCCCHHHHHHHHhhc-CCeeEEEEEecCCCCCcCCeEEEEECCHHHHH
Confidence            322111 000 000 00112235799999999999999999999995 99999999998  4679999999999999999


Q ss_pred             HHHhhcCceeccCchhhh
Q 013726          409 TLFIHTEFYILHNPSIAW  426 (437)
Q Consensus       409 kal~~~~~~~~~~~~i~~  426 (437)
                      +|+..++.+.++...|.+
T Consensus       261 kAI~amNg~elgGr~LrV  278 (612)
T TIGR01645       261 EAIASMNLFDLGGQYLRV  278 (612)
T ss_pred             HHHHHhCCCeeCCeEEEE
Confidence            999999988776655543

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.

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.92  E-value=1.4e-24  Score=219.51  Aligned_cols=150  Identities=21%  Similarity=0.376  Sum_probs=132.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...+|||+|||+++|+++|+++|++||+|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |+|..+.|++|.|.+++
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~   81 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYAR   81 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeec
Confidence            3578999999999999999999999999999999998765  68999999999999999999 99999999999999874


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~k  409 (437)
                      ...              .....++|||+|||..+++++|+++|++| |.|..++++.+  .+.++|||||+|.+.++|++
T Consensus        82 ~~~--------------~~~~~~~l~v~~l~~~~~~~~l~~~f~~~-G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~  146 (352)
T TIGR01661        82 PSS--------------DSIKGANLYVSGLPKTMTQHELESIFSPF-GQIITSRILSDNVTGLSKGVGFIRFDKRDEADR  146 (352)
T ss_pred             ccc--------------cccccceEEECCccccCCHHHHHHHHhcc-CCEEEEEEEecCCCCCcCcEEEEEECCHHHHHH
Confidence            210              01234689999999999999999999995 99999999987  56799999999999999999


Q ss_pred             HHhhcCceec
Q 013726          410 LFIHTEFYIL  419 (437)
Q Consensus       410 al~~~~~~~~  419 (437)
                      |+...+....
T Consensus       147 ai~~l~g~~~  156 (352)
T TIGR01661       147 AIKTLNGTTP  156 (352)
T ss_pred             HHHHhCCCcc
Confidence            9877666544

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.92  E-value=9e-25  Score=220.92  Aligned_cols=168  Identities=20%  Similarity=0.320  Sum_probs=133.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~  329 (437)
                      ..++|||+|||..+++++|+++|++||.|..++++.+..+  ++|||||+|.+.++|.+|++ |+|..+.|  .+|.|.+
T Consensus        88 ~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~  167 (352)
T TIGR01661        88 KGANLYVSGLPKTMTQHELESIFSPFGQIITSRILSDNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKF  167 (352)
T ss_pred             ccceEEECCccccCCHHHHHHHHhccCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence            4568999999999999999999999999999999887643  68999999999999999999 99999877  5678877


Q ss_pred             cCCCCCCCCC------------CC------------------------CC------------------------CCh---
Q 013726          330 SKTAIAPVNP------------TF------------------------LP------------------------RTE---  346 (437)
Q Consensus       330 s~~~~~~~~~------------~~------------------------~p------------------------r~~---  346 (437)
                      +.........            ..                        .+                        ...   
T Consensus       168 a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  247 (352)
T TIGR01661       168 ANNPSSSNSKGLLSQLEAVQNPQTTRVPLSTILTAAGIGPMHHAAARFRPSAGDFTAVLAHQQQQHAVAQQHAAQRASPP  247 (352)
T ss_pred             CCCCCcCCchhcCchhhcccCcccCCCCccccccccCCCCccCcccccccCcchhhhhhhhhhhhcccccccccccCCCc
Confidence            6422200000            00                        00                        000   


Q ss_pred             --h-------------hhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHH
Q 013726          347 --D-------------EREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       347 --~-------------~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~k  409 (437)
                        .             .......+|||+|||+++++++|+++|++| |.|.+++|++|  ++.++|||||+|.+.++|.+
T Consensus       248 ~~~~~~~~~~~~~~~~~~~~~~~~lfV~NL~~~~~e~~L~~~F~~f-G~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~  326 (352)
T TIGR01661       248 ATDGQTAGLAAGAQIAASDGAGYCIFVYNLSPDTDETVLWQLFGPF-GAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAM  326 (352)
T ss_pred             cccccccccccCCCCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhC-CCeEEEEEeEcCCCCCccceEEEEECCHHHHHH
Confidence              0             001123379999999999999999999995 99999999998  67899999999999999999


Q ss_pred             HHhhcCceeccCch
Q 013726          410 LFIHTEFYILHNPS  423 (437)
Q Consensus       410 al~~~~~~~~~~~~  423 (437)
                      |+..++++.++...
T Consensus       327 Ai~~lnG~~~~gr~  340 (352)
T TIGR01661       327 AILSLNGYTLGNRV  340 (352)
T ss_pred             HHHHhCCCEECCeE
Confidence            99988887776654

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

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

Probab=99.92  E-value=9.4e-24  Score=221.19  Aligned_cols=175  Identities=23%  Similarity=0.304  Sum_probs=140.9

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      .+...++|||+|||..+++++|+++|+.||.|..|+++.++.+  ++|||||+|.+.++|.+||.|+|..+.|++|.|..
T Consensus        85 ~~~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g~~~~g~~i~v~~  164 (457)
T TIGR01622        85 AERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTGQMLLGRPIIVQS  164 (457)
T ss_pred             cccCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCCCEECCeeeEEee
Confidence            3456789999999999999999999999999999999988765  59999999999999999999999999999999987


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHH
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A  407 (437)
                      +.............  ........++|||+|||..+|+++|+++|++| |.|..|.++++  .|+++|||||+|.+.++|
T Consensus       165 ~~~~~~~~~~~~~~--~~~~~p~~~~l~v~nl~~~~te~~l~~~f~~~-G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A  241 (457)
T TIGR01622       165 SQAEKNRAAKAATH--QPGDIPNFLKLYVGNLHFNITEQELRQIFEPF-GDIEDVQLHRDPETGRSKGFGFIQFHDAEEA  241 (457)
T ss_pred             cchhhhhhhhcccc--cCCCCCCCCEEEEcCCCCCCCHHHHHHHHHhc-CCeEEEEEEEcCCCCccceEEEEEECCHHHH
Confidence            64321111000000  00001225899999999999999999999995 99999999987  457999999999999999


Q ss_pred             HHHHhhcCceeccCc--hhhhhhh
Q 013726          408 STLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       408 ~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      .+|+...+++.+...  .|.||.+
T Consensus       242 ~~A~~~l~g~~i~g~~i~v~~a~~  265 (457)
T TIGR01622       242 KEALEVMNGFELAGRPIKVGYAQD  265 (457)
T ss_pred             HHHHHhcCCcEECCEEEEEEEccC
Confidence            999876666544433  4667543

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

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

Probab=99.91  E-value=9.3e-24  Score=227.20  Aligned_cols=152  Identities=26%  Similarity=0.417  Sum_probs=134.0

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAI  334 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~  334 (437)
                      +|||+|||+++|+++|+++|++||.|.+|++++|..+  ++|||||+|.+.++|.+|++ +++..+.|+.|+|.++....
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~   81 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDP   81 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccc
Confidence            7999999999999999999999999999999998864  68999999999999999998 99999999999999875321


Q ss_pred             CCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhh
Q 013726          335 APVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       335 ~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                                  ..+....++|||+|||.++++++|+++|++| |.|.+|++..+ .|+++|||||+|.+.++|.+|+..
T Consensus        82 ------------~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~-G~i~~~~i~~~~~g~skg~afV~F~~~e~A~~Ai~~  148 (562)
T TIGR01628        82 ------------SLRRSGVGNIFVKNLDKSVDNKALFDTFSKF-GNILSCKVATDENGKSRGYGFVHFEKEESAKAAIQK  148 (562)
T ss_pred             ------------cccccCCCceEEcCCCccCCHHHHHHHHHhc-CCcceeEeeecCCCCcccEEEEEECCHHHHHHHHHH
Confidence                        1112234689999999999999999999995 99999999988 677999999999999999999987


Q ss_pred             cCceeccCc
Q 013726          414 TEFYILHNP  422 (437)
Q Consensus       414 ~~~~~~~~~  422 (437)
                      .+...++..
T Consensus       149 lng~~~~~~  157 (562)
T TIGR01628       149 VNGMLLNDK  157 (562)
T ss_pred             hcccEecCc
Confidence            776655443

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=99.89  E-value=5.1e-23  Score=196.02  Aligned_cols=160  Identities=23%  Similarity=0.350  Sum_probs=135.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      --+||+.|...++.+.|++.|.+||+|.++++++|.++  ++|||||.|...++|++||. |||..|++|.|+-.|+.+.
T Consensus        63 fhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRK  142 (321)
T KOG0148|consen   63 FHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRK  142 (321)
T ss_pred             eeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccC
Confidence            45999999999999999999999999999999999976  69999999999999999999 9999999999999998765


Q ss_pred             CCCCCCCCCCCChh--hhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHH
Q 013726          334 IAPVNPTFLPRTED--EREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       334 ~~~~~~~~~pr~~~--~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal  411 (437)
                      ....+.....-++-  ..+...++|||+||+.-+||++|++.|++| |+|..||+.++.|    ||||.|++.|+|.+|+
T Consensus       143 p~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr~~Fs~f-G~I~EVRvFk~qG----YaFVrF~tkEaAahAI  217 (321)
T KOG0148|consen  143 PSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMRQTFSPF-GPIQEVRVFKDQG----YAFVRFETKEAAAHAI  217 (321)
T ss_pred             ccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHHHhcccC-CcceEEEEecccc----eEEEEecchhhHHHHH
Confidence            43322211100000  114456899999999999999999999996 9999999999866    9999999999999998


Q ss_pred             hhcCceeccC
Q 013726          412 IHTEFYILHN  421 (437)
Q Consensus       412 ~~~~~~~~~~  421 (437)
                      .+++.--++-
T Consensus       218 v~mNntei~G  227 (321)
T KOG0148|consen  218 VQMNNTEIGG  227 (321)
T ss_pred             HHhcCceeCc
Confidence            8888754443

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

Probab=99.89  E-value=1.8e-22  Score=217.18  Aligned_cols=174  Identities=21%  Similarity=0.323  Sum_probs=139.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEee----eeeeEE
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLG----FYPVRV  327 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~----Gr~L~V  327 (437)
                      ...++|||+|||.++|+++|+++|+.||.|.++.+..+... ++|||||+|.+.++|.+|++ |+|..+.    |+.|.|
T Consensus       176 ~~~~~l~V~nl~~~~tee~L~~~F~~fG~i~~~~i~~~~~g~~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v  255 (562)
T TIGR01628       176 KKFTNLYVKNLDPSVNEDKLRELFAKFGEITSAAVMKDGSGRSRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYV  255 (562)
T ss_pred             cCCCeEEEeCCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEe
Confidence            34578999999999999999999999999999999888654 58999999999999999999 9999999    999999


Q ss_pred             eccCCCCCCCCC---CCCC-CChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeC
Q 013726          328 LPSKTAIAPVNP---TFLP-RTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFV  402 (437)
Q Consensus       328 ~~s~~~~~~~~~---~~~p-r~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~  402 (437)
                      .++.........   .+.. ..........++|||+||+.++|+++|+++|++| |.|.+|++..| .+.++|||||+|.
T Consensus       256 ~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~~~~~L~~~F~~~-G~i~~~~i~~d~~g~~~g~gfV~f~  334 (562)
T TIGR01628       256 GRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTVTDEKLRELFSEC-GEITSAKVMLDEKGVSRGFGFVCFS  334 (562)
T ss_pred             ecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCccCHHHHHHHHHhc-CCeEEEEEEECCCCCcCCeEEEEeC
Confidence            876432111000   0000 0001113345789999999999999999999995 99999999998 6789999999999


Q ss_pred             CHHHHHHHHhhcCceeccCch--hhhhh
Q 013726          403 MVIASSTLFIHTEFYILHNPS--IAWLE  428 (437)
Q Consensus       403 s~e~A~kal~~~~~~~~~~~~--i~~~~  428 (437)
                      +.++|.+|+...+...++...  |.||.
T Consensus       335 ~~~~A~~A~~~~~g~~~~gk~l~V~~a~  362 (562)
T TIGR01628       335 NPEEANRAVTEMHGRMLGGKPLYVALAQ  362 (562)
T ss_pred             CHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence            999999999877766555443  45544

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

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

Probab=99.88  E-value=1.7e-21  Score=206.61  Aligned_cols=164  Identities=21%  Similarity=0.218  Sum_probs=127.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcC------------CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGC------------GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTML  320 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~------------G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l  320 (437)
                      ....++|||+|||+.+|+++|+++|..+            +.|..+.+..    .+|||||+|.+.++|..||.|+|..+
T Consensus       172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~----~kg~afVeF~~~e~A~~Al~l~g~~~  247 (509)
T TIGR01642       172 TRQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINK----EKNFAFLEFRTVEEATFAMALDSIIY  247 (509)
T ss_pred             CccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECC----CCCEEEEEeCCHHHHhhhhcCCCeEe
Confidence            4466899999999999999999999864            3455555533    35899999999999999999999999


Q ss_pred             eeeeeEEeccCCCCCCCCCC-----CCCC----------ChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEE
Q 013726          321 GFYPVRVLPSKTAIAPVNPT-----FLPR----------TEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLR  385 (437)
Q Consensus       321 ~Gr~L~V~~s~~~~~~~~~~-----~~pr----------~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~  385 (437)
                      .|+.|.|.............     ..+.          .........++|||+|||..+|+++|+++|++| |.|..+.
T Consensus       248 ~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~-G~i~~~~  326 (509)
T TIGR01642       248 SNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYIGNLPLYLGEDQIKELLESF-GDLKAFN  326 (509)
T ss_pred             eCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEE
Confidence            99999998654322111000     0000          000112345799999999999999999999995 9999999


Q ss_pred             Eecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          386 LLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       386 i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++++  +|.++|||||+|.+.++|..|+...++..+..
T Consensus       327 ~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~  364 (509)
T TIGR01642       327 LIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGD  364 (509)
T ss_pred             EEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            9987  67799999999999999999987666554443

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

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

Probab=99.87  E-value=2.4e-21  Score=205.13  Aligned_cols=165  Identities=24%  Similarity=0.304  Sum_probs=133.1

Q ss_pred             cCCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+ .+|+++|+++|+.||.|.+|+++.++   +|||||+|.+.++|..|+. |||..+.|++|+|.+++
T Consensus       273 ~~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~---~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~  349 (481)
T TIGR01649       273 GPGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK---KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSK  349 (481)
T ss_pred             CCCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence            4568999999998 69999999999999999999998874   4899999999999999999 99999999999999876


Q ss_pred             CCCCCCCC------------CCCC----CChh-------hhcccccEEEEEcCCccCCHHHHHHHhhhcCCc--eEEEEE
Q 013726          332 TAIAPVNP------------TFLP----RTED-------EREMCARTIYCTNIDKKVTQADVKLFFESVCGE--VYRLRL  386 (437)
Q Consensus       332 ~~~~~~~~------------~~~p----r~~~-------~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~--I~~v~i  386 (437)
                      ........            .+..    +...       ....++.+|||+|||.++|+++|+++|+++ |.  |..+++
T Consensus       350 ~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~~ps~~L~v~NLp~~~tee~L~~lF~~~-G~~~i~~ik~  428 (481)
T TIGR01649       350 QQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQPPSATLHLSNIPLSVSEEDLKELFAEN-GVHKVKKFKF  428 (481)
T ss_pred             cccccCCCCCcCcCCCcccccccCCccccCCCcccccccccCCCCcEEEEecCCCCCCHHHHHHHHHhc-CCccceEEEE
Confidence            43211100            0000    0000       001245799999999999999999999995 98  888988


Q ss_pred             eccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          387 LGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       387 ~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ..+.+..+|+|||+|.+.++|.+|+...+.+.+..+
T Consensus       429 ~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~  464 (481)
T TIGR01649       429 FPKDNERSKMGLLEWESVEDAVEALIALNHHQLNEP  464 (481)
T ss_pred             ecCCCCcceeEEEEcCCHHHHHHHHHHhcCCccCCC
Confidence            765545689999999999999999998888766553

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).

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

Probab=99.87  E-value=7.7e-21  Score=201.67  Aligned_cols=170  Identities=15%  Similarity=0.176  Sum_probs=132.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||..+|+++|+++|+.||.|..+.++.++.+  ++|||||+|.+.++|..|+. |+|..++|+.|.|.++
T Consensus       293 ~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a  372 (509)
T TIGR01642       293 DSKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA  372 (509)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            35689999999999999999999999999999999988754  58999999999999999998 9999999999999987


Q ss_pred             CCCCCCCCCCCC---------CCC-h----hhhcccccEEEEEcCCccC----------CHHHHHHHhhhcCCceEEEEE
Q 013726          331 KTAIAPVNPTFL---------PRT-E----DEREMCARTIYCTNIDKKV----------TQADVKLFFESVCGEVYRLRL  386 (437)
Q Consensus       331 ~~~~~~~~~~~~---------pr~-~----~~~~~~~~tL~V~NLp~~v----------teedLrelF~~f~G~I~~v~i  386 (437)
                      ............         +.. .    .....++.+|+|.|+...-          ..++|+++|++| |.|..|.|
T Consensus       373 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~N~~~~~~l~~d~~~~~~~edl~~~f~~~-G~v~~v~i  451 (509)
T TIGR01642       373 CVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLTNLVTGDDLMDDEEYEEIYEDVKTEFSKY-GPLINIVI  451 (509)
T ss_pred             ccCCCCCCccccccccccccccccchhhhccccCCCceEEEeccCCchhHhcCcchHHHHHHHHHHHHHhc-CCeeEEEe
Confidence            543221111000         000 0    0012356789999996421          236899999995 99999999


Q ss_pred             eccC-----CCcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          387 LGDY-----HHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       387 ~kd~-----g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      +++.     +...|+|||+|.+.++|++|+..+++.......|
T Consensus       452 ~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v  494 (509)
T TIGR01642       452 PRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVV  494 (509)
T ss_pred             eccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEE
Confidence            9752     3367999999999999999999888766655443

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

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

Probab=99.86  E-value=1e-21  Score=177.80  Aligned_cols=157  Identities=25%  Similarity=0.334  Sum_probs=137.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...||||+||+..++++.|.++|-+.|+|.++++.+|+.+  .+||||++|.++|+|+-|++ ||...+-|++|+|..+.
T Consensus         8 qd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen    8 QDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             CCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            3479999999999999999999999999999999998865  59999999999999999999 99999999999999875


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEE-EEecc--CCCcceEEEEEeCCHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRL-RLLGD--YHHSTRIAFVEFVMVIASS  408 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v-~i~kd--~g~srGfAFVeF~s~e~A~  408 (437)
                      ..             ......+.+|||+||++.+++..|.+.|+.| |.|.+. .+.++  +|+++|||||.|.+.+.+.
T Consensus        88 ~~-------------~~nl~vganlfvgNLd~~vDe~~L~dtFsaf-G~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd  153 (203)
T KOG0131|consen   88 AH-------------QKNLDVGANLFVGNLDPEVDEKLLYDTFSAF-GVLISPPKIMRDPDTGNPKGFGFINYASFEASD  153 (203)
T ss_pred             cc-------------cccccccccccccccCcchhHHHHHHHHHhc-cccccCCcccccccCCCCCCCeEEechhHHHHH
Confidence            11             1112234799999999999999999999985 998874 56666  5789999999999999999


Q ss_pred             HHHhhcCceeccCchhh
Q 013726          409 TLFIHTEFYILHNPSIA  425 (437)
Q Consensus       409 kal~~~~~~~~~~~~i~  425 (437)
                      +|++.++..+++|+.|.
T Consensus       154 ~ai~s~ngq~l~nr~it  170 (203)
T KOG0131|consen  154 AAIGSMNGQYLCNRPIT  170 (203)
T ss_pred             HHHHHhccchhcCCceE
Confidence            99999999999988653

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

Probab=99.86  E-value=3e-21  Score=194.38  Aligned_cols=157  Identities=22%  Similarity=0.260  Sum_probs=138.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEe-eeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTML-GFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l-~Gr~L~V~~s  330 (437)
                      ..+-||||.||.++.|++|..+|++.|+|-.+|++.|+.+  ++|||||.|.+++.|++|++ ||++.| .|+.|.|+.+
T Consensus        82 ~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S  161 (506)
T KOG0117|consen   82 RGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS  161 (506)
T ss_pred             CCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe
Confidence            3467999999999999999999999999999999999765  69999999999999999999 999988 5899999976


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEecc---CCCcceEEEEEeCCHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGD---YHHSTRIAFVEFVMVIA  406 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~kd---~g~srGfAFVeF~s~e~  406 (437)
                      .                    ..+.|||+|||.+.++++|.+.+++. + .|..|.+...   ..+.||||||+|.++.+
T Consensus       162 v--------------------an~RLFiG~IPK~k~keeIlee~~kV-teGVvdVivy~~p~dk~KNRGFaFveYe~H~~  220 (506)
T KOG0117|consen  162 V--------------------ANCRLFIGNIPKTKKKEEILEEMKKV-TEGVVDVIVYPSPDDKTKNRGFAFVEYESHRA  220 (506)
T ss_pred             e--------------------ecceeEeccCCccccHHHHHHHHHhh-CCCeeEEEEecCccccccccceEEEEeecchh
Confidence            4                    23799999999999999999999997 6 4778877765   45699999999999887


Q ss_pred             H----HHHHhhcCceeccCchhhhhhhhcC
Q 013726          407 S----STLFIHTEFYILHNPSIAWLEEFSG  432 (437)
Q Consensus       407 A----~kal~~~~~~~~~~~~i~~~~~~sg  432 (437)
                      |    ++++.+.-.++.|.+.+.||+.-++
T Consensus       221 Aa~aRrKl~~g~~klwgn~~tVdWAep~~e  250 (506)
T KOG0117|consen  221 AAMARRKLMPGKIKLWGNAITVDWAEPEEE  250 (506)
T ss_pred             HHHHHhhccCCceeecCCcceeeccCcccC
Confidence            7    5667777788999999999987654

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

Probab=99.86  E-value=1.2e-21  Score=196.49  Aligned_cols=152  Identities=22%  Similarity=0.308  Sum_probs=129.6

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeE-ee--eee
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTM-LG--FYP  324 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~-l~--Gr~  324 (437)
                      ..+.+.-.+||+.||..++|.||+++|++||.|.+|.+++|+.+  ++|||||.|.+.++|.+|+. |++.. |-  .++
T Consensus        29 ~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~p  108 (510)
T KOG0144|consen   29 NPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHP  108 (510)
T ss_pred             CCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCcc
Confidence            44566778999999999999999999999999999999999976  69999999999999999999 76654 43  358


Q ss_pred             eEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCC
Q 013726          325 VRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVM  403 (437)
Q Consensus       325 L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s  403 (437)
                      |.|+++..             +.++-...++|||+-|+..+||.+|+++|++| |.|+.|.|.+| .+.+||+|||.|.+
T Consensus       109 vqvk~Ad~-------------E~er~~~e~KLFvg~lsK~~te~evr~iFs~f-G~Ied~~ilrd~~~~sRGcaFV~fst  174 (510)
T KOG0144|consen  109 VQVKYADG-------------ERERIVEERKLFVGMLSKQCTENEVREIFSRF-GHIEDCYILRDPDGLSRGCAFVKFST  174 (510)
T ss_pred             eeecccch-------------hhhccccchhhhhhhccccccHHHHHHHHHhh-CccchhhheecccccccceeEEEEeh
Confidence            88888752             11222235899999999999999999999996 99999999999 67799999999999


Q ss_pred             HHHHHHHHhhcCc
Q 013726          404 VIASSTLFIHTEF  416 (437)
Q Consensus       404 ~e~A~kal~~~~~  416 (437)
                      .+.|..|+...|.
T Consensus       175 ke~A~~Aika~ng  187 (510)
T KOG0144|consen  175 KEMAVAAIKALNG  187 (510)
T ss_pred             HHHHHHHHHhhcc
Confidence            9988766665554

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

Probab=99.85  E-value=3.3e-21  Score=182.70  Aligned_cols=149  Identities=21%  Similarity=0.390  Sum_probs=132.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ++..+.|.|.-||.++|+++++.+|.+.|+|++|++++|+-+  +.|||||.|.++++|++|+. |||..+..+.|+|.+
T Consensus        38 ~~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSy  117 (360)
T KOG0145|consen   38 DESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSY  117 (360)
T ss_pred             CcccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcceeeccceEEEEe
Confidence            456678999999999999999999999999999999999966  69999999999999999999 999999999999999


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHH
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A  407 (437)
                      ++..           .   .......|||.+||.++|+++|.++|++| |.|..-+|+.|  +|-+||.|||.|+-.++|
T Consensus       118 ARPS-----------s---~~Ik~aNLYvSGlPktMtqkelE~iFs~f-GrIItSRiL~dqvtg~srGVgFiRFDKr~EA  182 (360)
T KOG0145|consen  118 ARPS-----------S---DSIKDANLYVSGLPKTMTQKELEQIFSPF-GRIITSRILVDQVTGLSRGVGFIRFDKRIEA  182 (360)
T ss_pred             ccCC-----------h---hhhcccceEEecCCccchHHHHHHHHHHh-hhhhhhhhhhhcccceecceeEEEecchhHH
Confidence            8621           1   12234799999999999999999999996 99999999998  677999999999999999


Q ss_pred             HHHHhhcCc
Q 013726          408 STLFIHTEF  416 (437)
Q Consensus       408 ~kal~~~~~  416 (437)
                      ..|+...++
T Consensus       183 e~AIk~lNG  191 (360)
T KOG0145|consen  183 EEAIKGLNG  191 (360)
T ss_pred             HHHHHhccC
Confidence            887766554

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

Probab=99.85  E-value=6.3e-21  Score=203.78  Aligned_cols=156  Identities=21%  Similarity=0.238  Sum_probs=126.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEee-eeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLG-FYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~-Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.|... ++|||||+|.+.++|++||+ ||+..+. |+.|.|..+
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG~sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S  135 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSGQNRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCIS  135 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCCCccceEEEEeCCHHHHHHHHHHcCCCeecCCcccccccc
Confidence            34589999999999999999999999999999999988533 69999999999999999999 9999885 777777654


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEec---cCCCcceEEEEEeCCHHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG---DYHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~k---d~g~srGfAFVeF~s~e~A  407 (437)
                      .                    ..++|||+|||.++|+++|.+.|++++..+..+.+..   +.++++|||||+|.+.++|
T Consensus       136 ~--------------------~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edA  195 (578)
T TIGR01648       136 V--------------------DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAA  195 (578)
T ss_pred             c--------------------cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHH
Confidence            2                    1379999999999999999999999633455554432   2456899999999999999


Q ss_pred             HHHHhhcC--c--eeccCchhhhhhh
Q 013726          408 STLFIHTE--F--YILHNPSIAWLEE  429 (437)
Q Consensus       408 ~kal~~~~--~--~~~~~~~i~~~~~  429 (437)
                      .+|+....  .  +..+...+.|++.
T Consensus       196 a~AirkL~~gki~l~Gr~I~VdwA~p  221 (578)
T TIGR01648       196 AMARRKLMPGRIQLWGHVIAVDWAEP  221 (578)
T ss_pred             HHHHHHhhccceEecCceEEEEeecc
Confidence            88765432  1  2334445778764

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.

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

Probab=99.85  E-value=2e-20  Score=198.24  Aligned_cols=155  Identities=20%  Similarity=0.153  Sum_probs=125.1

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h--cCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L--AGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l--ng~~l~Gr~L~V~~s~~  332 (437)
                      +++|||+|||+++|+++|+++|++||.|.+|.++.+    +|||||+|.+.++|.+|++ +  ++..++|++|.|.++..
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~----k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~   77 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG----KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTS   77 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC----CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCC
Confidence            589999999999999999999999999999999864    4799999999999999998 4  78899999999999853


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHh
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~  412 (437)
                      ........ . ...........+|+|+||++.+|+++|+++|++| |.|.+|.+.++.+  +|+|||+|.+.++|.+|+.
T Consensus        78 ~~~~~~~~-~-~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~F~~~-G~V~~v~i~~~~~--~~~afVef~~~~~A~~A~~  152 (481)
T TIGR01649        78 QEIKRDGN-S-DFDSAGPNKVLRVIVENPMYPITLDVLYQIFNPY-GKVLRIVTFTKNN--VFQALVEFESVNSAQHAKA  152 (481)
T ss_pred             cccccCCC-C-cccCCCCCceEEEEEcCCCCCCCHHHHHHHHhcc-CCEEEEEEEecCC--ceEEEEEECCHHHHHHHHH
Confidence            22111100 0 0000011233589999999999999999999995 9999999987654  5799999999999999987


Q ss_pred             hcCceec
Q 013726          413 HTEFYIL  419 (437)
Q Consensus       413 ~~~~~~~  419 (437)
                      ..++..+
T Consensus       153 ~Lng~~i  159 (481)
T TIGR01649       153 ALNGADI  159 (481)
T ss_pred             HhcCCcc
Confidence            6666543

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).

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

Probab=99.84  E-value=9.2e-20  Score=187.21  Aligned_cols=159  Identities=22%  Similarity=0.287  Sum_probs=129.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCC-ceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV-LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s-~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..-.|.|+|||+.+.+.+|+.+|+.||.|..|.|++.+.+. .|||||.|....+|..|++ +|+..|+|++|-|.|+-.
T Consensus       116 ~k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~  195 (678)
T KOG0127|consen  116 PKWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVD  195 (678)
T ss_pred             ccceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeecc
Confidence            36789999999999999999999999999999998766553 7999999999999999999 999999999999999632


Q ss_pred             CCCC---------------------C-CCC--------------------CC-----------------------CCCh-
Q 013726          333 AIAP---------------------V-NPT--------------------FL-----------------------PRTE-  346 (437)
Q Consensus       333 ~~~~---------------------~-~~~--------------------~~-----------------------pr~~-  346 (437)
                      ...-                     . ...                    ..                       +... 
T Consensus       196 Kd~ye~ta~~~~~s~Kk~~~eEed~e~~~d~~~~~~~Ed~e~d~edeEe~D~~se~~ee~~~~Eee~~~vDd~e~S~~~~  275 (678)
T KOG0127|consen  196 KDTYEDTAHEEKQSLKKAVKEEEDKEADEDDGKDFDEEDGEEDSEDEEETDGNSEAFEEGEESEEEEDDVDDEESSGKKE  275 (678)
T ss_pred             cccccccchhhhhhhhhccchhhhcccccccccccchhcccccccccccccccchhhhccccccccccccccccccccCc
Confidence            1000                     0 000                    00                       0000 


Q ss_pred             ----------hhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhc
Q 013726          347 ----------DEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHT  414 (437)
Q Consensus       347 ----------~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~  414 (437)
                                .+......+|||+|||+++|+++|.+.|++| |+|.++.|+.+  +++++|-|||.|.+..+|+.++...
T Consensus       276 ~~k~~q~k~~~en~~~~~tVFvRNL~fD~tEEel~~~fskF-G~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~A  354 (678)
T KOG0127|consen  276 SDKKAQNKTTRENITEGKTVFVRNLPFDTTEEELKEHFSKF-GEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAA  354 (678)
T ss_pred             ccchhccccccccccccceEEEecCCccccHHHHHHHHHhh-ccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhc
Confidence                      0001123699999999999999999999996 99999999887  7889999999999999999888776

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

Probab=99.81  E-value=1.4e-19  Score=185.04  Aligned_cols=143  Identities=23%  Similarity=0.388  Sum_probs=130.5

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIA  335 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~  335 (437)
                      .+||||   +++|+..|.++|+.+|+|.++++++|. ++.|||||.|.++++|.+||. ||...+.|++|++.|+.+.. 
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-tslgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~-   76 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-TSLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDP-   76 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecC-CccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCC-
Confidence            368999   899999999999999999999999999 799999999999999999999 99999999999999985211 


Q ss_pred             CCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          336 PVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       336 ~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                                        ..|||+||++++|.++|.++|+.| |+|.+|++..+.+.++|| ||+|++.++|++++...+
T Consensus        77 ------------------~~~~i~nl~~~~~~~~~~d~f~~~-g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~n  136 (369)
T KOG0123|consen   77 ------------------SLVFIKNLDESIDNKSLYDTFSEF-GNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLN  136 (369)
T ss_pred             ------------------ceeeecCCCcccCcHHHHHHHHhh-cCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhc
Confidence                              229999999999999999999995 999999999995559999 999999999999999998


Q ss_pred             ceeccCchh
Q 013726          416 FYILHNPSI  424 (437)
Q Consensus       416 ~~~~~~~~i  424 (437)
                      +.+++...|
T Consensus       137 g~ll~~kki  145 (369)
T KOG0123|consen  137 GMLLNGKKI  145 (369)
T ss_pred             CcccCCCee
Confidence            877776543

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

Probab=99.81  E-value=6.4e-19  Score=188.46  Aligned_cols=160  Identities=18%  Similarity=0.171  Sum_probs=124.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCC-eeEEEEeeC---CCCCceEEEEEEcCHHHHHHHHH-hcC--eEeeeeeeEE
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQ-VVDCRICGD---PNSVLRFAFIEFTDEEGARAALN-LAG--TMLGFYPVRV  327 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~-I~~vri~~d---~~~s~GfaFVeF~~~e~A~~Al~-lng--~~l~Gr~L~V  327 (437)
                      ..++|||+|||.++|+++|.+.|+.++. +..+.+...   ...++|||||+|.+.++|..|++ |+.  ..+.|+.|.|
T Consensus       137 ~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~V  216 (578)
T TIGR01648       137 DNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAADKKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAV  216 (578)
T ss_pred             cCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccccCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEE
Confidence            4688999999999999999999999863 444444322   23468999999999999999998 643  4688999999


Q ss_pred             eccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcC--CceEEEEEeccCCCcceEEEEEeCCHH
Q 013726          328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVC--GEVYRLRLLGDYHHSTRIAFVEFVMVI  405 (437)
Q Consensus       328 ~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~--G~I~~v~i~kd~g~srGfAFVeF~s~e  405 (437)
                      .++.......         .+.....++|||+||+.++|+++|+++|++ |  |.|++|++++      +||||+|++.+
T Consensus       217 dwA~p~~~~d---------~~~~~~~k~LfVgNL~~~~tee~L~~~F~~-f~~G~I~rV~~~r------gfAFVeF~s~e  280 (578)
T TIGR01648       217 DWAEPEEEVD---------EDVMAKVKILYVRNLMTTTTEEIIEKSFSE-FKPGKVERVKKIR------DYAFVHFEDRE  280 (578)
T ss_pred             Eeeccccccc---------ccccccccEEEEeCCCCCCCHHHHHHHHHh-cCCCceEEEEeec------CeEEEEeCCHH
Confidence            9875321110         111223479999999999999999999998 8  9999998764      49999999999


Q ss_pred             HHHHHHhhcCceeccCc--hhhhhhhh
Q 013726          406 ASSTLFIHTEFYILHNP--SIAWLEEF  430 (437)
Q Consensus       406 ~A~kal~~~~~~~~~~~--~i~~~~~~  430 (437)
                      +|.+|+...+...+...  .|.||...
T Consensus       281 ~A~kAi~~lnG~~i~Gr~I~V~~Akp~  307 (578)
T TIGR01648       281 DAVKAMDELNGKELEGSEIEVTLAKPV  307 (578)
T ss_pred             HHHHHHHHhCCCEECCEEEEEEEccCC
Confidence            99999986665433332  58888654

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

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

Probab=99.81  E-value=2.2e-19  Score=184.44  Aligned_cols=171  Identities=20%  Similarity=0.253  Sum_probs=138.8

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..||||++||+.++.++|.++|+..|+|..|.++.++.+  .+|||||.|.-.|++++|++ ..+..+.|+.|.|..+..
T Consensus         5 g~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~~gs~~~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~   84 (678)
T KOG0127|consen    5 GATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTNKGSSEKRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKK   84 (678)
T ss_pred             CceEEEecCCCccchhHHHHhhhcccCcceeEEecCCCcccccCccceeeehHhHHHHHHHHhhcCcccceecccccccc
Confidence            379999999999999999999999999999999998876  59999999999999999999 999999999999988753


Q ss_pred             CCCCCCCC----------CCCCChhhh--cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEE
Q 013726          333 AIAPVNPT----------FLPRTEDER--EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFV  399 (437)
Q Consensus       333 ~~~~~~~~----------~~pr~~~~~--~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFV  399 (437)
                      -.......          .....+...  ......|+|+|||+.+.+.+|+.+|+.| |.|..|.||+. .|+-.|||||
T Consensus        85 R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNLPf~~k~~dLk~vFs~~-G~V~Ei~IP~k~dgklcGFaFV  163 (678)
T KOG0127|consen   85 RARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNLPFKCKKPDLKNVFSNF-GKVVEIVIPRKKDGKLCGFAFV  163 (678)
T ss_pred             cccchhcccccchhhhcccccCCcchhhccCccceEEeecCCcccCcHHHHHHHhhc-ceEEEEEcccCCCCCccceEEE
Confidence            22111000          000011111  2235799999999999999999999996 99999999988 5667799999


Q ss_pred             EeCCHHHHHHHHhhcCce-eccCc-hhhhh
Q 013726          400 EFVMVIASSTLFIHTEFY-ILHNP-SIAWL  427 (437)
Q Consensus       400 eF~s~e~A~kal~~~~~~-~~~~~-~i~~~  427 (437)
                      +|....+|.+|+..++.. +.+.| .+.||
T Consensus       164 ~fk~~~dA~~Al~~~N~~~i~gR~VAVDWA  193 (678)
T KOG0127|consen  164 QFKEKKDAEKALEFFNGNKIDGRPVAVDWA  193 (678)
T ss_pred             EEeeHHHHHHHHHhccCceecCceeEEeee
Confidence            999999999888877764 44444 36776

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

Probab=99.80  E-value=1.9e-18  Score=181.07  Aligned_cols=166  Identities=23%  Similarity=0.311  Sum_probs=129.7

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      .++|||+|||..+|+++|+++|+.||.|..|.+..++.+  ++|||||+|.+.++|.+|+. |+|..+.|++|.|.++..
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~~  265 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQD  265 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEccC
Confidence            689999999999999999999999999999999988765  58999999999999999999 999999999999999532


Q ss_pred             CCCCCC------------------------------------------CC------------------CCC---------
Q 013726          333 AIAPVN------------------------------------------PT------------------FLP---------  343 (437)
Q Consensus       333 ~~~~~~------------------------------------------~~------------------~~p---------  343 (437)
                      ......                                          +.                  ..+         
T Consensus       266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  345 (457)
T TIGR01622       266 STYLLDAANTFEDIDKQQQMGKNLNTEEREQLMEKLDRDDGDGGLLIPGTGSKIALMQKLQRDGIIDPNIPSRYATGALA  345 (457)
T ss_pred             CCccccchhhhccccccccCCcCCCccchHHHHHhhccCCCCccccCCCccchhhhhccccccccccccccccccccccc
Confidence            110000                                          00                  000         


Q ss_pred             -----CChhh--hcccccEEEEEcCCccCC----------HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHH
Q 013726          344 -----RTEDE--REMCARTIYCTNIDKKVT----------QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIA  406 (437)
Q Consensus       344 -----r~~~~--~~~~~~tL~V~NLp~~vt----------eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~  406 (437)
                           .....  ....+++|+|.||....+          .+||++.|++| |.|..|.+...  ...|++||+|.+.++
T Consensus       346 ~~~~~~~~~~~~~~~~~~~l~l~n~~~~~~~~~~~~~~~~~~dv~~e~~k~-G~v~~v~v~~~--~~~G~~fV~F~~~e~  422 (457)
T TIGR01622       346 IMARNSFVPSTNNNLATTCLVLSNMFDPATEEEPNFDNEILDDVKEECSKY-GGVVHIYVDTK--NSAGKIYLKFSSVDA  422 (457)
T ss_pred             cccCCCCCCcccCCCCCcEEEEecCCCCcccccchHHHHHHHHHHHHHHhc-CCeeEEEEeCC--CCceeEEEEECCHHH
Confidence                 00000  124567899999955544          37899999995 99999998743  457899999999999


Q ss_pred             HHHHHhhcCceeccCchh
Q 013726          407 SSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       407 A~kal~~~~~~~~~~~~i  424 (437)
                      |.+|+...++...+...|
T Consensus       423 A~~A~~~lnGr~f~gr~i  440 (457)
T TIGR01622       423 ALAAFQALNGRYFGGKMI  440 (457)
T ss_pred             HHHHHHHhcCcccCCeEE
Confidence            999988888766655443

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

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

Probab=99.79  E-value=2.3e-19  Score=176.72  Aligned_cols=162  Identities=23%  Similarity=0.388  Sum_probs=134.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .-+.||||.|.++..|+.|+..|..||+|+++.+..|+-+  .+|||||+|+-+|.|+-|++ |||..++||.|+|....
T Consensus       112 iMcRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs  191 (544)
T KOG0124|consen  112 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  191 (544)
T ss_pred             HhHheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence            4578999999999999999999999999999999988866  59999999999999999999 99999999999998642


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-C-CCcceEEEEEeCCHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-Y-HHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~-g~srGfAFVeF~s~e~A~k  409 (437)
                       ++....+..  ..-.+....-+.|||..+.++++++||+..|+.| |+|.+|.+-++ + +.++||+|++|.+..+-..
T Consensus       192 -NmpQAQpiI--D~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAF-G~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~e  267 (544)
T KOG0124|consen  192 -NMPQAQPII--DMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAF-GEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSE  267 (544)
T ss_pred             -CCcccchHH--HHHHHHHHhhheEEeeecCCCccHHHHHHHHHhh-cceeeEEeeccCCCCCccceeeEEeccccchHH
Confidence             111111110  0011223345799999999999999999999995 99999999998 3 4599999999999998888


Q ss_pred             HHhhcCceecc
Q 013726          410 LFIHTEFYILH  420 (437)
Q Consensus       410 al~~~~~~~~~  420 (437)
                      |++.++.+-++
T Consensus       268 AiasMNlFDLG  278 (544)
T KOG0124|consen  268 AIASMNLFDLG  278 (544)
T ss_pred             Hhhhcchhhcc
Confidence            88888876443

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

Probab=99.77  E-value=4.1e-18  Score=171.87  Aligned_cols=154  Identities=21%  Similarity=0.281  Sum_probs=127.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCC---CCCceEEEEEEcCHHHHHHHHH--hcCe-Eeeeeee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDP---NSVLRFAFIEFTDEEGARAALN--LAGT-MLGFYPV  325 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~---~~s~GfaFVeF~~~e~A~~Al~--lng~-~l~Gr~L  325 (437)
                      ..+.+.|||||||.+.++++|.+.|++.+ .|+.|.+...+   ..++|||||+|.+...|..|-+  +++. .+.|+.+
T Consensus       161 Svan~RLFiG~IPK~k~keeIlee~~kVteGVvdVivy~~p~dk~KNRGFaFveYe~H~~Aa~aRrKl~~g~~klwgn~~  240 (506)
T KOG0117|consen  161 SVANCRLFIGNIPKTKKKEEILEEMKKVTEGVVDVIVYPSPDDKTKNRGFAFVEYESHRAAAMARRKLMPGKIKLWGNAI  240 (506)
T ss_pred             eeecceeEeccCCccccHHHHHHHHHhhCCCeeEEEEecCccccccccceEEEEeecchhHHHHHhhccCCceeecCCcc
Confidence            45678899999999999999999999887 46777775444   3479999999999999999976  5554 5899999


Q ss_pred             EEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHH
Q 013726          326 RVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVI  405 (437)
Q Consensus       326 ~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e  405 (437)
                      .|.|+.....+.        + +.....+.|||+||+.++|+|.|+++|++| |.|++|+.++|      ||||+|.+.+
T Consensus       241 tVdWAep~~e~d--------e-d~ms~VKvLYVRNL~~~tTeE~lk~~F~~~-G~veRVkk~rD------YaFVHf~eR~  304 (506)
T KOG0117|consen  241 TVDWAEPEEEPD--------E-DTMSKVKVLYVRNLMESTTEETLKKLFNEF-GKVERVKKPRD------YAFVHFAERE  304 (506)
T ss_pred             eeeccCcccCCC--------h-hhhhheeeeeeeccchhhhHHHHHHHHHhc-cceEEeecccc------eeEEeecchH
Confidence            999986322211        1 124456799999999999999999999996 99999999876      9999999999


Q ss_pred             HHHHHHhhcCceeccCc
Q 013726          406 ASSTLFIHTEFYILHNP  422 (437)
Q Consensus       406 ~A~kal~~~~~~~~~~~  422 (437)
                      +|.+|+..++.+-+.-.
T Consensus       305 davkAm~~~ngkeldG~  321 (506)
T KOG0117|consen  305 DAVKAMKETNGKELDGS  321 (506)
T ss_pred             HHHHHHHHhcCceecCc
Confidence            99999999998766543

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

Probab=99.76  E-value=5.4e-18  Score=173.47  Aligned_cols=155  Identities=20%  Similarity=0.343  Sum_probs=134.6

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCCC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAP  336 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~  336 (437)
                      .|||.||+++++..+|.++|+.||.|++|++..+.+.++|| ||+|.++++|.+|++ +||..+.|++|.|.........
T Consensus        78 ~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er  156 (369)
T KOG0123|consen   78 LVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGSKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEER  156 (369)
T ss_pred             eeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhh
Confidence            39999999999999999999999999999999999999999 999999999999999 9999999999999886532222


Q ss_pred             CCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          337 VNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       337 ~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      ..+...      .....+.++++|++.+.+++.|.++|+.+ |.|.++.++.+ .++++||+||.|.++++|..++...+
T Consensus       157 ~~~~~~------~~~~~t~v~vk~~~~~~~~~~l~~~f~~~-g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~  229 (369)
T KOG0123|consen  157 EAPLGE------YKKRFTNVYVKNLEEDSTDEELKDLFSAY-GSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLN  229 (369)
T ss_pred             cccccc------hhhhhhhhheeccccccchHHHHHhhccc-CcceEEEEeecCCCCCCCccceeecChhHHHHHHHhcc
Confidence            211111      23345789999999999999999999995 99999999998 67799999999999999999988877


Q ss_pred             ceecc
Q 013726          416 FYILH  420 (437)
Q Consensus       416 ~~~~~  420 (437)
                      .-...
T Consensus       230 ~~~~~  234 (369)
T KOG0123|consen  230 GKIFG  234 (369)
T ss_pred             CCcCC
Confidence            65443

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

Probab=99.75  E-value=7.4e-18  Score=160.06  Aligned_cols=171  Identities=20%  Similarity=0.300  Sum_probs=139.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeee--eeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFY--PVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr--~L~V~  328 (437)
                      .....|||.+||..+|..||..+|++||.|..-++..|..+  ++|.|||.|...++|+.|++ |||..--|.  +|.|+
T Consensus       125 Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVK  204 (360)
T KOG0145|consen  125 IKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVK  204 (360)
T ss_pred             hcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEE
Confidence            34567999999999999999999999999998888887765  69999999999999999999 999987665  78998


Q ss_pred             ccCCCCCCCCCC--------------------------------------CCCCChh-----------hhcccccEEEEE
Q 013726          329 PSKTAIAPVNPT--------------------------------------FLPRTED-----------EREMCARTIYCT  359 (437)
Q Consensus       329 ~s~~~~~~~~~~--------------------------------------~~pr~~~-----------~~~~~~~tL~V~  359 (437)
                      ++..........                                      +.|-..+           .......+|||-
T Consensus       205 FannPsq~t~~a~ls~ly~sp~rr~~Gp~hh~~~r~r~~~~~~~~~~~~rfsP~~~d~m~~l~~~~lp~~~~~g~ciFvY  284 (360)
T KOG0145|consen  205 FANNPSQKTNQALLSQLYQSPARRYGGPMHHQAQRFRLDNLLNPHAAQARFSPMTIDGMSGLAGVNLPGGPGGGWCIFVY  284 (360)
T ss_pred             ecCCcccccchhhhHHhhcCccccCCCcccchhhhhccccccchhhhhccCCCccccccceeeeeccCCCCCCeeEEEEE
Confidence            875432111000                                      0110000           012235689999


Q ss_pred             cCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhh
Q 013726          360 NIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIA  425 (437)
Q Consensus       360 NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~  425 (437)
                      ||.++.+|.-|+++|.+| |.|.+|++++|  +++.+|||||...+.++|.-|+...++|.+.+.+++
T Consensus       285 NLspd~de~~LWQlFgpF-GAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQ  351 (360)
T KOG0145|consen  285 NLSPDADESILWQLFGPF-GAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQ  351 (360)
T ss_pred             ecCCCchHhHHHHHhCcc-cceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcCccccceEEE
Confidence            999999999999999996 99999999999  467999999999999999999999999999887664

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

Probab=99.73  E-value=7.3e-18  Score=162.33  Aligned_cols=126  Identities=25%  Similarity=0.438  Sum_probs=115.1

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIA  335 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~  335 (437)
                      -.|||||||.++++.+|+.+|++||.|.+|.|+.+      ||||..++...|..|+. |+|..|+|..|+|+.++..  
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN------YgFVHiEdktaaedairNLhgYtLhg~nInVeaSksK--   74 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN------YGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSK--   74 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc------cceEEeecccccHHHHhhcccceecceEEEEEecccc--
Confidence            35899999999999999999999999999999854      99999999999999999 9999999999999987621  


Q ss_pred             CCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHH
Q 013726          336 PVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       336 ~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal  411 (437)
                                    +..+++|+|+||.+.++.++|+..|+++ |.|..|+|.+|      |+||+|+-.++|..|+
T Consensus        75 --------------sk~stkl~vgNis~tctn~ElRa~fe~y-gpviecdivkd------y~fvh~d~~eda~~ai  129 (346)
T KOG0109|consen   75 --------------SKASTKLHVGNISPTCTNQELRAKFEKY-GPVIECDIVKD------YAFVHFDRAEDAVEAI  129 (346)
T ss_pred             --------------CCCccccccCCCCccccCHHHhhhhccc-CCceeeeeecc------eeEEEEeeccchHHHH
Confidence                          2345899999999999999999999995 99999999875      9999999999986665

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

Probab=99.70  E-value=9.7e-18  Score=173.07  Aligned_cols=173  Identities=26%  Similarity=0.333  Sum_probs=142.3

Q ss_pred             hhhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEE
Q 013726          250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV  327 (437)
Q Consensus       250 ~~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V  327 (437)
                      ..++.+.+|+|+-.|+..++..+|.++|+..|.|..|+++.|..+  ++|.|||+|.+.+++..|+.|.|..+.|.+|.|
T Consensus       173 ~~eERd~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsGqrllg~pv~v  252 (549)
T KOG0147|consen  173 SPEERDQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSGQRLLGVPVIV  252 (549)
T ss_pred             CchHHhHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcCCcccCceeEe
Confidence            356778899999999999999999999999999999999999876  699999999999999999999999999999999


Q ss_pred             eccCCCCCCCCCCCCCCCh-hhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCH
Q 013726          328 LPSKTAIAPVNPTFLPRTE-DEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMV  404 (437)
Q Consensus       328 ~~s~~~~~~~~~~~~pr~~-~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~  404 (437)
                      +.+.......... .+... .....+...|||+||.+.+++++|+.+|++| |.|..|.+.+|  +|.++|||||+|.+.
T Consensus       253 q~sEaeknr~a~~-s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~ifepf-g~Ie~v~l~~d~~tG~skgfGfi~f~~~  330 (549)
T KOG0147|consen  253 QLSEAEKNRAANA-SPALQGKGFTGPMRRLYVGNLHFNITEDMLRGIFEPF-GKIENVQLTKDSETGRSKGFGFITFVNK  330 (549)
T ss_pred             cccHHHHHHHHhc-cccccccccccchhhhhhcccccCchHHHHhhhccCc-ccceeeeeccccccccccCcceEEEecH
Confidence            9865322111000 00000 0111222349999999999999999999996 99999999999  788999999999999


Q ss_pred             HHHHHHHhhcCceeccCchh
Q 013726          405 IASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       405 e~A~kal~~~~~~~~~~~~i  424 (437)
                      ++|++|+...+++.+--..|
T Consensus       331 ~~ar~a~e~lngfelAGr~i  350 (549)
T KOG0147|consen  331 EDARKALEQLNGFELAGRLI  350 (549)
T ss_pred             HHHHHHHHHhccceecCceE
Confidence            99999988888776654433

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

Probab=99.64  E-value=4.7e-16  Score=154.95  Aligned_cols=153  Identities=22%  Similarity=0.351  Sum_probs=128.4

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      +.++|||++|++.++++.|++.|.+||.|..|.+++|+.+  ++||+||+|.+.+...+++......|+|+.|.+..+..
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~h~~dgr~ve~k~av~   84 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNARTHKLDGRSVEPKRAVS   84 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccccccCCccccceeccC
Confidence            6789999999999999999999999999999999999876  59999999999999999998777889999998887642


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC--CCcceEEEEEeCCHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY--HHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~--g~srGfAFVeF~s~e~A~ka  410 (437)
                      -.....        ........+|||++||.+++++++++.|++| |.|..+.+..|.  ..++||+||.|.+.+++.++
T Consensus        85 r~~~~~--------~~~~~~tkkiFvGG~~~~~~e~~~r~yfe~~-g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv  155 (311)
T KOG4205|consen   85 REDQTK--------VGRHLRTKKIFVGGLPPDTTEEDFKDYFEQF-GKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKV  155 (311)
T ss_pred             cccccc--------cccccceeEEEecCcCCCCchHHHhhhhhcc-ceeEeeEEeecccccccccceeeEecccccccee
Confidence            111110        0111245799999999999999999999996 999999999884  45999999999999999777


Q ss_pred             HhhcCc
Q 013726          411 FIHTEF  416 (437)
Q Consensus       411 l~~~~~  416 (437)
                      +..+-.
T Consensus       156 ~~~~f~  161 (311)
T KOG4205|consen  156 TLQKFH  161 (311)
T ss_pred             ccccee
Confidence            655443

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

Probab=99.63  E-value=2.4e-14  Score=153.84  Aligned_cols=77  Identities=21%  Similarity=0.412  Sum_probs=71.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++++++|+++|+.||.|.+|++.+++.+  ++|||||+|.+.++|.+|++ ||+..++|+.|+|.++.
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi  282 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCV  282 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecC
Confidence            4578999999999999999999999999999999998765  59999999999999999999 99999999999997754

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

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

Probab=99.60  E-value=3e-15  Score=143.20  Aligned_cols=131  Identities=21%  Similarity=0.281  Sum_probs=108.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      +...|||||+||+..+||+-|..+|.+.|+|.+|+++.|                                .++|.++..
T Consensus         3 ~~~prtlyvgnld~~vte~~i~~lf~qig~v~~~k~i~~--------------------------------e~~v~wa~~   50 (321)
T KOG0148|consen    3 SDEPRTLYVGNLDSTVTEDFIATLFNQIGSVTKTKVIFD--------------------------------ELKVNWATA   50 (321)
T ss_pred             CCCCceEEeeccChhhHHHHHHHHHHhccccccceeehh--------------------------------hhccccccC
Confidence            346799999999999999999999999999999999865                                455666543


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~ka  410 (437)
                      ......+.         ....--+||+.|..+++-++|++.|.+| |+|..++|++|  +++++|||||.|-+.++|+.|
T Consensus        51 p~nQsk~t---------~~~hfhvfvgdls~eI~~e~lr~aF~pF-GevS~akvirD~~T~KsKGYgFVSf~~k~dAEnA  120 (321)
T KOG0148|consen   51 PGNQSKPT---------SNQHFHVFVGDLSPEIDNEKLREAFAPF-GEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENA  120 (321)
T ss_pred             cccCCCCc---------cccceeEEehhcchhcchHHHHHHhccc-cccccceEeecccCCcccceeEEeccchHHHHHH
Confidence            21111110         1113579999999999999999999996 99999999999  778999999999999999999


Q ss_pred             HhhcCceeccCchhh
Q 013726          411 FIHTEFYILHNPSIA  425 (437)
Q Consensus       411 l~~~~~~~~~~~~i~  425 (437)
                      +.++++-++..+.|.
T Consensus       121 I~~MnGqWlG~R~IR  135 (321)
T KOG0148|consen  121 IQQMNGQWLGRRTIR  135 (321)
T ss_pred             HHHhCCeeeccceee
Confidence            999999888777664

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

Probab=99.59  E-value=2.5e-15  Score=151.30  Aligned_cols=79  Identities=32%  Similarity=0.515  Sum_probs=71.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeE-eeee--eeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTM-LGFY--PVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~-l~Gr--~L~V~  328 (437)
                      .+.+.|||+-|+..+||.+++++|++||.|++|+|.+|+.. ++|||||.|.+.|-|..|++ |||.. +.|.  +|.|+
T Consensus       122 ~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVk  201 (510)
T KOG0144|consen  122 VEERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVK  201 (510)
T ss_pred             ccchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEE
Confidence            34688999999999999999999999999999999998865 89999999999999999999 99875 6665  78998


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      ++.+
T Consensus       202 FADt  205 (510)
T KOG0144|consen  202 FADT  205 (510)
T ss_pred             eccc
Confidence            8753

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

Probab=99.58  E-value=3e-14  Score=129.82  Aligned_cols=152  Identities=18%  Similarity=0.261  Sum_probs=119.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      ..++|||+|||.++.+.+|.++|.+||.|..|.+...+ ....||||+|+++-+|+.|+. -+|..++|+.|.|+..+..
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~-g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprgg   83 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRP-GPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGG   83 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccCC-CCCCeeEEEecCccchhhhhhcccccccCcceEEEEeccCC
Confidence            46889999999999999999999999999999885432 346799999999999999999 9999999999999998754


Q ss_pred             CCCCCCC--CC--------C--CChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEe
Q 013726          334 IAPVNPT--FL--------P--RTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF  401 (437)
Q Consensus       334 ~~~~~~~--~~--------p--r~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF  401 (437)
                      .......  +.        .  +.-.........|.|.+||.+.+.+||+++..+. |.|-...+.+|     |++.|+|
T Consensus        84 r~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp~SgSWQDLKDHmRea-GdvCfadv~rD-----g~GvV~~  157 (241)
T KOG0105|consen   84 RSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLPPSGSWQDLKDHMREA-GDVCFADVQRD-----GVGVVEY  157 (241)
T ss_pred             CcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCCCCCchHHHHHHHHhh-CCeeeeeeecc-----cceeeee
Confidence            3111100  00        0  0000001123689999999999999999999996 99999988876     3788999


Q ss_pred             CCHHHHHHHHhh
Q 013726          402 VMVIASSTLFIH  413 (437)
Q Consensus       402 ~s~e~A~kal~~  413 (437)
                      ...|+-+.|+..
T Consensus       158 ~r~eDMkYAvr~  169 (241)
T KOG0105|consen  158 LRKEDMKYAVRK  169 (241)
T ss_pred             eehhhHHHHHHh
Confidence            888887666544

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

Probab=99.56  E-value=4.7e-14  Score=144.46  Aligned_cols=160  Identities=21%  Similarity=0.220  Sum_probs=125.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAI  334 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~~~  334 (437)
                      ...-|.+++||+++|++||.++|+.|+ |.++.+.+......|-|||+|.++|++.+|++.+...+..+-|.|-.+....
T Consensus         9 ~~~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r~~Gr~sGeA~Ve~~seedv~~AlkkdR~~mg~RYIEVf~~~~~e   87 (510)
T KOG4211|consen    9 TAFEVRLRGLPWSATEKEILDFFSNCG-IENLEIPRRNGRPSGEAYVEFTSEEDVEKALKKDRESMGHRYIEVFTAGGAE   87 (510)
T ss_pred             cceEEEecCCCccccHHHHHHHHhcCc-eeEEEEeccCCCcCcceEEEeechHHHHHHHHhhHHHhCCceEEEEccCCcc
Confidence            445688999999999999999999995 6777777765667899999999999999999999999999999998875332


Q ss_pred             CCCCCC-CCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEE--EEEecc-CCCcceEEEEEeCCHHHHHHH
Q 013726          335 APVNPT-FLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYR--LRLLGD-YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       335 ~~~~~~-~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--v~i~kd-~g~srGfAFVeF~s~e~A~ka  410 (437)
                      ...... ..++.    ......|.+++||+.+|++||.++|+..  +|..  +.++.+ .+++.|-|||+|++.+.|++|
T Consensus        88 ~d~~~~~~g~~s----~~~d~vVRLRGLPfscte~dI~~FFaGL--~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~A  161 (510)
T KOG4211|consen   88 ADWVMRPGGPNS----SANDGVVRLRGLPFSCTEEDIVEFFAGL--EIVPDGILLPMDQRGRPTGEAFVQFESQESAEIA  161 (510)
T ss_pred             ccccccCCCCCC----CCCCceEEecCCCccCcHHHHHHHhcCC--cccccceeeeccCCCCcccceEEEecCHHHHHHH
Confidence            211110 11111    1344689999999999999999999975  4444  345566 567999999999999999888


Q ss_pred             HhhcCceeccC
Q 013726          411 FIHTEFYILHN  421 (437)
Q Consensus       411 l~~~~~~~~~~  421 (437)
                      |......|.|.
T Consensus       162 l~rhre~iGhR  172 (510)
T KOG4211|consen  162 LGRHRENIGHR  172 (510)
T ss_pred             HHHHHHhhccc
Confidence            88777666665

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

Probab=99.50  E-value=1.4e-13  Score=123.53  Aligned_cols=79  Identities=25%  Similarity=0.480  Sum_probs=73.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|++|++ |++..|+|+.|+|.++
T Consensus        32 ~~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         32 LMSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            35678999999999999999999999999999999988765  59999999999999999998 9999999999999987


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       112 ~~  113 (144)
T PLN03134        112 ND  113 (144)
T ss_pred             Cc
Confidence            53

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

Probab=99.47  E-value=6.3e-13  Score=124.87  Aligned_cols=155  Identities=24%  Similarity=0.355  Sum_probs=120.4

Q ss_pred             cEEEEecCCccchHHHHHH----HHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAA----LFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~----~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .||||.||+..+..++|+.    +|++||.|..|.....+ ..+|-|||.|.+.+.|..|+. |+|..+-|++++|++++
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt~-KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA~   88 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKTP-KMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYAK   88 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCCC-CccCceEEEecChhHHHHHHHHhcCCcccCchhheeccc
Confidence            4999999999999999888    99999999998886443 258999999999999999999 99999999999999987


Q ss_pred             CCCCCCCC---CCCCCCh---------------------------------hhhcccccEEEEEcCCccCCHHHHHHHhh
Q 013726          332 TAIAPVNP---TFLPRTE---------------------------------DEREMCARTIYCTNIDKKVTQADVKLFFE  375 (437)
Q Consensus       332 ~~~~~~~~---~~~pr~~---------------------------------~~~~~~~~tL~V~NLp~~vteedLrelF~  375 (437)
                      ....-...   .+..+..                                 .....+..++++.|||.+++.+.+..+|+
T Consensus        89 s~sdii~~~~~~~v~~~~k~~~~~~~~~~~~~~~ng~~~~~~~~~~p~p~~~~~~ppn~ilf~~niP~es~~e~l~~lf~  168 (221)
T KOG4206|consen   89 SDSDIIAQAPGTFVEKEKKINGEILARIKQPLDTNGHFYNMNRMNLPPPFLAQMAPPNNILFLTNIPSESESEMLSDLFE  168 (221)
T ss_pred             CccchhhccCceeccccCccccccccccCCcccccccccccccccCCCCccccCCCCceEEEEecCCcchhHHHHHHHHh
Confidence            54221110   1100000                                 11134567899999999999999999999


Q ss_pred             hcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          376 SVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       376 ~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      +| .....++++...   .|.|||+|.+...|..|......
T Consensus       169 qf-~g~keir~i~~~---~~iAfve~~~d~~a~~a~~~lq~  205 (221)
T KOG4206|consen  169 QF-PGFKEIRLIPPR---SGIAFVEFLSDRQASAAQQALQG  205 (221)
T ss_pred             hC-cccceeEeccCC---CceeEEecchhhhhHHHhhhhcc
Confidence            95 888999887642   35999999998776555444443

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

Probab=99.47  E-value=5e-13  Score=127.85  Aligned_cols=167  Identities=20%  Similarity=0.343  Sum_probs=132.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeE-eee--eeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTM-LGF--YPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~-l~G--r~L~V~  328 (437)
                      .+.+.||||-|...-.|+|++.+|..||.|.+|.+.+.+.. ++|++||.|.+..+|..||. |+|.. +-|  ..|.|+
T Consensus        17 ~~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK   96 (371)
T KOG0146|consen   17 GDDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK   96 (371)
T ss_pred             ccchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence            35688999999999999999999999999999999988865 69999999999999999999 98865 333  356776


Q ss_pred             ccCCCCC-------------------------------------------------------------------------
Q 013726          329 PSKTAIA-------------------------------------------------------------------------  335 (437)
Q Consensus       329 ~s~~~~~-------------------------------------------------------------------------  335 (437)
                      ++.+...                                                                         
T Consensus        97 ~ADTdkER~lRRMQQma~qlGm~~Pl~l~~g~~~ay~qalmQqQa~~~at~~~~~L~p~~~~~~~~mQ~~aA~~angl~A  176 (371)
T KOG0146|consen   97 FADTDKERTLRRMQQMAGQLGMFNPLALPFGAYGAYAQALMQQQAALLATVAGPYLSPMAAFAAAQMQQMAALNANGLAA  176 (371)
T ss_pred             eccchHHHHHHHHHHHHHHhcccCccccccchhHHHHHHHHHHHHHHHHhhcccccChhhhhHHHHHHHHHHHhhccccc
Confidence            6543100                                                                         


Q ss_pred             ----CCC----CC------------------C---------------------------CCCChh---------------
Q 013726          336 ----PVN----PT------------------F---------------------------LPRTED---------------  347 (437)
Q Consensus       336 ----~~~----~~------------------~---------------------------~pr~~~---------------  347 (437)
                          +..    +.                  +                           .+...+               
T Consensus       177 ~Pv~p~s~~~~pp~~~a~~~~~~~A~~g~ng~~~l~~q~~gqpa~~~vy~ng~~pypaQsp~va~~lq~a~~g~~~Y~Aa  256 (371)
T KOG0146|consen  177 APVTPASGGSTPPGIGATAVPGIPAPIGVNGFTGLPPQPNGQPAAEAVYANGLHPYPAQSPTVADPLQQAYAGVQQYAAA  256 (371)
T ss_pred             CCcCccccCCCCCcccccccCCcccccccccccCCCCCCCCCcchhHHhhcCCccCCCCCccccchhhhhhhhHHHHhhh
Confidence                000    00                  0                           000000               


Q ss_pred             ----------------------h-hcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeC
Q 013726          348 ----------------------E-REMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFV  402 (437)
Q Consensus       348 ----------------------~-~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~  402 (437)
                                            . .....++|||-.||.+.++.+|...|-+| |.|.+.++..|  ++.++.|+||.|+
T Consensus       257 ypaays~v~~~~pq~p~~~~qqqreGPeGCNlFIYHLPQEFgDaEliQmF~PF-GhivSaKVFvDRATNQSKCFGFVSfD  335 (371)
T KOG0146|consen  257 YPAAYSPISQAFPQPPPLLPQQQREGPEGCNLFIYHLPQEFGDAELIQMFLPF-GHIVSAKVFVDRATNQSKCFGFVSFD  335 (371)
T ss_pred             cchhhhhhhhcCCCCcchhhhhhhcCCCcceEEEEeCchhhccHHHHHHhccc-cceeeeeeeehhccccccceeeEecC
Confidence                                  0 12346799999999999999999999996 99999999988  6779999999999


Q ss_pred             CHHHHHHHHhhcCceeccC
Q 013726          403 MVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       403 s~e~A~kal~~~~~~~~~~  421 (437)
                      ++.+|++++..++++.++-
T Consensus       336 Np~SaQaAIqAMNGFQIGM  354 (371)
T KOG0146|consen  336 NPASAQAAIQAMNGFQIGM  354 (371)
T ss_pred             CchhHHHHHHHhcchhhhh
Confidence            9999999999999886654

>PF00076 RRM_1: RNA recognition motif

Probab=99.43  E-value=5.8e-13  Score=102.63  Aligned_cols=68  Identities=31%  Similarity=0.550  Sum_probs=63.3

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeC-CCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD-PNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d-~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      |||+|||.++|+++|+++|++||.|..+.+..+ ....+|+|||+|.+.++|.+|++ |+|..++|+.|+
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 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            799999999999999999999999999999886 33469999999999999999999 999999999885

(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 ....

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

Probab=99.38  E-value=1.4e-11  Score=124.48  Aligned_cols=160  Identities=21%  Similarity=0.243  Sum_probs=126.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHh-cCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFV-GCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~-~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..|.+||.|||++...++|+++|. ..|+|..|.+..|... ++|+|.|||+++|.+++|++ ||.+.+.|++|.|+.-+
T Consensus        43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~  122 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH  122 (608)
T ss_pred             ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence            346799999999999999999998 5799999999988865 69999999999999999999 99999999999998754


Q ss_pred             CCCC-------------------------CCCC----------CCCCCChh-----------------------------
Q 013726          332 TAIA-------------------------PVNP----------TFLPRTED-----------------------------  347 (437)
Q Consensus       332 ~~~~-------------------------~~~~----------~~~pr~~~-----------------------------  347 (437)
                      ....                         ..+.          .+.+++.+                             
T Consensus       123 d~q~~~~~~~~r~g~~~f~~~~~~q~G~~~l~~~g~ggG~~~Rg~~~~D~Dr~sr~~~t~t~~~~~~~~~~~~lfgl~~~  202 (608)
T KOG4212|consen  123 DEQRDQYGRIVRDGGGGFGGGGGVQGGNGGLNGGGGGGGDRDRGFSRRDDDRLSRRNNTNTMSNDYNNSSNYNLFGLSAS  202 (608)
T ss_pred             chhhhhhhheeeccCcccccCcceecccccccccCCCCccccCCCCcccccccccccCccccccccccchhhhcccchhh
Confidence            3100                         0000          00011000                             


Q ss_pred             -h------hcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          348 -E------REMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       348 -~------~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                       .      ......++||.||.+.+..+.|++.|.- .|.|+.+.+-.| .|.++|||.++|..+-+|-.++...+
T Consensus       203 Flr~~h~f~pPl~~k~fvanl~~~vg~~kL~qvfgm-AGkv~~vdf~idKeG~s~G~~vi~y~hpveavqaIsml~  277 (608)
T KOG4212|consen  203 FLRSLHIFSPPLHNKVFVANLDYKVGNKKLKQVFGM-AGKVQSVDFSIDKEGNSRGFAVIEYDHPVEAVQAISMLD  277 (608)
T ss_pred             hhhhccCCCCCccceeeeeccccccchHHHHHHhcc-ceeeeeeceeeccccccCCeeEEEecchHHHHHHHHhhc
Confidence             0      0122458999999999999999999997 499999998777 67899999999999988866666555

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

Probab=99.37  E-value=8.7e-12  Score=117.70  Aligned_cols=155  Identities=26%  Similarity=0.320  Sum_probs=115.9

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC--CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN--SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~--~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      .++|||+|||..+|+++|+++|..||.|..+.+..++.  .++|||||+|.+.++|..|+. ++|..+.|+.|.|.+...
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~~  194 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQP  194 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecccc
Confidence            68999999999999999999999999999999998873  369999999999999999999 999999999999999542


Q ss_pred             --CCCCCCC-----C---CCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCC--CcceEEEEE
Q 013726          333 --AIAPVNP-----T---FLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH--HSTRIAFVE  400 (437)
Q Consensus       333 --~~~~~~~-----~---~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g--~srGfAFVe  400 (437)
                        .......     .   ...............+++.|++..++..++...|..+ |.+....+.....  ......++.
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~  273 (306)
T COG0724         195 ASQPRSELSNNLDASFAKKLSRGKALLLEKSDNLYVGNLPLKTAEEELADLFKSR-GDIVRASLPPSKDGKIPKSRSFVG  273 (306)
T ss_pred             ccccccccccccchhhhccccccccccccccceeeccccccccchhHHHHhcccc-ccceeeeccCCCCCcccccccccc
Confidence              1100000     0   0011112224456799999999999999999999985 9997776665422  233344444


Q ss_pred             eCCHHHHHHHH
Q 013726          401 FVMVIASSTLF  411 (437)
Q Consensus       401 F~s~e~A~kal  411 (437)
                      +.....+....
T Consensus       274 ~~~~~~~~~~~  284 (306)
T COG0724         274 NEASKDALESN  284 (306)
T ss_pred             hhHHHhhhhhh
Confidence            44444444433

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.36  E-value=1.6e-12  Score=132.47  Aligned_cols=78  Identities=26%  Similarity=0.409  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~  329 (437)
                      ..++|||+|||+.+|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |++..+.+  ++|.|.+
T Consensus       192 ~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~  271 (346)
T TIGR01659       192 KDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRL  271 (346)
T ss_pred             ccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEE
Confidence            4578999999999999999999999999999999988754  58999999999999999999 99999876  6888888


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus       272 a~~  274 (346)
T TIGR01659       272 AEE  274 (346)
T ss_pred             CCc
Confidence            753

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).

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.35  E-value=3.9e-12  Score=123.31  Aligned_cols=77  Identities=26%  Similarity=0.407  Sum_probs=71.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|++..++. ++|||||+|.++++|..||.|+|..|.|+.|.|.++..
T Consensus         3 ~~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~-~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          3 QVRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE-RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAED   79 (260)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC-CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccC
Confidence            357999999999999999999999999999999998864 46999999999999999999999999999999999764

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

Probab=99.35  E-value=1.5e-12  Score=112.41  Aligned_cols=81  Identities=30%  Similarity=0.398  Sum_probs=73.8

Q ss_pred             hhhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC--CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN--SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       250 ~~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~--~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      .+.-..++||||+||++.++|++|.++|+.||.|..|.+-.|+.  ++.|||||+|.+.++|..|++ ++|+.++.++|.
T Consensus        30 ~~a~r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir  109 (153)
T KOG0121|consen   30 LEALRKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIR  109 (153)
T ss_pred             HHHHhhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCccccccee
Confidence            34556789999999999999999999999999999998866664  479999999999999999999 999999999999


Q ss_pred             Eecc
Q 013726          327 VLPS  330 (437)
Q Consensus       327 V~~s  330 (437)
                      +.+-
T Consensus       110 ~D~D  113 (153)
T KOG0121|consen  110 IDWD  113 (153)
T ss_pred             eecc
Confidence            9884

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

Probab=99.34  E-value=2.5e-11  Score=113.78  Aligned_cols=164  Identities=18%  Similarity=0.209  Sum_probs=118.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC---CceEEEEEEcCHHHHHHHHH-hcCeEee---eeee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS---VLRFAFIEFTDEEGARAALN-LAGTMLG---FYPV  325 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~---s~GfaFVeF~~~e~A~~Al~-lng~~l~---Gr~L  325 (437)
                      ...-|||||.+||.++...+|..+|..|-..+.+.+....+.   -+-+||+.|.+...|.+|+. |||..++   +..|
T Consensus        31 ~~~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvrFDpE~~stL  110 (284)
T KOG1457|consen   31 PGAVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVRFDPETGSTL  110 (284)
T ss_pred             ccccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCeeeccccCcee
Confidence            345699999999999999999999999866666655433221   24699999999999999999 9999985   6678


Q ss_pred             EEeccCCCCCCCCCC--------------------C-------------------------------------------C
Q 013726          326 RVLPSKTAIAPVNPT--------------------F-------------------------------------------L  342 (437)
Q Consensus       326 ~V~~s~~~~~~~~~~--------------------~-------------------------------------------~  342 (437)
                      ++..++.+.....+.                    .                                           .
T Consensus       111 hiElAKSNtK~kr~k~sgtP~~s~al~~~~~~~~qr~sa~~qhd~~l~~p~~l~~~~~a~al~~~~~t~~~~l~a~~~~~  190 (284)
T KOG1457|consen  111 HIELAKSNTKRKRRKGSGTPGSSPALVIDNRNKEQRKSADDQHDEGLSDPDELQEPGNADALKENDTTKSEALSAPDSKA  190 (284)
T ss_pred             EeeehhcCcccccCCCCCCCCCCccccccccChhhcccchhhccccccCccccCCccccccCCCccccchhhhhhhhhcC
Confidence            887765432110000                    0                                           0


Q ss_pred             CCChh--h-------hcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          343 PRTED--E-------REMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       343 pr~~~--~-------~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      |....  +       ......||||.||..++||++|+.+|+.| -....++|....|.  ..||++|++.+.|..|+.+
T Consensus       191 P~a~a~l~ks~q~~~~~~acstlfianl~~~~~ed~l~~~~~~~-~gf~~l~~~~~~g~--~vaf~~~~~~~~at~am~~  267 (284)
T KOG1457|consen  191 PSANAHLEKSSQGGSGARACSTLFIANLGPNCTEDELKQLLSRY-PGFHILKIRARGGM--PVAFADFEEIEQATDAMNH  267 (284)
T ss_pred             CcccchhhhhhcccccchhhhhHhhhccCCCCCHHHHHHHHHhC-CCceEEEEecCCCc--ceEeecHHHHHHHHHHHHH
Confidence            00000  0       01123489999999999999999999996 66677777655453  3799999999999888877


Q ss_pred             cCceec
Q 013726          414 TEFYIL  419 (437)
Q Consensus       414 ~~~~~~  419 (437)
                      ..++++
T Consensus       268 lqg~~~  273 (284)
T KOG1457|consen  268 LQGNLL  273 (284)
T ss_pred             hhccee
Confidence            666543

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

Probab=99.30  E-value=8.1e-11  Score=116.35  Aligned_cols=165  Identities=18%  Similarity=0.248  Sum_probs=124.7

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCee--------EEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEe
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV--------DCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTML  320 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~--------~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l  320 (437)
                      .++...+.|||.|||.++|.+++.++|+.||.|.        .|++-++..+ -+|-|.|.|-..+++.-|++ |++..+
T Consensus       129 ~~~~~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~  208 (382)
T KOG1548|consen  129 PEPKVNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDEL  208 (382)
T ss_pred             cccccCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccc
Confidence            3455567799999999999999999999999875        3677676654 49999999999999999999 999999


Q ss_pred             eeeeeEEeccCCCCCCC----------CCC-------------CCCCC-hhhhcccccEEEEEcC----CccCC------
Q 013726          321 GFYPVRVLPSKTAIAPV----------NPT-------------FLPRT-EDEREMCARTIYCTNI----DKKVT------  366 (437)
Q Consensus       321 ~Gr~L~V~~s~~~~~~~----------~~~-------------~~pr~-~~~~~~~~~tL~V~NL----p~~vt------  366 (437)
                      .|+.|+|..++-.....          ...             +.|.. ...+....++|.++|+    .+..+      
T Consensus       209 rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk~r~~~tVi~kn~Ftp~~~~~~~~l~~d  288 (382)
T KOG1548|consen  209 RGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSKARADRTVILKNMFTPEDFEKNPDLLND  288 (382)
T ss_pred             cCcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCccccccccCCcEEEeeecCCHHHhccCHHHHHH
Confidence            99999998875321111          000             12222 1122445689999998    22334      


Q ss_pred             -HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          367 -QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       367 -eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                       ++||++-.++ ||.|.+|.|.-.  ++.|.+-|.|.+.++|..++..+++-.
T Consensus       289 lkedl~eec~K-~G~v~~vvv~d~--hPdGvvtV~f~n~eeA~~ciq~m~GR~  338 (382)
T KOG1548|consen  289 LKEDLTEECEK-FGQVRKVVVYDR--HPDGVVTVSFRNNEEADQCIQTMDGRW  338 (382)
T ss_pred             HHHHHHHHHHH-hCCcceEEEecc--CCCceeEEEeCChHHHHHHHHHhcCee
Confidence             4666777888 599999988643  467899999999999999888777643

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.30  E-value=1.2e-11  Score=96.23  Aligned_cols=68  Identities=35%  Similarity=0.568  Sum_probs=60.9

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      |||+|||+++++++|+++|+.+|.|..+++..++.. ++|+|||+|.+.++|.+|+. +++..++|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            799999999999999999999999999999987653 48999999999999999999 788999999874

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 ....

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

Probab=99.28  E-value=1.3e-11  Score=110.87  Aligned_cols=77  Identities=14%  Similarity=0.175  Sum_probs=65.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .+++|||+|||+++|+++|+++|++| |.|.+|++++|  +++++|||||+|++.++|++|+...+...+...  .|.|+
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~-G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHF-GDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-CCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            45799999999999999999999995 99999999988  578999999999999999999986655433333  46776


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      .+
T Consensus       112 ~~  113 (144)
T PLN03134        112 ND  113 (144)
T ss_pred             Cc
Confidence            54

>PLN03213 repressor of silencing 3; Provisional

Probab=99.28  E-value=3.5e-12  Score=130.49  Aligned_cols=77  Identities=17%  Similarity=0.207  Sum_probs=70.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCH--HHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDE--EGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~--e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      .....+||||||++.+|+++|+.+|..||.|.+|.|++  .+++|||||+|...  .++.+|+. |||..+.|+.|+|..
T Consensus         7 ~~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR--ETGRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNK   84 (759)
T PLN03213          7 GGGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR--TKGRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEK   84 (759)
T ss_pred             CCcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec--ccCCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEee
Confidence            34557899999999999999999999999999999994  34599999999987  78999999 999999999999998


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus        85 AK   86 (759)
T PLN03213         85 AK   86 (759)
T ss_pred             cc
Confidence            76

>PF00076 RRM_1: RNA recognition motif

Probab=99.28  E-value=1.3e-11  Score=95.00  Aligned_cols=68  Identities=21%  Similarity=0.348  Sum_probs=61.2

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      |||+|||.++|+++|+++|++| |.|..+.+..+ .+..+|+|||+|.+.++|++|+...+.+.+++..|
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~-g~i~~~~~~~~~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~i   69 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQF-GKIESIKVMRNSSGKSKGYAFVEFESEEDAEKALEELNGKKINGRKI   69 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTT-STEEEEEEEEETTSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHh-hhcccccccccccccccceEEEEEcCHHHHHHHHHHcCCCEECccCc
Confidence            7999999999999999999995 99999999996 77899999999999999999999888777666443

(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 ....

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

Probab=99.27  E-value=2.2e-11  Score=129.54  Aligned_cols=158  Identities=20%  Similarity=0.267  Sum_probs=120.9

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCce-EEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~G-faFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      .+...+.++|+|||..+..++|.++|..||+|..+-+.  +.   | -++|+|.++.+|..|++ |....+...++.+.+
T Consensus       381 ~~rs~~vil~kNlpa~t~~~elt~~F~~fG~i~rvllp--~~---G~~aiv~fl~p~eAr~Afrklaysr~k~~plyle~  455 (725)
T KOG0110|consen  381 AERSDTVILVKNLPAGTLSEELTEAFLRFGEIGRVLLP--PG---GTGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLEW  455 (725)
T ss_pred             hhhhcceeeeccCccccccHHHHHHhhcccccceeecC--cc---cceeeeeecCccchHHHHHHhchhhhccCcccccc
Confidence            34556789999999999999999999999999998443  32   3 49999999999999999 998888888888877


Q ss_pred             cCCCCCCCCCC-----CCC--------------------CChh-----------hhcccccEEEEEcCCccCCHHHHHHH
Q 013726          330 SKTAIAPVNPT-----FLP--------------------RTED-----------EREMCARTIYCTNIDKKVTQADVKLF  373 (437)
Q Consensus       330 s~~~~~~~~~~-----~~p--------------------r~~~-----------~~~~~~~tL~V~NLp~~vteedLrel  373 (437)
                      +...+-...+.     ..+                    .+.+           ......++|||+||+++.|.++|..+
T Consensus       456 aP~dvf~~~pka~~~~~e~~~~~ee~~~Er~s~~d~~v~eD~d~te~ss~a~~a~~~~~~t~lfvkNlnf~Tt~e~l~~~  535 (725)
T KOG0110|consen  456 APEDVFTEDPKADDLSAESRSKMEENPSERVSAEDGQVEEDKDPTEESSLARVAEDEETETKLFVKNLNFDTTLEDLEDL  535 (725)
T ss_pred             ChhhhccCCccccccccccccccccCcceecccccccccccCCccccccchhhhhccccchhhhhhcCCcccchhHHHHH
Confidence            64332220000     000                    0000           01122344999999999999999999


Q ss_pred             hhhcCCceEEEEEeccC-C--C--cceEEEEEeCCHHHHHHHHhhcC
Q 013726          374 FESVCGEVYRLRLLGDY-H--H--STRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       374 F~~f~G~I~~v~i~kd~-g--~--srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      |... |.|.++.|.+.. .  +  +.|||||+|.+.++|++|+..+.
T Consensus       536 F~k~-G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lq  581 (725)
T KOG0110|consen  536 FSKQ-GTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQ  581 (725)
T ss_pred             HHhc-CeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhc
Confidence            9995 999999998762 2  1  66999999999999999988865

>smart00362 RRM_2 RNA recognition motif

Probab=99.25  E-value=3.7e-11  Score=91.22  Aligned_cols=71  Identities=41%  Similarity=0.619  Sum_probs=65.7

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      +|||+|||..+++++|+++|.+||.|..+.+..++..++|+|||+|.+.++|.+|+. +++..+.|+.|.|.
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            589999999999999999999999999999988775568999999999999999999 99999999998873

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

Probab=99.24  E-value=4.7e-11  Score=117.29  Aligned_cols=79  Identities=23%  Similarity=0.298  Sum_probs=74.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...+.|+|.|||+...|.||+..|.+||.|.+|.|+.+..+++|||||.|++.++|++|-+ |+|..+.||+|.|..+..
T Consensus        94 ~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~ATa  173 (376)
T KOG0125|consen   94 DTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNATA  173 (376)
T ss_pred             CCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEeccch
Confidence            3457899999999999999999999999999999999998999999999999999999998 999999999999998753

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

Probab=99.24  E-value=2.5e-11  Score=126.00  Aligned_cols=158  Identities=22%  Similarity=0.283  Sum_probs=116.7

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCC
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIA  335 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~  335 (437)
                      |||+||.+++++++|+.+|+.||.|..|.+..|..+  ++|||||+|.+.++|.+|++ |||..|.|+.|+|........
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~r~~  360 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTERVD  360 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeeeecc
Confidence            999999999999999999999999999999998744  69999999999999999998 999999999999976432111


Q ss_pred             CCCC--C----------CC----------------------CCC------------------------hhhhc-------
Q 013726          336 PVNP--T----------FL----------------------PRT------------------------EDERE-------  350 (437)
Q Consensus       336 ~~~~--~----------~~----------------------pr~------------------------~~~~~-------  350 (437)
                      ....  .          ..                      +..                        .....       
T Consensus       361 ~~~a~~~~~d~D~~d~~gl~~~~~g~~Ql~~kla~~~~~~~~s~~~~~l~~~~~~~~~~~~~~~~~~~~~~p~~~~p~~~  440 (549)
T KOG0147|consen  361 TKEAAVTQFDFDEDDRQGLSLGSGGRNQLMAKLAEGKGRSLPSTAISALLLLAKLASAAQFNGVVRVRSVDPADASPAFD  440 (549)
T ss_pred             cccccccccccchhhccccccccccHHHHHHHHhccCCccccchhhhHHHhccccchHHhhcCCcCccccCccccccccC
Confidence            1000  0          00                      000                        00001       


Q ss_pred             ccccEEEEEcC--CccCC--------HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          351 MCARTIYCTNI--DKKVT--------QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       351 ~~~~tL~V~NL--p~~vt--------eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      .++.++.++|+  |.+.|        .+||.+-++++ |.|..|.+-+.   +-|+.||.|.+.+.|.+|....|+-+..
T Consensus       441 i~t~C~lL~nMFdpstete~n~d~eI~edV~Eec~k~-g~v~hi~vd~n---s~g~VYvrc~s~~~A~~a~~alhgrWF~  516 (549)
T KOG0147|consen  441 IPTQCLLLSNMFDPSTETEPNWDQEIREDVIEECGKH-GKVCHIFVDKN---SAGCVYVRCPSAEAAGTAVKALHGRWFA  516 (549)
T ss_pred             CccHHHHHhhcCCcccccCcchhhHHHHHHHHHHHhc-CCeeEEEEccC---CCceEEEecCcHHHHHHHHHHHhhhhhc
Confidence            23445666666  32333        27888889996 99999887654   3379999999999998888777775443

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.24  E-value=3.9e-11  Score=114.80  Aligned_cols=78  Identities=19%  Similarity=0.233  Sum_probs=71.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~~  333 (437)
                      ...||||+||++.+|+++|+++|+.||.|.+|++++|.. ..|||||+|.++++|..|+.|+|..|.+++|.|.+....
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~e-t~gfAfVtF~d~~aaetAllLnGa~l~d~~I~It~~~~y   81 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGE-YACTAYVTFKDAYALETAVLLSGATIVDQRVCITRWGQY   81 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCC-cceEEEEEECCHHHHHHHHhcCCCeeCCceEEEEeCccc
Confidence            347999999999999999999999999999999998854 458999999999999999999999999999999987643

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

Probab=99.22  E-value=1.6e-11  Score=116.17  Aligned_cols=152  Identities=22%  Similarity=0.278  Sum_probs=118.4

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIA  335 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~  335 (437)
                      ..+||++||+.+.+.+|..+|..||.+..+.+.      .||+||+|.+.-+|..|+. +++..|.|-.+.|.++.....
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk------~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~   75 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK------NGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRR   75 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee------cccceeccCchhhhhcccchhcCceecceeeeeeccccccc
Confidence            358999999999999999999999999998885      3799999999999999999 999999998888888763211


Q ss_pred             CC-CCC--CC---CCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHH
Q 013726          336 PV-NPT--FL---PRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       336 ~~-~~~--~~---pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~k  409 (437)
                      .. .+.  +.   .+...........+.+.|++..+.+.+|.+.|.++ |++....+      .++++||+|.+.++|.+
T Consensus        76 ~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~-g~~~~~~~------~~~~~~v~Fs~~~da~r  148 (216)
T KOG0106|consen   76 GRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPA-GEVTYVDA------RRNFAFVEFSEQEDAKR  148 (216)
T ss_pred             ccCCCCCCCccchhhccCCcccccceeeeccchhhhhHHHHhhhhccc-CCCchhhh------hccccceeehhhhhhhh
Confidence            11 000  00   01111113345789999999999999999999996 99966554      45699999999999998


Q ss_pred             HHhhcCceeccC
Q 013726          410 LFIHTEFYILHN  421 (437)
Q Consensus       410 al~~~~~~~~~~  421 (437)
                      ++...+...+..
T Consensus       149 a~~~l~~~~~~~  160 (216)
T KOG0106|consen  149 ALEKLDGKKLNG  160 (216)
T ss_pred             cchhccchhhcC
Confidence            888776644433

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

Probab=99.22  E-value=2e-11  Score=110.70  Aligned_cols=74  Identities=28%  Similarity=0.433  Sum_probs=69.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..+.|||+||+..+++.||..+|..||++.+|.|...+.   |||||||+++.+|..|+. |+|..|.|..|.|+.++
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPP---GfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~   83 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPP---GFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST   83 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCC---CceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence            357899999999999999999999999999999987654   999999999999999999 99999999999999986

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

Probab=99.19  E-value=5.3e-11  Score=112.95  Aligned_cols=77  Identities=27%  Similarity=0.379  Sum_probs=74.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +..||.|.||+.++++++|+++|..||.|.+|.+.+|+.+  ++|||||.|.+.++|.+|+. |||.-++.--|.|.|++
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk  267 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK  267 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence            6789999999999999999999999999999999999988  49999999999999999999 99999999999999986

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

Probab=99.19  E-value=3.3e-11  Score=113.83  Aligned_cols=77  Identities=18%  Similarity=0.295  Sum_probs=69.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      .-++||||+|++.++.+.|++.|++||+|+++.++.|+.+  ++|||||.|++.++|.+|++-..-.|+||+-.++.+.
T Consensus        11 ~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~aNcnlA~   89 (247)
T KOG0149|consen   11 TFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKANCNLAS   89 (247)
T ss_pred             eEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccccccchhh
Confidence            3467999999999999999999999999999999999976  6999999999999999999955556899998888764

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

Probab=99.16  E-value=8.3e-10  Score=109.76  Aligned_cols=78  Identities=21%  Similarity=0.398  Sum_probs=71.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..-..|||..+.++.+++||+..|+.||+|++|++.+++.+  .+||||++|.+..+...|+. ||-+.++|..|+|..+
T Consensus       208 k~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVGk~  287 (544)
T KOG0124|consen  208 KKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC  287 (544)
T ss_pred             HhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecccc
Confidence            34467999999999999999999999999999999988865  59999999999999999999 9999999999999664


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      -
T Consensus       288 v  288 (544)
T KOG0124|consen  288 V  288 (544)
T ss_pred             c
Confidence            3

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.12  E-value=2.2e-10  Score=89.03  Aligned_cols=65  Identities=25%  Similarity=0.363  Sum_probs=56.2

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      |||+|||.++++++|+++|+.+ |.|..+++..+ .+.++|+|||+|.+.++|.+|+...+...+++
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~-g~v~~v~~~~~~~~~~~~~a~v~f~~~~~a~~al~~~~~~~~~g   66 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRF-GPVEKVRLIKNKDGQSRGFAFVEFSSEEDAKRALELLNGKEIDG   66 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTS-SBEEEEEEEESTTSSEEEEEEEEESSHHHHHHHHHHHTTEEETT
T ss_pred             CEEeCCCCCCCHHHHHHHHHhc-CCcceEEEEeeeccccCCEEEEEeCCHHHHHHHHHHCCCcEECC
Confidence            7999999999999999999995 99999999987 56789999999999999999999888554444

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 ....

>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=99.10  E-value=6.6e-10  Score=84.67  Aligned_cols=72  Identities=44%  Similarity=0.648  Sum_probs=66.0

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +|+|+|||..+++++|+++|+.+|.|..+.+..++.. +.|+|||+|.+.++|..|+. +++..+.|+.+.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            4899999999999999999999999999999877653 58999999999999999999 999999999998863

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

>smart00360 RRM RNA recognition motif

Probab=99.07  E-value=5.1e-10  Score=84.43  Aligned_cols=68  Identities=38%  Similarity=0.589  Sum_probs=61.9

Q ss_pred             EecCCccchHHHHHHHHhcCCCeeEEEEeeCCC--CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          261 VSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN--SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       261 VgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~--~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      |+|||..+++++|+++|++||.|..+.+..++.  .++|+|||+|.+.++|.+|+. +++..++|+.|.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            579999999999999999999999999987754  358999999999999999999 99999999998873

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.07  E-value=3.2e-10  Score=110.04  Aligned_cols=76  Identities=24%  Similarity=0.406  Sum_probs=63.9

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLEEF  430 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~~~  430 (437)
                      .++|||+|||+.+|+++|+++|+. ||.|.+|+|+.+.. ++|||||+|.+.++|.+|+...+..+...+ .|.+++++
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~-~G~I~~V~I~~d~~-~~GfAFVtF~d~eaAe~AllLnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSF-SGDIEYVEMQSENE-RSQIAYVTFKDPQGAETALLLSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHh-cCCeEEEEEeecCC-CCCEEEEEeCcHHHHHHHHHhcCCeeCCceEEEEeccCC
Confidence            479999999999999999999997 69999999998753 579999999999999888876666555554 46666644

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

Probab=99.06  E-value=2.1e-10  Score=106.53  Aligned_cols=79  Identities=25%  Similarity=0.369  Sum_probs=73.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...+|.|-||.+-++.++|+.+|++||.|-+|.|..|+.+  ++|||||-|.+..+|+.|++ |+|.+|+|+.|.|+.++
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            4578999999999999999999999999999999999976  69999999999999999999 99999999999998876


Q ss_pred             CC
Q 013726          332 TA  333 (437)
Q Consensus       332 ~~  333 (437)
                      -.
T Consensus        92 yg   93 (256)
T KOG4207|consen   92 YG   93 (256)
T ss_pred             cC
Confidence            43

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

Probab=99.06  E-value=5.1e-10  Score=93.62  Aligned_cols=78  Identities=23%  Similarity=0.317  Sum_probs=70.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ++..+-|||+|||+++|.+++.++|.+||.|..+++-..+. .+|.|||.|++..+|.+|+. |+|..+.++.|.|.+..
T Consensus        15 pevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~-TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq   93 (124)
T KOG0114|consen   15 PEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE-TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ   93 (124)
T ss_pred             hhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC-cCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence            44668899999999999999999999999999999954433 47999999999999999999 99999999999998753

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

Probab=99.04  E-value=3.9e-09  Score=106.47  Aligned_cols=155  Identities=23%  Similarity=0.278  Sum_probs=118.5

Q ss_pred             CcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          256 RRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       256 ~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      ...|.|.||... +|.+-|..+|.-||.|.+|+|..+++   --|.|.+.+...|.-|++ |+|..+.|++|+|.+++..
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk---d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~  373 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK---DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHT  373 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC---cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCc
Confidence            577999999875 89999999999999999999988765   479999999999999999 9999999999999998743


Q ss_pred             CCCCCCC----------C----CCCChh-------hhcccccEEEEEcCCccCCHHHHHHHhhhcCCce-EEEEEeccCC
Q 013726          334 IAPVNPT----------F----LPRTED-------EREMCARTIYCTNIDKKVTQADVKLFFESVCGEV-YRLRLLGDYH  391 (437)
Q Consensus       334 ~~~~~~~----------~----~pr~~~-------~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I-~~v~i~kd~g  391 (437)
                      .......          +    ..|-.+       .-..++.+|.+.|+|.+++|||++++|..- |-. +..+..   +
T Consensus       374 ~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~PpsatlHlsnip~svsee~lk~~f~~~-g~~vkafkff---~  449 (492)
T KOG1190|consen  374 NVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSATLHLSNIPPSVSEEDLKNLFQEP-GGQVKAFKFF---Q  449 (492)
T ss_pred             cccCCCCCCccccccccCCCCchhhccCcccccccccCCchhheeeccCCcccchhHHHHhhhcC-CceEEeeeec---C
Confidence            2111100          0    001100       012456799999999999999999999986 644 443333   3


Q ss_pred             CcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          392 HSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       392 ~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      +.+-+|.+.+++.|+|..++...|.+
T Consensus       450 kd~kmal~q~~sveeA~~ali~~hnh  475 (492)
T KOG1190|consen  450 KDRKMALPQLESVEEAIQALIDLHNH  475 (492)
T ss_pred             CCcceeecccCChhHhhhhccccccc
Confidence            34459999999999996666655443

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

Probab=99.01  E-value=8.5e-10  Score=107.40  Aligned_cols=79  Identities=22%  Similarity=0.308  Sum_probs=73.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ...-+||||+-|+.+++|..|+..|+.||+|+.++++.|..+  ++|||||+|.++-+...|.+ .+|..|+|+.|.|..
T Consensus        98 gDPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv  177 (335)
T KOG0113|consen   98 GDPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV  177 (335)
T ss_pred             CCccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence            355689999999999999999999999999999999999865  69999999999999999999 999999999999987


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      -.
T Consensus       178 ER  179 (335)
T KOG0113|consen  178 ER  179 (335)
T ss_pred             cc
Confidence            54

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=99.00  E-value=4.7e-09  Score=108.75  Aligned_cols=165  Identities=21%  Similarity=0.262  Sum_probs=115.3

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-----Cce---EEEEEEcCHHHHHHHHH-hc----C
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-----VLR---FAFIEFTDEEGARAALN-LA----G  317 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-----s~G---faFVeF~~~e~A~~Al~-ln----g  317 (437)
                      +...-.+.||||+||++++|++|...|..||.+. |.+....+.     ++|   |+|+.|+++.++..-+. +.    +
T Consensus       254 ~~~~~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~aC~~~~~~  332 (520)
T KOG0129|consen  254 RSPRYSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLSACSEGEGN  332 (520)
T ss_pred             CccccccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCCcccEEEEEecchHHHHHHHHHHhhcccc
Confidence            3455678899999999999999999999999864 555432211     355   99999999888877665 32    1


Q ss_pred             eEe-------eeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-
Q 013726          318 TML-------GFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-  389 (437)
Q Consensus       318 ~~l-------~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-  389 (437)
                      ..|       ..+.++|.+....    +..|. .+....-++.+||||++||..++.++|..+|+..||.|..+-|-.| 
T Consensus       333 ~yf~vss~~~k~k~VQIrPW~la----Ds~fv-~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~  407 (520)
T KOG0129|consen  333 YYFKVSSPTIKDKEVQIRPWVLA----DSDFV-LDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDP  407 (520)
T ss_pred             eEEEEecCcccccceeEEeeEec----cchhh-hccCcccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCc
Confidence            111       1112333222110    00111 1111224456899999999999999999999988899999999888 


Q ss_pred             -CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          390 -YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       390 -~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                       ..-++|-|=|.|.+..+-.+|+...-.-+.|.
T Consensus       408 k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~  440 (520)
T KOG0129|consen  408 KLKYPKGAGRVTFSNQQAYIKAISARFVQLDHT  440 (520)
T ss_pred             ccCCCCCcceeeecccHHHHHHHhhheEEEecc
Confidence             33499999999999998888877655444444

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

Probab=98.99  E-value=8.5e-10  Score=115.70  Aligned_cols=171  Identities=20%  Similarity=0.242  Sum_probs=126.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ......+||++||...++.++.++...||++...+++.+..+  ++||||.+|.+......|+. |||..++++.|.|..
T Consensus       286 ~~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~  365 (500)
T KOG0120|consen  286 PDSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQR  365 (500)
T ss_pred             ccccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEeeh
Confidence            345567999999999999999999999999999999988874  69999999999999999999 999999999999988


Q ss_pred             cCCCCCCCCCCCC---------CCC-hhhhcccccEEEEEcC--CccC-CH-------HHHHHHhhhcCCceEEEEEecc
Q 013726          330 SKTAIAPVNPTFL---------PRT-EDEREMCARTIYCTNI--DKKV-TQ-------ADVKLFFESVCGEVYRLRLLGD  389 (437)
Q Consensus       330 s~~~~~~~~~~~~---------pr~-~~~~~~~~~tL~V~NL--p~~v-te-------edLrelF~~f~G~I~~v~i~kd  389 (437)
                      +-.+.........         +.. ......++..|++.|+  |.++ ++       |+++.-+.+| |.|.+|.++++
T Consensus       366 A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~Vt~deLkdd~EyeeIlEdvr~ec~k~-g~v~~v~ipr~  444 (500)
T KOG0120|consen  366 AIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVVTPDELKDDEEYEEILEDVRTECAKF-GAVRSVEIPRP  444 (500)
T ss_pred             hhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcCCHHHhcchHHHHHHHHHHHHHhccc-CceeEEecCCC
Confidence            6543222211111         110 1111334556666666  2222 23       4455555674 99999999998


Q ss_pred             -CC----CcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          390 -YH----HSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       390 -~g----~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                       ..    -..|-.||+|.+.++|++|.+..++-.-.+.++
T Consensus       445 ~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtV  484 (500)
T KOG0120|consen  445 YPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTV  484 (500)
T ss_pred             CCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEE
Confidence             22    267889999999999999988887765555443

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

Probab=98.98  E-value=6.3e-10  Score=105.72  Aligned_cols=76  Identities=22%  Similarity=0.310  Sum_probs=67.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCch--hhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS--IAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~--i~~~  427 (437)
                      ..++|.|.||+.++++++|++||.+| |.|.+|.|.+|  +|.++|||||.|.+.++|.+|+...++|.-.|-.  ++|+
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~f-g~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEws  266 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPF-GPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWS  266 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhcc-CccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccCcccceEEEEEEec
Confidence            45799999999999999999999996 99999999998  7889999999999999999999998888665532  5665


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus       267 k  267 (270)
T KOG0122|consen  267 K  267 (270)
T ss_pred             C
Confidence            4

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

Probab=98.98  E-value=1.1e-09  Score=103.79  Aligned_cols=70  Identities=17%  Similarity=0.225  Sum_probs=62.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      .-++|||+||+.+++.++|+++|++| |+|....|+.|  +|+++|||||+|.+.++|.+|+...+-.|-+..
T Consensus        11 ~~TKifVggL~w~T~~~~l~~yFeqf-GeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~   82 (247)
T KOG0149|consen   11 TFTKIFVGGLAWETHKETLRRYFEQF-GEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPNPIIDGRK   82 (247)
T ss_pred             eEEEEEEcCcccccchHHHHHHHHHh-CceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCCCcccccc
Confidence            34899999999999999999999996 99999999988  788999999999999999999988877665543

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

Probab=98.96  E-value=1e-10  Score=106.68  Aligned_cols=79  Identities=22%  Similarity=0.353  Sum_probs=73.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      .++.-|||||||+..||-+|.-+|++||+|+.|.+++|+++  ++||||+.|+++-+..-|+. |||..|.||.|+|.+.
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv  112 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHV  112 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecceeEEeeec
Confidence            45678999999999999999999999999999999999987  59999999999999999999 9999999999999886


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       113 ~~  114 (219)
T KOG0126|consen  113 SN  114 (219)
T ss_pred             cc
Confidence            43

>smart00362 RRM_2 RNA recognition motif

Probab=98.95  E-value=3e-09  Score=80.52  Aligned_cols=66  Identities=24%  Similarity=0.304  Sum_probs=57.9

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +|+|+|||..+++++|+++|+++ |.|..+.+..+.+.++|+|||+|.+.++|++|+...+....++
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~-g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~~~~   66 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKF-GPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTKLGG   66 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhc-CCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcEECC
Confidence            58999999999999999999995 9999999988777788999999999999999988776544333

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.93  E-value=3.2e-09  Score=101.81  Aligned_cols=70  Identities=24%  Similarity=0.315  Sum_probs=61.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCch
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS  423 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~  423 (437)
                      ...+|+|+||++.+|++||+++|+. ||+|.+|+|++| +..+|||||+|++.++|..|+..++.-++..++
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~-~G~I~~V~I~~D-~et~gfAfVtF~d~~aaetAllLnGa~l~d~~I   73 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSH-CGAIEHVEIIRS-GEYACTAYVTFKDAYALETAVLLSGATIVDQRV   73 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHh-cCCeEEEEEecC-CCcceEEEEEECCHHHHHHHHhcCCCeeCCceE
Confidence            3479999999999999999999997 799999999988 445689999999999999998888777666653

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

Probab=98.93  E-value=1.4e-07  Score=94.52  Aligned_cols=166  Identities=14%  Similarity=0.116  Sum_probs=127.4

Q ss_pred             ccCCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ......++|-+|... ++-+.|-++|..||.|..|++++.+.   |.|.|++.+..+.++|+. ||+..+.|.+|.|+.+
T Consensus       284 ~~~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk~---gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~S  360 (494)
T KOG1456|consen  284 GAPGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTKP---GTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVS  360 (494)
T ss_pred             CCCCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeeccc---ceeEEEcCcHHHHHHHHHHhccCccccceEEEeec
Confidence            345678999999986 66788999999999999999987665   899999999999999999 9999999999999999


Q ss_pred             CCCCCCCCCCC--------------------CCCCh-hh--hcccccEEEEEcCCccCCHHHHHHHhhhcCCc-eEEEEE
Q 013726          331 KTAIAPVNPTF--------------------LPRTE-DE--REMCARTIYCTNIDKKVTQADVKLFFESVCGE-VYRLRL  386 (437)
Q Consensus       331 ~~~~~~~~~~~--------------------~pr~~-~~--~~~~~~tL~V~NLp~~vteedLrelF~~f~G~-I~~v~i  386 (437)
                      ++........|                    ..... .+  -..++++|..-|.|..+||+.|.++|... +. -.++++
T Consensus       361 kQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~Ps~vLHffNaP~~vtEe~l~~i~nek-~v~~~svkv  439 (494)
T KOG1456|consen  361 KQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQPPSNVLHFFNAPLGVTEEQLIGICNEK-DVPPTSVKV  439 (494)
T ss_pred             cccccccCCceecCCCCcchhhcccccccccCChhHhhcccccCCcceeEEecCCCccCHHHHHHHhhhc-CCCcceEEe
Confidence            86533221111                    00000 00  13467899999999999999999999975 42 355666


Q ss_pred             eccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          387 LGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       387 ~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ..-......-+.+||++.++|..+|...+.|.+..|
T Consensus       440 Fp~kserSssGllEfe~~s~Aveal~~~NH~pi~~p  475 (494)
T KOG1456|consen  440 FPLKSERSSSGLLEFENKSDAVEALMKLNHYPIEGP  475 (494)
T ss_pred             ecccccccccceeeeehHHHHHHHHHHhccccccCC
Confidence            544322333689999999999888888887776664

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

Probab=98.91  E-value=2.1e-09  Score=111.87  Aligned_cols=75  Identities=36%  Similarity=0.518  Sum_probs=72.1

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ++|||||||+++++++|.++|+..|.|.+++++.|+.+  ++||||++|.+.++|..|++ |||..+.|++|+|.++.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~   96 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS   96 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence            88999999999999999999999999999999999976  59999999999999999999 99999999999999865

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

Probab=98.91  E-value=2.2e-09  Score=93.00  Aligned_cols=74  Identities=19%  Similarity=0.231  Sum_probs=64.2

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      ...++||||+||.+.++||+|.++|++ ||+|..|.+--|  +..+-|||||+|-+.++|..|+...+...+....|
T Consensus        33 ~r~S~tvyVgNlSfyttEEqiyELFs~-cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~i  108 (153)
T KOG0121|consen   33 LRKSCTVYVGNLSFYTTEEQIYELFSK-CGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPI  108 (153)
T ss_pred             HhhcceEEEeeeeeeecHHHHHHHHHh-ccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccce
Confidence            446789999999999999999999998 899999988777  34599999999999999999988887776666544

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=98.89  E-value=2.1e-09  Score=107.52  Aligned_cols=161  Identities=15%  Similarity=0.164  Sum_probs=115.3

Q ss_pred             CcEEEEecCCccchHHHHHHHHhc----CCCeeEEEEeeCCC-CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVG----CGQVVDCRICGDPN-SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~----~G~I~~vri~~d~~-~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .-.|..++||+++|+.++.++|..    -|....+-++..++ ...|-|||.|..+++|+.||.-+...++-|-|.+-.+
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdAFvlfa~ee~aq~aL~khrq~iGqRYIElFRS  240 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDAFVLFACEEDAQFALRKHRQNIGQRYIELFRS  240 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccceEEEecCHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            345888999999999999999963    13445666665544 4689999999999999999997777787777777665


Q ss_pred             CCC-------------CCC-CCCCCC---CCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEE--EEEecc-C
Q 013726          331 KTA-------------IAP-VNPTFL---PRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYR--LRLLGD-Y  390 (437)
Q Consensus       331 ~~~-------------~~~-~~~~~~---pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--v~i~kd-~  390 (437)
                      ..+             ..+ ......   |...-.......+|.+++||++++.|||.++|..|--.|..  |.+..+ .
T Consensus       241 TaaEvqqvlnr~~s~pLi~~~~sp~~p~~p~~~~p~~~~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~q  320 (508)
T KOG1365|consen  241 TAAEVQQVLNREVSEPLIPGLTSPLLPGGPARLVPPTRSKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQ  320 (508)
T ss_pred             hHHHHHHHHHhhccccccCCCCCCCCCCCccccCCCCCCCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCC
Confidence            321             000 000001   11111112235799999999999999999999987445555  666665 7


Q ss_pred             CCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          391 HHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       391 g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      |++.|-|||+|.+.++|.+|....|.
T Consensus       321 GrPSGeAFIqm~nae~a~aaaqk~hk  346 (508)
T KOG1365|consen  321 GRPSGEAFIQMRNAERARAAAQKCHK  346 (508)
T ss_pred             CCcChhhhhhhhhhHHHHHHHHHHHH
Confidence            88999999999999999666555443

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

Probab=98.88  E-value=2.2e-09  Score=105.71  Aligned_cols=70  Identities=14%  Similarity=0.213  Sum_probs=61.3

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ....+.|+|.|||+..-+.||+.+|++| |.|.+|.|+.+...+||||||+|++.+||++|-+..|+-.+.
T Consensus        93 ~~~pkRLhVSNIPFrFRdpDL~aMF~kf-G~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VE  162 (376)
T KOG0125|consen   93 KDTPKRLHVSNIPFRFRDPDLRAMFEKF-GKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVE  162 (376)
T ss_pred             CCCCceeEeecCCccccCccHHHHHHhh-CceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceee
Confidence            4456899999999999999999999996 999999999886669999999999999998887776664333

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

Probab=98.87  E-value=3.1e-09  Score=92.84  Aligned_cols=75  Identities=23%  Similarity=0.311  Sum_probs=70.7

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCC--ceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s--~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      -.|||.++...+|+++|.+.|..||+|+.+.+-.|+.++  +|||+|+|.+.+.|++|+. +||..|.|..|.|.|+-
T Consensus        73 wIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F  150 (170)
T KOG0130|consen   73 WIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF  150 (170)
T ss_pred             EEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence            459999999999999999999999999999998888774  9999999999999999999 99999999999999864

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

Probab=98.87  E-value=2e-09  Score=100.85  Aligned_cols=80  Identities=34%  Similarity=0.437  Sum_probs=73.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...+|||||+|..++|+.-|...|-.||.|..+.++.|-.+  .+|||||+|...|+|.+|+. ||+..|.|+.|+|.++
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A   87 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA   87 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence            35689999999999999999999999999999999887654  69999999999999999999 9999999999999998


Q ss_pred             CCC
Q 013726          331 KTA  333 (437)
Q Consensus       331 ~~~  333 (437)
                      +..
T Consensus        88 kP~   90 (298)
T KOG0111|consen   88 KPE   90 (298)
T ss_pred             CCc
Confidence            643

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=98.86  E-value=4.3e-10  Score=105.26  Aligned_cols=153  Identities=22%  Similarity=0.274  Sum_probs=119.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      +..+||||+|+...++++-|.++|-+.|+|..|.|..++.....||||.|.++-+..-|+. +||..+.+.++++.+-  
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d~~~kFa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r--   84 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQDQEQKFAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLR--   84 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCccCCCceeeeecccccchhhhhhhcccchhccchhhcccc--
Confidence            3458999999999999999999999999999999988777655599999999999999999 9999999998887653  


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEc----CCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTN----IDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~N----Lp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A  407 (437)
                                               .+|    |+..++++.+...|+.. |.+.-+++..+ +|..+.++|+.+-...+.
T Consensus        85 -------------------------~G~shapld~r~~~ei~~~v~s~a-~p~~~~R~~~~~d~rnrn~~~~~~qr~~~~  138 (267)
T KOG4454|consen   85 -------------------------CGNSHAPLDERVTEEILYEVFSQA-GPIEGVRIPTDNDGRNRNFGFVTYQRLCAV  138 (267)
T ss_pred             -------------------------cCCCcchhhhhcchhhheeeeccc-CCCCCccccccccCCccCccchhhhhhhcC
Confidence                                     233    66778899999999985 99999999988 667888999887655444


Q ss_pred             HHHHhhcCceeccCchhhhhhhhcCCc
Q 013726          408 STLFIHTEFYILHNPSIAWLEEFSGEY  434 (437)
Q Consensus       408 ~kal~~~~~~~~~~~~i~~~~~~sg~~  434 (437)
                      -.++.....+-.-.+.+-+...+.|+-
T Consensus       139 P~~~~~y~~l~~~~~~~~~ggk~Gg~~  165 (267)
T KOG4454|consen  139 PFALDLYQGLELFQKKVTIGGKQGGKQ  165 (267)
T ss_pred             cHHhhhhcccCcCCCCcccccccCCCc
Confidence            444443333333333444444455543

>PF13893 RRM_5: RNA recognition motif

Probab=98.86  E-value=7.8e-09  Score=77.29  Aligned_cols=55  Identities=33%  Similarity=0.479  Sum_probs=49.6

Q ss_pred             HHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          273 LAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       273 L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      |.++|++||.|.++.+..+.   .++|||+|.+.++|..|++ |||..+.|++|+|.++
T Consensus         1 L~~~f~~fG~V~~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            67899999999999997665   4799999999999999999 9999999999999874

(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 ....

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

Probab=98.81  E-value=1.3e-08  Score=85.29  Aligned_cols=68  Identities=21%  Similarity=0.319  Sum_probs=59.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..+.|||+|||+.+|.++..++|.+| |.|..|+|-... ..+|-|||.|++..+|++|..|..+|-..+
T Consensus        17 vnriLyirNLp~~ITseemydlFGky-g~IrQIRiG~~k-~TrGTAFVVYedi~dAk~A~dhlsg~n~~~   84 (124)
T KOG0114|consen   17 VNRILYIRNLPFKITSEEMYDLFGKY-GTIRQIRIGNTK-ETRGTAFVVYEDIFDAKKACDHLSGYNVDN   84 (124)
T ss_pred             hheeEEEecCCccccHHHHHHHhhcc-cceEEEEecCcc-CcCceEEEEehHhhhHHHHHHHhcccccCC
Confidence            35799999999999999999999995 999999996543 368999999999999999999988875544

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

Probab=98.81  E-value=1.5e-08  Score=106.38  Aligned_cols=163  Identities=21%  Similarity=0.284  Sum_probs=127.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcC-----------C-CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGC-----------G-QVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGF  322 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~-----------G-~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~G  322 (437)
                      ..+.++|+++|+.++++.+..+|..-           | .+..|.+...+    +|+|++|.+.+.|..|+.+++..+.|
T Consensus       174 q~~r~~v~~~~~~~~e~~~~~f~~~~~~~~gl~~~~~g~~~~s~~~n~~~----nfa~ie~~s~~~at~~~~~~~~~f~g  249 (500)
T KOG0120|consen  174 QARRLYVGNIPFTSNEESMMSFFNSRMHASGLNQAPDGPSFVSVQLNLEK----NFAFIEFRSISEATEAMALDGIIFEG  249 (500)
T ss_pred             hhhhhcccccCCccCcHhhhhhhhhhhhhcccccCCCCCceeeeeecccc----cceeEEecCCCchhhhhcccchhhCC
Confidence            44679999999999999999999743           2 36777775554    59999999999999999999999999


Q ss_pred             eeeEEeccCCCCCCCCCCC--------CCCCh-hhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CC
Q 013726          323 YPVRVLPSKTAIAPVNPTF--------LPRTE-DEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YH  391 (437)
Q Consensus       323 r~L~V~~s~~~~~~~~~~~--------~pr~~-~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g  391 (437)
                      .++++...........-..        ..... ........+++|+|||..+++.+++++.+.| |.+...++.++  .|
T Consensus       250 ~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~l~~~q~~Ell~~f-g~lk~f~lv~d~~~g  328 (500)
T KOG0120|consen  250 RPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLYLTEDQVKELLDSF-GPLKAFRLVKDSATG  328 (500)
T ss_pred             CCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCccCHHHHHHHHHhc-ccchhheeecccccc
Confidence            9988866543322211110        11011 1123456799999999999999999999995 99999999998  56


Q ss_pred             CcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          392 HSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       392 ~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      .++||||.+|.+......|.++.+++.+...
T Consensus       329 ~skg~af~ey~dpsvtd~A~agLnGm~lgd~  359 (500)
T KOG0120|consen  329 NSKGFAFCEYCDPSVTDQAIAGLNGMQLGDK  359 (500)
T ss_pred             cccceeeeeeeCCcchhhhhcccchhhhcCc
Confidence            8999999999999988888888888777744

>smart00360 RRM RNA recognition motif

Probab=98.77  E-value=2.1e-08  Score=75.47  Aligned_cols=61  Identities=25%  Similarity=0.314  Sum_probs=53.5

Q ss_pred             EEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          358 CTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       358 V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      |+|||..+++++|+++|+++ |.|..+.+..+  .+.++|+|||+|.+.++|.+|+...+....
T Consensus         1 i~~l~~~~~~~~l~~~f~~~-g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~~   63 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKF-GKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKEL   63 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhh-CCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCee
Confidence            57999999999999999995 99999999887  467899999999999999999887764433

>smart00361 RRM_1 RNA recognition motif

Probab=98.75  E-value=3.4e-08  Score=77.56  Aligned_cols=58  Identities=26%  Similarity=0.281  Sum_probs=50.6

Q ss_pred             HHHHHHHHh----cCCCeeEEE-EeeCC----CCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          270 EEQLAALFV----GCGQVVDCR-ICGDP----NSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       270 ee~L~~~F~----~~G~I~~vr-i~~d~----~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      +++|+++|+    .||.|.++. +..++    ..++|||||+|.+.++|.+|+. |||..+.|+.|.+
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            578888898    999999995 55554    3369999999999999999999 9999999999876

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

Probab=98.75  E-value=4.1e-08  Score=74.65  Aligned_cols=66  Identities=26%  Similarity=0.336  Sum_probs=57.7

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +|+|+|||..+++++|+++|+.+ |.|..+.+..+ .+.++|+|||+|.+.++|..|+...+....++
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~-g~i~~~~~~~~~~~~~~~~~~v~f~s~~~a~~a~~~~~~~~~~~   67 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKF-GKVESVRIVRDKDTKSKGFAFVEFEDEEDAEKALEALNGKELGG   67 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhc-CCEEEEEEeeCCCCCcceEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            48999999999999999999995 99999999987 34678999999999999999988877764443

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).

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

Probab=98.72  E-value=2.8e-08  Score=96.99  Aligned_cols=70  Identities=17%  Similarity=0.299  Sum_probs=62.8

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+-+||||.-|+++++|..|+..|+.| |.|+.|+|++|  +|+++|||||+|++..+..+|..+.++..+..
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~Y-G~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idg  170 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKY-GPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDG  170 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhc-CcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecC
Confidence            456899999999999999999999995 99999999999  89999999999999999988888877655443

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

Probab=98.71  E-value=4.2e-08  Score=92.51  Aligned_cols=68  Identities=28%  Similarity=0.370  Sum_probs=61.0

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..+|||+|||.++|+++|+++|.++ |.|..+.+..+  .+.++|||||+|.+.++|..|+...+...+..
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~-g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~  184 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKF-GPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEG  184 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhc-CceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECC
Confidence            5899999999999999999999995 99999999988  58899999999999999999988888544433

>PLN03213 repressor of silencing 3; Provisional

Probab=98.67  E-value=6.5e-08  Score=99.66  Aligned_cols=62  Identities=15%  Similarity=0.233  Sum_probs=53.3

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCH--HHHHHHHhhcC
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMV--IASSTLFIHTE  415 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~--e~A~kal~~~~  415 (437)
                      ....+|||+||++++|++||+.+|++| |.|.+|.|++.+|  ||||||+|.+.  .++.+|+...+
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSeF-GsVkdVEIpRETG--RGFAFVEMssdddaEeeKAISaLN   71 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSPM-GTVDAVEFVRTKG--RSFAYIDFSPSSTNSLTKLFSTYN   71 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEecccC--CceEEEEecCCcHHHHHHHHHHhc
Confidence            345799999999999999999999995 9999999998777  99999999987  55666666433

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

Probab=98.65  E-value=2e-07  Score=96.38  Aligned_cols=165  Identities=20%  Similarity=0.193  Sum_probs=120.0

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeE-EEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVD-CRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~-vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      ....|.+++||+.+|++||.++|+..-.|.. +.++.+... +.|-|||.|++.+.|++||.-+...|+.+-|.|-.+..
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~rhre~iGhRYIEvF~Ss~  181 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALGRHRENIGHRYIEVFRSSR  181 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCCCCcccceEEEecCHHHHHHHHHHHHHhhccceEEeehhHH
Confidence            4567999999999999999999998755544 445555443 68999999999999999999777788888888865421


Q ss_pred             C-----C------CC----------CCC----------------------------------C------C-------CCC
Q 013726          333 A-----I------AP----------VNP----------------------------------T------F-------LPR  344 (437)
Q Consensus       333 ~-----~------~~----------~~~----------------------------------~------~-------~pr  344 (437)
                      .     .      ..          .+.                                  .      +       .+.
T Consensus       182 ~e~~~~~~~~~~~~~rpGpy~~~~a~Rg~~d~~~~~~~~~~~~r~g~~~~g~~g~~~~~~~~d~~~~gs~~~~~~~~~~~  261 (510)
T KOG4211|consen  182 AEVKRAAGPGDGRVGRPGPYDRPGAPRGGYDYGQGRDPGRNATRYGAGGEGYYGFSRYPSLQDYGNFGSYGGGRDPNYPV  261 (510)
T ss_pred             HHHHhhccccccccCCCCccccccCCccccccccccCCCccccccccccCCccccccCccccccccccccccccccccCC
Confidence            0     0      00          000                                  0      0       000


Q ss_pred             C-----hh-----hh-cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHh
Q 013726          345 T-----ED-----ER-EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       345 ~-----~~-----~~-~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~  412 (437)
                      .     ..     .. ......++.++||+..++.+|.++|+.  .....|.|-.. +|+..|-|+|+|.|.++|..|+.
T Consensus       262 ~~g~~~~g~~g~~~~~~~~g~fv~MRGlpy~a~~~di~nfFsp--l~p~~v~i~ig~dGr~TGEAdveF~t~edav~Ams  339 (510)
T KOG4211|consen  262 SSGPHRQGGAGDYGNGGPGGHFVHMRGLPYDATENDIANFFSP--LNPYRVHIEIGPDGRATGEADVEFATGEDAVGAMG  339 (510)
T ss_pred             CCCcccCCCcccccCCCCCCceeeecCCCccCCCcchhhhcCC--CCceeEEEEeCCCCccCCcceeecccchhhHhhhc
Confidence            0     00     00 111256889999999999999999996  46667777665 78899999999999999999988


Q ss_pred             hcCceeccC
Q 013726          413 HTEFYILHN  421 (437)
Q Consensus       413 ~~~~~~~~~  421 (437)
                      ....-+.|+
T Consensus       340 kd~anm~hr  348 (510)
T KOG4211|consen  340 KDGANMGHR  348 (510)
T ss_pred             cCCcccCcc
Confidence            877666555

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

Probab=98.64  E-value=3e-08  Score=95.45  Aligned_cols=81  Identities=21%  Similarity=0.440  Sum_probs=75.1

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ++..+.++|||-.||.+.++.||...|-.||.|.+.++..|+.+  +++||||.|.++.+|+.||. |||..|+-++|+|
T Consensus       280 reGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKV  359 (371)
T KOG0146|consen  280 REGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKV  359 (371)
T ss_pred             hcCCCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcchhhhhhhhhh
Confidence            45567899999999999999999999999999999999988866  69999999999999999999 9999999999999


Q ss_pred             eccC
Q 013726          328 LPSK  331 (437)
Q Consensus       328 ~~s~  331 (437)
                      ...+
T Consensus       360 QLKR  363 (371)
T KOG0146|consen  360 QLKR  363 (371)
T ss_pred             hhcC
Confidence            8764

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

Probab=98.63  E-value=4.2e-07  Score=91.13  Aligned_cols=149  Identities=20%  Similarity=0.160  Sum_probs=113.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH---hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN---LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~---lng~~l~Gr~L~V~~  329 (437)
                      ...+-.|.|++|-..++|.+|.+.++.||+|..+..+..+    ..+.|+|++.+.|.+++.   -+...+.|+.-.+.+
T Consensus        28 ~~~spvvhvr~l~~~v~eadl~eal~~fG~i~yvt~~P~~----r~alvefedi~~akn~Vnfaa~n~i~i~gq~Al~Ny  103 (494)
T KOG1456|consen   28 PNPSPVVHVRGLHQGVVEADLVEALSNFGPIAYVTCMPHK----RQALVEFEDIEGAKNCVNFAADNQIYIAGQQALFNY  103 (494)
T ss_pred             CCCCceEEEeccccccchhHHHHHHhcCCceEEEEecccc----ceeeeeeccccchhhheehhccCcccccCchhhccc
Confidence            3455679999999999999999999999999999887654    489999999999999987   355667888877777


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEE--EEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHH
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIY--CTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~--V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A  407 (437)
                      +......     ++.  .+.......|.  |-|--+.+|-+-|..+..+ +|+|.+|.|.+++|-   .|.|||++.+.|
T Consensus       104 Stsq~i~-----R~g--~es~~pN~VLl~TIlNp~YpItvDVly~Icnp-~GkVlRIvIfkkngV---QAmVEFdsv~~A  172 (494)
T KOG1456|consen  104 STSQCIE-----RPG--DESATPNKVLLFTILNPQYPITVDVLYTICNP-QGKVLRIVIFKKNGV---QAMVEFDSVEVA  172 (494)
T ss_pred             chhhhhc-----cCC--CCCCCCCeEEEEEeecCccccchhhhhhhcCC-CCceEEEEEEeccce---eeEEeechhHHH
Confidence            6422111     111  11122223333  4566678999999999999 599999999988663   799999999999


Q ss_pred             HHHHhhcCc
Q 013726          408 STLFIHTEF  416 (437)
Q Consensus       408 ~kal~~~~~  416 (437)
                      ++|-+..++
T Consensus       173 qrAk~alNG  181 (494)
T KOG1456|consen  173 QRAKAALNG  181 (494)
T ss_pred             HHHHhhccc
Confidence            776555544

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

Probab=98.63  E-value=3.1e-08  Score=90.71  Aligned_cols=71  Identities=23%  Similarity=0.275  Sum_probs=61.3

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      ..||||+||+..++++.|+++|-+ +|+|.++++++|  ....+|||||+|.+.++|+.|+...+..-+....|
T Consensus         9 d~tiyvgnld~kvs~~~l~EL~iq-agpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~VkLYgrpI   81 (203)
T KOG0131|consen    9 DATLYVGNLDEKVSEELLYELFIQ-AGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNMVKLYGRPI   81 (203)
T ss_pred             CceEEEecCCHHHHHHHHHHHHHh-cCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHHHHhcCcee
Confidence            479999999999999999999999 599999999999  56799999999999999987777666655555443

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

Probab=98.57  E-value=8.6e-08  Score=95.37  Aligned_cols=77  Identities=25%  Similarity=0.484  Sum_probs=71.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...|||..|++-+|+++|.-+|+.||.|.+|.+++|..+  +..||||+|.+.+++.+|.- |++..|+.+.|+|.++.
T Consensus       238 PeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQ  317 (479)
T KOG0415|consen  238 PENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQ  317 (479)
T ss_pred             CcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEeehhh
Confidence            3467999999999999999999999999999999999987  58899999999999999976 99999999999998864

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

Probab=98.57  E-value=1.5e-07  Score=93.66  Aligned_cols=78  Identities=21%  Similarity=0.380  Sum_probs=70.3

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH--hcCeEeeeeeeEEe
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN--LAGTMLGFYPVRVL  328 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~--lng~~l~Gr~L~V~  328 (437)
                      .++..-+||||++|...+++.+|+++|.+||+|.++++....    ++|||+|.+.++|+.|.+  ++...++|++|.|.
T Consensus       223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~----~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~  298 (377)
T KOG0153|consen  223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK----GCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIK  298 (377)
T ss_pred             CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc----ccceeeehhhHHHHHHHHhhcceeeecceEEEEE
Confidence            345667899999999999999999999999999999997654    599999999999999987  88888999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      |.+.
T Consensus       299 Wg~~  302 (377)
T KOG0153|consen  299 WGRP  302 (377)
T ss_pred             eCCC
Confidence            9875

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

Probab=98.53  E-value=8.6e-08  Score=93.33  Aligned_cols=74  Identities=28%  Similarity=0.414  Sum_probs=68.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..+++|+|+||.+.++.++|+..|++||+|..|.++.|      |+||.|.-.++|..|++ ||+..++|++++|+.+..
T Consensus        76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd------y~fvh~d~~eda~~air~l~~~~~~gk~m~vq~sts  149 (346)
T KOG0109|consen   76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD------YAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLSTS  149 (346)
T ss_pred             CCccccccCCCCccccCHHHhhhhcccCCceeeeeecc------eeEEEEeeccchHHHHhcccccccccceeeeeeecc
Confidence            46788999999999999999999999999999999854      99999999999999999 999999999999998764


Q ss_pred             C
Q 013726          333 A  333 (437)
Q Consensus       333 ~  333 (437)
                      -
T Consensus       150 r  150 (346)
T KOG0109|consen  150 R  150 (346)
T ss_pred             c
Confidence            3

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

Probab=98.51  E-value=2.3e-07  Score=100.09  Aligned_cols=74  Identities=26%  Similarity=0.370  Sum_probs=68.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||||+|+..+++.+|.++|+.||+|.+|.++..    +|+|||.+....+|.+|+. |+...+.++.|+|.|+.
T Consensus       419 V~SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~----R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~  493 (894)
T KOG0132|consen  419 VCSRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP----RGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAV  493 (894)
T ss_pred             EeeeeeeeccccchhhHHHHHHHHHhcccceeEeeccC----CceeEEEEeehhHHHHHHHHHhcccccceeeEEeeec
Confidence            44789999999999999999999999999999999654    5799999999999999999 99999999999999985

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

Probab=98.51  E-value=1.5e-08  Score=92.70  Aligned_cols=68  Identities=18%  Similarity=0.223  Sum_probs=57.0

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +.-|||+|||+++||.||.-.|++| |+|..|.+++|  +|+++||||+.|++..+..=|..+.+++.++.
T Consensus        35 sA~Iyiggl~~~LtEgDil~VFSqy-Ge~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NGiki~g  104 (219)
T KOG0126|consen   35 SAYIYIGGLPYELTEGDILCVFSQY-GEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNGIKILG  104 (219)
T ss_pred             ceEEEECCCcccccCCcEEEEeecc-CceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCCceecc
Confidence            4789999999999999999999995 99999999998  78899999999999887644444444444333

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

Probab=98.50  E-value=1.4e-07  Score=82.67  Aligned_cols=77  Identities=19%  Similarity=0.259  Sum_probs=65.1

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCc--eeccCchhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEF--YILHNPSIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~--~~~~~~~i~  425 (437)
                      +.....|||.++...+|++||.+.|..| |+|+++.+.-|  +|-.+|||.|+|++.+.|++|+...+.  ++..+..+.
T Consensus        69 SVEGwIi~VtgvHeEatEedi~d~F~dy-GeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VD  147 (170)
T KOG0130|consen   69 SVEGWIIFVTGVHEEATEEDIHDKFADY-GEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNGAELLGQNVSVD  147 (170)
T ss_pred             ceeeEEEEEeccCcchhHHHHHHHHhhc-ccccceeeccccccccccceeeeehHhHHHHHHHHHhccchhhhCCceeEE
Confidence            3345799999999999999999999995 99999999877  788999999999999999999887774  344454566


Q ss_pred             hh
Q 013726          426 WL  427 (437)
Q Consensus       426 ~~  427 (437)
                      |+
T Consensus       148 w~  149 (170)
T KOG0130|consen  148 WC  149 (170)
T ss_pred             EE
Confidence            64

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=98.49  E-value=1e-08  Score=111.38  Aligned_cols=136  Identities=18%  Similarity=0.186  Sum_probs=113.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEe--eCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC--GDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~--~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      +..++||+||+..+.+++|...|..+|.+..+++.  .+....+|+||++|..++++.+|+.++...+.|          
T Consensus       666 ~~~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~~~~g----------  735 (881)
T KOG0128|consen  666 DLIKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDSCFFG----------  735 (881)
T ss_pred             HHHHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhhhhhh----------
Confidence            34679999999999999999999999877776664  333446899999999999999999954333333          


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal  411 (437)
                                          ...++|.|.|+..|.++++.++.++ |.+++++++.. .|+++|.|||.|.+..+|.+..
T Consensus       736 --------------------K~~v~i~g~pf~gt~e~~k~l~~~~-gn~~~~~~vt~r~gkpkg~a~v~y~~ea~~s~~~  794 (881)
T KOG0128|consen  736 --------------------KISVAISGPPFQGTKEELKSLASKT-GNVTSLRLVTVRAGKPKGKARVDYNTEADASRKV  794 (881)
T ss_pred             --------------------hhhhheeCCCCCCchHHHHhhcccc-CCccccchhhhhccccccceeccCCCcchhhhhc
Confidence                                1488999999999999999999996 99999987776 7899999999999999998887


Q ss_pred             hhcCceeccC
Q 013726          412 IHTEFYILHN  421 (437)
Q Consensus       412 ~~~~~~~~~~  421 (437)
                      +.....+..-
T Consensus       795 ~s~d~~~~rE  804 (881)
T KOG0128|consen  795 ASVDVAGKRE  804 (881)
T ss_pred             ccchhhhhhh
Confidence            7777655443

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=98.45  E-value=1.7e-07  Score=93.31  Aligned_cols=170  Identities=20%  Similarity=0.138  Sum_probs=121.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC--CCCceEEEEEEcCHHHHHHHHHhcCe-EeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP--NSVLRFAFIEFTDEEGARAALNLAGT-MLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~--~~s~GfaFVeF~~~e~A~~Al~lng~-~l~Gr~L~V~~s  330 (437)
                      ....+.|++++...+.+.+...++..+|....+.+....  ..++|++++.|...+.+..|+.+.+. .+.+..+.....
T Consensus        86 ~~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~  165 (285)
T KOG4210|consen   86 GSSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLN  165 (285)
T ss_pred             cccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCccc
Confidence            457889999999999999888999999987777665433  34699999999999999999997664 556655544433


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEE-EEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIY-CTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~-V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A  407 (437)
                      ..-.....   .+... .......+++ ++|+++.+++++|+..|.. ||.|..++++.+  .+..+|||||.|.+..++
T Consensus       166 ~~~~~~~~---n~~~~-~~~~~s~~~~~~~~~~f~~~~d~~~~~~~~-~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~  240 (285)
T KOG4210|consen  166 TRRGLRPK---NKLSR-LSSGPSDTIFFVGELDFSLTRDDLKEHFVS-SGEITSVRLPTDEESGDSKGFAYVDFSAGNSK  240 (285)
T ss_pred             cccccccc---chhcc-cccCccccceeecccccccchHHHhhhccC-cCcceeeccCCCCCccchhhhhhhhhhhchhH
Confidence            22111000   00101 1122344555 9999999999999999997 699999999987  567999999999999988


Q ss_pred             HHHHhhcCceeccCc-hhhhhh
Q 013726          408 STLFIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       408 ~kal~~~~~~~~~~~-~i~~~~  428 (437)
                      +.++...+..+...+ .+...+
T Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~  262 (285)
T KOG4210|consen  241 KLALNDQTRSIGGRPLRLEEDE  262 (285)
T ss_pred             HHHhhcccCcccCcccccccCC
Confidence            777773333333333 344433

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

Probab=98.44  E-value=4.7e-07  Score=84.53  Aligned_cols=78  Identities=24%  Similarity=0.325  Sum_probs=69.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcC-CCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGC-GQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~-G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .....-+||..+|..+.+.++...|.++ |.+..+++.+++.+  ++|||||+|++++.|.-|-+ ||++.|.|+-|.|.
T Consensus        46 ~~~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~  125 (214)
T KOG4208|consen   46 QEIEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECH  125 (214)
T ss_pred             cCCccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeE
Confidence            4455679999999999999999999988 78888888888876  59999999999999999999 99999999998887


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      .-
T Consensus       126 vm  127 (214)
T KOG4208|consen  126 VM  127 (214)
T ss_pred             Ee
Confidence            64

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

Probab=98.42  E-value=3.4e-07  Score=85.45  Aligned_cols=69  Identities=19%  Similarity=0.230  Sum_probs=61.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|.|-||-+.++.++|+.+|++| |.|-.|.|++|  +..++|||||.|....+|+.|+..+++..+.-
T Consensus        12 gm~SLkVdNLTyRTspd~LrrvFekY-G~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldg   82 (256)
T KOG4207|consen   12 GMTSLKVDNLTYRTSPDDLRRVFEKY-GRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDG   82 (256)
T ss_pred             cceeEEecceeccCCHHHHHHHHHHh-CcccceecccccccccccceeEEEeeecchHHHHHHhhcceeecc
Confidence            45899999999999999999999995 99999999999  66799999999999999988888877755443

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

Probab=98.42  E-value=4e-07  Score=83.05  Aligned_cols=57  Identities=18%  Similarity=0.281  Sum_probs=48.9

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      .++|||+||+..+++.||...|..| |.|.+|-|-+.   +-|||||+|+++.+|..|.-.
T Consensus        10 ~~kVYVGnL~~~a~k~eLE~~F~~y-G~lrsvWvArn---PPGfAFVEFed~RDA~DAvr~   66 (195)
T KOG0107|consen   10 NTKVYVGNLGSRATKRELERAFSKY-GPLRSVWVARN---PPGFAFVEFEDPRDAEDAVRY   66 (195)
T ss_pred             CceEEeccCCCCcchHHHHHHHHhc-CcceeEEEeec---CCCceEEeccCcccHHHHHhh
Confidence            4899999999999999999999985 99999998774   446999999998777655443

>KOG1365 consensus RNA-binding protein Fusilli, contains RRM domain [RNA processing and modification; General function prediction only]

Probab=98.41  E-value=2e-06  Score=86.58  Aligned_cols=158  Identities=20%  Similarity=0.206  Sum_probs=112.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcC----CCeeEEE-EeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGC----GQVVDCR-ICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~----G~I~~vr-i~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      +...|..++||+..++.++..+|+-.    |.+.-|. ....   ..|.+.|.|.++|.-+.|++-+...++++.|.|..
T Consensus        59 ~~vvvRaRglpwq~Sd~~ia~ff~gl~ia~gg~aKOG~~qgr---Rnge~lvrf~d~e~RdlalkRhkhh~g~ryievYk  135 (508)
T KOG1365|consen   59 DNVVVRARGLPWQSSDQDIARFFKGLNIANGGRALCLNAQGR---RNGEALVRFVDPEGRDLALKRHKHHMGTRYIEVYK  135 (508)
T ss_pred             cceEEEecCCCCCcccCCHHHHHhhhhccccceeeeehhhhc---cccceEEEecCchhhhhhhHhhhhhccCCceeeec
Confidence            44557788999999999999999843    2222221 1122   24899999999999999999888889999999987


Q ss_pred             cCCCC--------CCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcC---CceEEEEEecc-CCCcceEE
Q 013726          330 SKTAI--------APVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVC---GEVYRLRLLGD-YHHSTRIA  397 (437)
Q Consensus       330 s~~~~--------~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~---G~I~~v~i~kd-~g~srGfA  397 (437)
                      +.-..        ......+.++      ...-.|.+++||+++|+.|+.++|.+-|   |..+.|-++.. +|+.+|-|
T Consensus       136 a~ge~f~~iagg~s~e~~~flsk------~~qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rpdgrpTGdA  209 (508)
T KOG1365|consen  136 ATGEEFLKIAGGTSNEAAPFLSK------ENQVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRPDGRPTGDA  209 (508)
T ss_pred             cCchhheEecCCccccCCCCCCc------ccceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECCCCCcccce
Confidence            64211        0001112221      1235788899999999999999997332   34455555444 88999999


Q ss_pred             EEEeCCHHHHHHHHhhcCceeccC
Q 013726          398 FVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       398 FVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ||.|...++|+.||......++..
T Consensus       210 Fvlfa~ee~aq~aL~khrq~iGqR  233 (508)
T KOG1365|consen  210 FVLFACEEDAQFALRKHRQNIGQR  233 (508)
T ss_pred             EEEecCHHHHHHHHHHHHHHHhHH
Confidence            999999999988887766555443

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

Probab=98.41  E-value=1.1e-06  Score=88.04  Aligned_cols=77  Identities=21%  Similarity=0.257  Sum_probs=70.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ....|||++||.+++++++++.|.+||.|..+-++.|..+  .+||+||.|.+++++.+++...-+.|.|+.+.|+.+.
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f~~~~gk~vevkrA~  174 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKFHDFNGKKVEVKRAI  174 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccceeeecCceeeEeecc
Confidence            4568999999999999999999999999999999888866  5999999999999999999988999999999999875

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

Probab=98.37  E-value=4.5e-07  Score=91.80  Aligned_cols=157  Identities=20%  Similarity=0.226  Sum_probs=109.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcC--eEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG--TMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng--~~l~Gr~L~V~~s  330 (437)
                      ..++.|.++|||++++|++|.+++.+||.|..+.+...++    -||++|.+.++|..-+. ...  -.+.|++|.|.++
T Consensus        26 ~pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lkGkn----QAflem~d~~sAvtmv~~y~~~~p~lr~~~~yiq~s  101 (492)
T KOG1190|consen   26 EPSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLKGKN----QAFLEMADEESAVTMVNYYTSVTPVLRGQPIYIQYS  101 (492)
T ss_pred             CCcceeEeccCCccccHHHHHHhcccccceeeeeeeccch----hhhhhhcchhhhhheeecccccCccccCcceeehhh
Confidence            3678899999999999999999999999999998876655    89999999999887444 222  2467888888876


Q ss_pred             CCCCCCCCCC-------------------CCCCCh--h--hh---cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEE
Q 013726          331 KTAIAPVNPT-------------------FLPRTE--D--ER---EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRL  384 (437)
Q Consensus       331 ~~~~~~~~~~-------------------~~pr~~--~--~~---~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v  384 (437)
                      ....-.....                   ..+...  .  ..   ...--.++|.|+-+.++-+-|..+|++| |.|..+
T Consensus       102 n~~~lkt~s~p~q~r~~~vy~~~s~~q~~~~~~s~~~~~~G~~~~~n~vLr~iie~m~ypVslDVLHqvFS~f-G~VlKI  180 (492)
T KOG1190|consen  102 NHSELKTDSQPNQIRGQAVYQAVSSVQEIVLPLSASAVVVGNEDGPNPVLRTIIENMFYPVSLDVLHQVFSKF-GFVLKI  180 (492)
T ss_pred             hHHHHhccCchhhhhhhhHHhhhhcccccccccccccccccccCCCceeEEEEeccceeeeEHHHHHHHHhhc-ceeEEE
Confidence            4211000000                   000000  0  00   1122367899999999999999999996 999988


Q ss_pred             EEeccCCCcceEEEEEeCCHHHHHH---HHhhcCce
Q 013726          385 RLLGDYHHSTRIAFVEFVMVIASST---LFIHTEFY  417 (437)
Q Consensus       385 ~i~kd~g~srGfAFVeF~s~e~A~k---al~~~~~~  417 (437)
                      .-..+...  =.|.|+|.++++|+.   +|...+.|
T Consensus       181 iTF~Knn~--FQALvQy~d~~sAq~AK~aLdGqnIy  214 (492)
T KOG1190|consen  181 ITFTKNNG--FQALVQYTDAVSAQAAKLALDGQNIY  214 (492)
T ss_pred             EEEecccc--hhhhhhccchhhHHHHHHhccCCccc
Confidence            66554221  159999999888744   45555544

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

Probab=98.37  E-value=7.1e-07  Score=83.31  Aligned_cols=70  Identities=23%  Similarity=0.319  Sum_probs=62.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ....+|+..+|.-+.+.++..+|.++.|.|..+++-++  +|+++|||||+|++.+.|+-|-..|+.|++.-
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNNYLl~e  119 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNNYLLME  119 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhhhhhhh
Confidence            45789999999999999999999997789999999666  89999999999999999988888888876654

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

Probab=98.36  E-value=5.3e-07  Score=91.93  Aligned_cols=77  Identities=23%  Similarity=0.227  Sum_probs=67.4

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEE  429 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~~~~~  429 (437)
                      .+.+||.|||+++..+||+++|....|+|++|.++.| .|++||.|.|+|+++|.++||+...+.|-..-..|..-|+
T Consensus        44 ~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~GK~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd  121 (608)
T KOG4212|consen   44 DRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESGKARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKED  121 (608)
T ss_pred             cceEEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCCCcCCceEEEeeCHHHHHHHHHHhhhccccCceEEEecc
Confidence            3569999999999999999999987899999999999 8899999999999999999999999888666555443333

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

Probab=98.36  E-value=4.9e-07  Score=83.10  Aligned_cols=64  Identities=20%  Similarity=0.316  Sum_probs=55.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      .+++|||+|||.++.+.||.++|-+| |.|..|.+....+ .-.||||+|+++.+|..|+-..+.|
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKy-g~i~~ieLK~r~g-~ppfafVeFEd~RDAeDAiygRdGY   68 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKY-GRIREIELKNRPG-PPPFAFVEFEDPRDAEDAIYGRDGY   68 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhh-cceEEEEeccCCC-CCCeeEEEecCccchhhhhhccccc
Confidence            35799999999999999999999995 9999998865433 3459999999999999888877765

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

Probab=98.35  E-value=5.9e-07  Score=93.82  Aligned_cols=76  Identities=16%  Similarity=0.228  Sum_probs=65.7

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..+||+|||+++++++|.++|+.. |.|.++++..|  +|+++||||++|.+.++|.+|+...+.+-....  .+.|++.
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~-g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGV-GPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhcc-CccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            799999999999999999999996 99999999998  788999999999999999999888886544333  4666654


Q ss_pred             h
Q 013726          430 F  430 (437)
Q Consensus       430 ~  430 (437)
                      -
T Consensus        98 ~   98 (435)
T KOG0108|consen   98 R   98 (435)
T ss_pred             c
Confidence            4

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=98.35  E-value=3.9e-06  Score=80.63  Aligned_cols=157  Identities=17%  Similarity=0.208  Sum_probs=106.8

Q ss_pred             EEEecCCccchHHH-H--HHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          259 VYVSDIDQQVTEEQ-L--AALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       259 LfVgNLp~~~tee~-L--~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      .+++++-..+..+- |  ...|+.+-.....++..+... -.+++|+.|.....-.++-. -++..++..++++......
T Consensus        99 p~~~~~g~~v~pep~lp~~~~f~~~p~L~ktk~v~~~p~~~~~~~~~~~k~s~a~~k~~~~~~~Kki~~~~VR~a~gtsw  178 (290)
T KOG0226|consen   99 PFQSNAGATVNPEPPLPLPVVFSEYPSLVKTKLVRDRPQPIRPEAFESFKASDALLKAETEKEKKKIGKPPVRLAAGTSW  178 (290)
T ss_pred             ccccccccccCCCCCCcchhhhccchhhhhhhhhhcCCCccCcccccCcchhhhhhhhccccccccccCcceeecccccc
Confidence            45555544444433 2  455665555555555554433 47899999987777776665 5666666666665543322


Q ss_pred             CCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHH
Q 013726          334 IAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       334 ~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal  411 (437)
                      ..+.        ..+......+||++.|..+++++-|-..|.+| -.....++.+|  +|+++||+||.|.+..++..|+
T Consensus       179 edPs--------l~ew~~~DfRIfcgdlgNevnd~vl~raf~Kf-psf~~akviRdkRTgKSkgygfVSf~~pad~~rAm  249 (290)
T KOG0226|consen  179 EDPS--------LAEWDEDDFRIFCGDLGNEVNDDVLARAFKKF-PSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAM  249 (290)
T ss_pred             CCcc--------cccCccccceeecccccccccHHHHHHHHHhc-cchhhccccccccccccccceeeeecCHHHHHHHH
Confidence            1111        11223344799999999999999999999996 77777788888  7899999999999999998887


Q ss_pred             hhcCceeccCchh
Q 013726          412 IHTEFYILHNPSI  424 (437)
Q Consensus       412 ~~~~~~~~~~~~i  424 (437)
                      ..++.-..++..|
T Consensus       250 rem~gkyVgsrpi  262 (290)
T KOG0226|consen  250 REMNGKYVGSRPI  262 (290)
T ss_pred             Hhhcccccccchh
Confidence            7776654444444

>smart00361 RRM_1 RNA recognition motif

Probab=98.35  E-value=1.2e-06  Score=68.80  Aligned_cols=53  Identities=15%  Similarity=0.197  Sum_probs=43.3

Q ss_pred             HHHHHHHhh----hcCCceEEEE-Eecc--C--CCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          367 QADVKLFFE----SVCGEVYRLR-LLGD--Y--HHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       367 eedLrelF~----~f~G~I~~v~-i~kd--~--g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +++|+++|+    +| |.|.++. +..+  .  ++++|||||+|.+.++|.+|+.+.++-...
T Consensus         2 ~~~l~~~~~~~~~~f-G~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g~~~~   63 (70)
T smart00361        2 DEDFEREFSEEEEYF-GEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNGRYFD   63 (70)
T ss_pred             chhHHHHHHHHHHhc-CCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCCCEEC
Confidence            678999998    85 9999995 5544  3  789999999999999999998877664443

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

Probab=98.34  E-value=6.4e-07  Score=98.07  Aligned_cols=152  Identities=14%  Similarity=0.194  Sum_probs=122.6

Q ss_pred             hhhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC-CCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP-NSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       250 ~~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~-~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ......++|||++||+..+++.+|+..|..+|.|.+|.|.... ++..-|+||.|.+-..+..|+. +.+..|..-.+++
T Consensus       366 ~DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~~~esa~~f~~~~n~dmtp~ak~e~s~~~I~~g~~r~  445 (975)
T KOG0112|consen  366 LDDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHIKTESAYAFVSLLNTDMTPSAKFEESGPLIGNGTHRI  445 (975)
T ss_pred             ccchhhhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCCCcccchhhhhhhccccCcccchhhcCCccccCcccc
Confidence            3455778999999999999999999999999999999996653 4456799999999999999977 8887775545444


Q ss_pred             eccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHH
Q 013726          328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       328 ~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A  407 (437)
                      .....                .....+.+++++|........|...|..| |.|..|.+-..    .-||+|.|++...|
T Consensus       446 glG~~----------------kst~ttr~~sgglg~w~p~~~l~r~fd~f-Gpir~Idy~hg----q~yayi~yes~~~a  504 (975)
T KOG0112|consen  446 GLGQP----------------KSTPTTRLQSGGLGPWSPVSRLNREFDRF-GPIRIIDYRHG----QPYAYIQYESPPAA  504 (975)
T ss_pred             ccccc----------------ccccceeeccCCCCCCChHHHHHHHhhcc-CcceeeecccC----CcceeeecccCccc
Confidence            43310                12345799999999999999999999995 99998766432    33999999999999


Q ss_pred             HHHHhhcCceeccCc
Q 013726          408 STLFIHTEFYILHNP  422 (437)
Q Consensus       408 ~kal~~~~~~~~~~~  422 (437)
                      +.+..++-...++.|
T Consensus       505 q~a~~~~rgap~G~P  519 (975)
T KOG0112|consen  505 QAATHDMRGAPLGGP  519 (975)
T ss_pred             hhhHHHHhcCcCCCC
Confidence            988888877766655

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

Probab=98.32  E-value=3.1e-07  Score=86.38  Aligned_cols=64  Identities=19%  Similarity=0.273  Sum_probs=59.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      ..++|||++|..++|+.-|...|-+| |.|..|.++.|  +++.||||||+|+..|+|.+|+.+++.
T Consensus         9 ~KrtlYVGGladeVtekvLhaAFIPF-GDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMne   74 (298)
T KOG0111|consen    9 QKRTLYVGGLADEVTEKVLHAAFIPF-GDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNE   74 (298)
T ss_pred             cceeEEeccchHHHHHHHHHhccccc-cchhhcccccchhcccccceeEEEeeccchhHHHhhcCch
Confidence            34899999999999999999999996 99999999999  677999999999999999999888775

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

Probab=98.27  E-value=1.9e-06  Score=90.33  Aligned_cols=82  Identities=21%  Similarity=0.319  Sum_probs=74.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCC--ceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s--~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||.+|...+...+|+.+|++||.|+-.+++.+..++  ++||||.+.+.++|.+||. |+.+.|.|+-|.|..
T Consensus       402 s~~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEk  481 (940)
T KOG4661|consen  402 STLGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEK  481 (940)
T ss_pred             cccccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeee
Confidence            3456889999999999999999999999999999999877653  8999999999999999999 999999999999998


Q ss_pred             cCCCC
Q 013726          330 SKTAI  334 (437)
Q Consensus       330 s~~~~  334 (437)
                      ++..+
T Consensus       482 aKNEp  486 (940)
T KOG4661|consen  482 AKNEP  486 (940)
T ss_pred             cccCc
Confidence            87544

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=98.25  E-value=1.6e-06  Score=83.72  Aligned_cols=86  Identities=23%  Similarity=0.343  Sum_probs=77.6

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEe
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL  328 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~  328 (437)
                      ..+.+.+.+||+|+.+.+|.+++...|+.||.|..+.+..|+.+  ++||+||+|.+.+.+..|+.|+|..+.|+.+.|.
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~gs~i~~~~i~vt  175 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDGSEIPGPAIEVT  175 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCCcccccccceee
Confidence            44678899999999999999999999999999999999888765  6999999999999999999999999999999999


Q ss_pred             ccCCCCCC
Q 013726          329 PSKTAIAP  336 (437)
Q Consensus       329 ~s~~~~~~  336 (437)
                      +.+..+..
T Consensus       176 ~~r~~~pg  183 (231)
T KOG4209|consen  176 LKRTNVPG  183 (231)
T ss_pred             eeeeecCC
Confidence            98766433

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

Probab=98.21  E-value=2.3e-06  Score=88.99  Aligned_cols=78  Identities=17%  Similarity=0.265  Sum_probs=67.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC--CCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP--NSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~--~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      ...+|||+|||++++.++|.++|..||.|+..+|....  .+..+||||+|.+.+++..|+.-+...+++++|.|+..+.
T Consensus       287 ~~~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~kl~Veek~~  366 (419)
T KOG0116|consen  287 DGLGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGRKLNVEEKRP  366 (419)
T ss_pred             cccceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCeeEEEEeccc
Confidence            34559999999999999999999999999988875433  2223999999999999999999778889999999988654

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=98.15  E-value=8.9e-06  Score=87.32  Aligned_cols=81  Identities=21%  Similarity=0.313  Sum_probs=71.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC-----CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN-----SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~-----~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      +..+++|||+||++.++++.|...|..||+|.+++++..+.     ....+|||.|-+..+|++|++ |+|..+.+..++
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K  250 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEMK  250 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeeee
Confidence            45678899999999999999999999999999999975442     246799999999999999999 999999999999


Q ss_pred             EeccCCC
Q 013726          327 VLPSKTA  333 (437)
Q Consensus       327 V~~s~~~  333 (437)
                      +.|++.-
T Consensus       251 ~gWgk~V  257 (877)
T KOG0151|consen  251 LGWGKAV  257 (877)
T ss_pred             ecccccc
Confidence            9998643

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

Probab=98.10  E-value=7.1e-06  Score=79.54  Aligned_cols=79  Identities=23%  Similarity=0.286  Sum_probs=71.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +.-..+|+|.|||+.+++++|+++|..||.+..+-+..++.+ +.|.|-|.|...++|.+|++ ++|..++|+++++...
T Consensus        80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i  159 (243)
T KOG0533|consen   80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEII  159 (243)
T ss_pred             CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCcccCCceeeeEEe
Confidence            334478999999999999999999999999999999888876 68999999999999999999 9999999999888765


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus       160 ~  160 (243)
T KOG0533|consen  160 S  160 (243)
T ss_pred             c
Confidence            4

>PF13893 RRM_5: RNA recognition motif

Probab=98.08  E-value=7.7e-06  Score=60.94  Aligned_cols=48  Identities=21%  Similarity=0.315  Sum_probs=38.8

Q ss_pred             HHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          370 VKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       370 LrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      |+++|++| |+|..+.+.++.   +|+|||+|.+.++|.+|+...+......
T Consensus         1 L~~~f~~f-G~V~~i~~~~~~---~~~a~V~f~~~~~A~~a~~~l~~~~~~g   48 (56)
T PF13893_consen    1 LYKLFSKF-GEVKKIKIFKKK---RGFAFVEFASVEDAQKAIEQLNGRQFNG   48 (56)
T ss_dssp             HHHHHTTT-S-EEEEEEETTS---TTEEEEEESSHHHHHHHHHHHTTSEETT
T ss_pred             ChHHhCCc-ccEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            68899995 999999998765   5699999999999999988666544443

(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 ....

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

Probab=98.00  E-value=3.9e-06  Score=88.12  Aligned_cols=72  Identities=21%  Similarity=0.346  Sum_probs=65.7

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      .+...++|+|-|||..+++++|+.+|+.||+|..++..+..   .|..||+|.|.-+|++|++ |++..+.|+.|+
T Consensus        71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~~~---~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen   71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETPNK---RGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccccc---CceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            35678999999999999999999999999999997775544   4899999999999999999 999999999988

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

Probab=97.98  E-value=3.4e-05  Score=64.79  Aligned_cols=76  Identities=21%  Similarity=0.232  Sum_probs=60.9

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcC--CCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEee----eeeeE
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGC--GQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLG----FYPVR  326 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~--G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~----Gr~L~  326 (437)
                      ++||.|+|||...|.++|.+++...  |..--+.++.|..+  +.|||||.|.+++.|.+-.+ ++|..+.    .+...
T Consensus         1 RTTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~~w~~~~s~Kvc~   80 (97)
T PF04059_consen    1 RTTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGKKWPNFNSKKVCE   80 (97)
T ss_pred             CeeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCCccccCCCCcEEE
Confidence            4799999999999999999998753  66666777766544  69999999999999999998 9998874    33455


Q ss_pred             EeccC
Q 013726          327 VLPSK  331 (437)
Q Consensus       327 V~~s~  331 (437)
                      |.+++
T Consensus        81 i~yAr   85 (97)
T PF04059_consen   81 ISYAR   85 (97)
T ss_pred             EehhH
Confidence            55553

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

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

Probab=97.97  E-value=8.3e-06  Score=88.35  Aligned_cols=77  Identities=25%  Similarity=0.424  Sum_probs=66.5

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCch--hhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS--IAWL  427 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~--i~~~  427 (437)
                      ..+++||||+.|+..++|.||.++|+.| |+|.+|.+..    +||.|||......+|.+|+.....|......  |.||
T Consensus       418 sV~SrTLwvG~i~k~v~e~dL~~~feef-GeiqSi~li~----~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa  492 (894)
T KOG0132|consen  418 SVCSRTLWVGGIPKNVTEQDLANLFEEF-GEIQSIILIP----PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWA  492 (894)
T ss_pred             eEeeeeeeeccccchhhHHHHHHHHHhc-ccceeEeecc----CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeee
Confidence            5678999999999999999999999995 9999999874    5669999999999999999888877666654  5998


Q ss_pred             hhhc
Q 013726          428 EEFS  431 (437)
Q Consensus       428 ~~~s  431 (437)
                      --|.
T Consensus       493 ~g~G  496 (894)
T KOG0132|consen  493 VGKG  496 (894)
T ss_pred             ccCC
Confidence            6553

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

Probab=97.96  E-value=1.8e-05  Score=74.93  Aligned_cols=74  Identities=19%  Similarity=0.320  Sum_probs=58.8

Q ss_pred             cEEEEEcCCccCCHHHHHH----HhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKL----FFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLre----lF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .||||.||+..+..++|+.    +|++| |+|..|...+ +.+.||.|||.|.+.+.|-.|+....++.....  .|+||
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqf-G~ildI~a~k-t~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA   87 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQF-GKILDISAFK-TPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYA   87 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhh-CCeEEEEecC-CCCccCceEEEecChhHHHHHHHHhcCCcccCchhheecc
Confidence            4999999999999999998    99996 9999998765 456899999999999888666666555433332  47777


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      .+
T Consensus        88 ~s   89 (221)
T KOG4206|consen   88 KS   89 (221)
T ss_pred             cC
Confidence            54

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=97.95  E-value=4.6e-05  Score=81.79  Aligned_cols=166  Identities=14%  Similarity=0.027  Sum_probs=113.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-C-ceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-V-LRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s-~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      .+.+.+-+++.++++...+++++|... .|..+.+..+.-. + .|-++|+|....++.+|++-+...+-.+.+.+.+..
T Consensus       309 ~d~~y~~~~gm~fn~~~nd~rkfF~g~-~~~~~~l~~~~v~~~~tG~~~v~f~~~~~~q~A~~rn~~~~~~R~~q~~P~g  387 (944)
T KOG4307|consen  309 SDKYYNNYKGMEFNNDFNDGRKFFPGR-NAQSTDLSENRVAPPQTGRKTVMFTPQAPFQNAFTRNPSDDVNRPFQTGPPG  387 (944)
T ss_pred             chhheeeecccccccccchhhhhcCcc-cccccchhhhhcCCCcCCceEEEecCcchHHHHHhcCchhhhhcceeecCCC
Confidence            445567778999999999999999743 2333334333221 2 689999999999999999978777778888887653


Q ss_pred             CCCC----------C--------CCCCCCCCChhh-------hcccccEEEEEcCCccCCHHHHHHHhhhcCCceEE-EE
Q 013726          332 TAIA----------P--------VNPTFLPRTEDE-------REMCARTIYCTNIDKKVTQADVKLFFESVCGEVYR-LR  385 (437)
Q Consensus       332 ~~~~----------~--------~~~~~~pr~~~~-------~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~-v~  385 (437)
                      ...-          .        ..+.-.++....       -......|||..||..+++.++-++|... -.|+. |.
T Consensus       388 ~~~~~~a~~~~~~~~~~~~~~~hg~p~~~pr~~~~~gq~vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~-~~Ved~I~  466 (944)
T KOG4307|consen  388 NLGRNGAPPFQAGVPPPVIQNNHGRPIAPPRAMVRPGQNVPFPGGAGGALYVFQLPVMTPIVPPVNKFMGA-AAVEDFIE  466 (944)
T ss_pred             ccccccCccccccCCCCcccccCCCCCCCcccccCCCCCCCCCCCccceEEeccCCccccccchhhhhhhh-hhhhheeE
Confidence            2100          0        000011111110       12345799999999999999999999986 45555 55


Q ss_pred             Eecc-CCCcceEEEEEeCCHHHHHHHHhhcCc-eeccC
Q 013726          386 LLGD-YHHSTRIAFVEFVMVIASSTLFIHTEF-YILHN  421 (437)
Q Consensus       386 i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~-~~~~~  421 (437)
                      |-+- ++..++-|||.|...+++.+|+..++. |+.|.
T Consensus       467 lt~~P~~~~~~~afv~F~~~~a~~~a~~~~~k~y~G~r  504 (944)
T KOG4307|consen  467 LTRLPTDLLRPAAFVAFIHPTAPLTASSVKTKFYPGHR  504 (944)
T ss_pred             eccCCcccccchhhheeccccccchhhhcccccccCce
Confidence            5554 677889999999998888666555544 55544

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

Probab=97.94  E-value=1.2e-05  Score=80.48  Aligned_cols=69  Identities=14%  Similarity=0.355  Sum_probs=60.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +.+.|||..|.+-+|++||.-+|+.| |.|.+|.|++|  +|.+--||||+|++.+++.+|.-.+...++..
T Consensus       238 PeNVLFVCKLNPVTtDeDLeiIFSrF-G~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDD  308 (479)
T KOG0415|consen  238 PENVLFVCKLNPVTTDEDLEIIFSRF-GKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDD  308 (479)
T ss_pred             CcceEEEEecCCcccccchhhHHhhc-ccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeecc
Confidence            34899999999999999999999996 99999999998  67788899999999999988877666665544

>KOG0226 consensus RNA-binding proteins [General function prediction only]

Probab=97.86  E-value=1.3e-05  Score=77.10  Aligned_cols=79  Identities=18%  Similarity=0.345  Sum_probs=71.6

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .+.+...||.|.|..+++++-|...|.+|-.....++++|+.+  ++||+||.|.+.+++..|++ |+|..++.++|++.
T Consensus       186 w~~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~gkyVgsrpiklR  265 (290)
T KOG0226|consen  186 WDEDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLR  265 (290)
T ss_pred             CccccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcccccccchhHhh
Confidence            4556788999999999999999999999988888899988866  69999999999999999999 99999999999886


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      .+
T Consensus       266 kS  267 (290)
T KOG0226|consen  266 KS  267 (290)
T ss_pred             hh
Confidence            64

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

Probab=97.85  E-value=6.5e-05  Score=63.09  Aligned_cols=64  Identities=22%  Similarity=0.141  Sum_probs=54.2

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhc-CCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESV-CGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f-~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      +||.|+|||...|.++|.+++... .|....+-+|.|  ++.+.|||||-|.+++.|.+....-++.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g~   68 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNGK   68 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcCC
Confidence            799999999999999999988754 477888889988  4459999999999999997776666554

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

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=97.68  E-value=2.1e-05  Score=79.50  Aligned_cols=157  Identities=18%  Similarity=0.218  Sum_probs=114.7

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-----CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-----VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-----s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..|-|.||.+++|.++++.+|.-+|.|..+++......     ....|||.|.+...+..|.-|.++++-++.|.|-+.-
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtntvfvdraliv~p~~   87 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTNTVFVDRALIVRPYG   87 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhccceeeeeeEEEEecC
Confidence            37999999999999999999999999999999764432     3779999999999999998888898888888876643


Q ss_pred             CCCCCCC----------------------CCCC---------------C---CCh--hhhcccccEEEEEcCCccCCHHH
Q 013726          332 TAIAPVN----------------------PTFL---------------P---RTE--DEREMCARTIYCTNIDKKVTQAD  369 (437)
Q Consensus       332 ~~~~~~~----------------------~~~~---------------p---r~~--~~~~~~~~tL~V~NLp~~vteed  369 (437)
                      ....+..                      +...               |   ...  ..-....++++|.+|+..+...+
T Consensus        88 ~~~~p~r~af~~l~~~navprll~pdg~Lp~~~~lt~~nh~p~ailktP~Lp~~~~A~kleeirRt~~v~sl~~~~~l~e  167 (479)
T KOG4676|consen   88 DEVIPDRFAFVELADQNAVPRLLPPDGVLPGDRPLTKINHSPNAILKTPELPPQAAAKKLEEIRRTREVQSLISAAILPE  167 (479)
T ss_pred             CCCCccHHHHHhcCcccccccccCCCCccCCCCccccccCCccceecCCCCChHhhhhhhHHHHhhhhhhcchhhhcchh
Confidence            2211100                      0000               0   000  01123347899999999999999


Q ss_pred             HHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          370 VKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       370 LrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      +-+.|+.+ |+|...++.-...  .-+|.++|....+...++...+.
T Consensus       168 ~~e~f~r~-Gev~ya~~ask~~--s~~c~~sf~~qts~~halr~~gr  211 (479)
T KOG4676|consen  168 SGESFERK-GEVSYAHTASKSR--SSSCSHSFRKQTSSKHALRSHGR  211 (479)
T ss_pred             hhhhhhhc-chhhhhhhhccCC--CcchhhhHhhhhhHHHHHHhcch
Confidence            99999996 9998887754432  23677888877666666655543

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

Probab=97.67  E-value=5.9e-05  Score=75.43  Aligned_cols=75  Identities=23%  Similarity=0.288  Sum_probs=57.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc--eeccCc-hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF--YILHNP-SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~--~~~~~~-~i~~~~  428 (437)
                      ..++|||++|...+++.||+++|-+| |+|.++++....+    .|||+|.+.++|..|....-.  +|-+.. .|.|.+
T Consensus       227 ~I~tLyIg~l~d~v~e~dIrdhFyqy-Geirsi~~~~~~~----CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~  301 (377)
T KOG0153|consen  227 SIKTLYIGGLNDEVLEQDIRDHFYQY-GEIRSIRILPRKG----CAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGR  301 (377)
T ss_pred             ceeEEEecccccchhHHHHHHHHhhc-CCeeeEEeecccc----cceeeehhhHHHHHHHHhhcceeeecceEEEEEeCC
Confidence            45899999999999999999999995 9999999986544    999999999999555443322  222222 577887


Q ss_pred             hhc
Q 013726          429 EFS  431 (437)
Q Consensus       429 ~~s  431 (437)
                      .+.
T Consensus       302 ~~~  304 (377)
T KOG0153|consen  302 PKQ  304 (377)
T ss_pred             Ccc
Confidence            744

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=97.65  E-value=6.1e-05  Score=72.88  Aligned_cols=65  Identities=29%  Similarity=0.451  Sum_probs=58.0

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      ....+.+||+|+++.+|.+++...|+. ||.|..+.+++|  .++++|||||+|.+.+.++.++....
T Consensus        98 ~~d~~sv~v~nvd~~~t~~~~e~hf~~-Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~g  164 (231)
T KOG4209|consen   98 EVDAPSVWVGNVDFLVTLTKIELHFES-CGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDG  164 (231)
T ss_pred             ccCCceEEEeccccccccchhhheeec-cCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCC
Confidence            445689999999999999999999998 899999999998  45699999999999999999988433

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

Probab=97.55  E-value=9.9e-05  Score=76.96  Aligned_cols=67  Identities=18%  Similarity=0.194  Sum_probs=55.5

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC--CCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY--HHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~--g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+|||+|||.++++.+|+++|..| |.|+...|....  ++..+||||+|.+.++++.++.....++...
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~F-G~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp~~ig~~  357 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQF-GPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASPLEIGGR  357 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhc-ccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCccccCCe
Confidence            459999999999999999999995 999999887763  4444899999999999977777665554443

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

Probab=97.49  E-value=0.00021  Score=69.37  Aligned_cols=67  Identities=22%  Similarity=0.164  Sum_probs=59.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ...+|+|.|||+.++++||+++|..| |+++.+-+..+ .|.+.|.|=|.|...++|.+++..-+.+.+
T Consensus        82 ~~~~v~v~NL~~~V~~~Dl~eLF~~~-~~~~r~~vhy~~~G~s~Gta~v~~~r~~DA~~avk~~~gv~l  149 (243)
T KOG0533|consen   82 RSTKVNVSNLPYGVIDADLKELFAEF-GELKRVAVHYDRAGRSLGTADVSFNRRDDAERAVKKYNGVAL  149 (243)
T ss_pred             CcceeeeecCCcCcchHHHHHHHHHh-ccceEEeeccCCCCCCCccceeeecchHhHHHHHHHhcCccc
Confidence            34799999999999999999999996 99999999998 788999999999999999888777666433

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

Probab=97.26  E-value=0.00042  Score=73.12  Aligned_cols=75  Identities=16%  Similarity=0.263  Sum_probs=65.4

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC--CCcceEEEEEeCCHHHHHHHHhhcCceeccCchhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY--HHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~--g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~  425 (437)
                      ....++|+|.+|...+-..||+.||++| |.|.-.+++.+.  -..+.|+||++.+.++|.+++.|.|.--+|-..|.
T Consensus       402 s~~gRNlWVSGLSstTRAtDLKnlFSKy-GKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmIS  478 (940)
T KOG4661|consen  402 STLGRNLWVSGLSSTTRATDLKNLFSKY-GKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMIS  478 (940)
T ss_pred             cccccceeeeccccchhhhHHHHHHHHh-cceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeee
Confidence            5567899999999999999999999996 999999998873  23788999999999999999999998777775543

>KOG0128 consensus RNA-binding protein SART3 (RRM superfamily) [RNA processing and modification]

Probab=97.23  E-value=2.8e-05  Score=85.21  Aligned_cols=158  Identities=15%  Similarity=0.098  Sum_probs=117.4

Q ss_pred             CCcEEEEecCCccchHH-HHHHHHhcCCCeeEEEEeeCC-C-CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEE-QLAALFVGCGQVVDCRICGDP-N-SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee-~L~~~F~~~G~I~~vri~~d~-~-~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..+...+.|+.+..... ..+..|..+|.|..++..... + ...-++++++....++..|....+..+.++.+.|..+.
T Consensus       570 ~~~e~~s~~v~p~~~~ke~~~~~~k~~~~vekv~~p~~g~k~h~q~~~~~~~s~~~~~esat~pa~~~~a~~~~av~~ad  649 (881)
T KOG0128|consen  570 ERREKESTNVYPEQQKKEIQRRQFKGEGNVEKVNGPKRGFKAHEQPQQQKVQSKHGSAESATVPAGGALANRSAAVGLAD  649 (881)
T ss_pred             hhhhhcccCCCcchhhHHhhHHHhhcccccccccCccccccccccchhhhhhccccchhhcccccccccCCccccCCCCC
Confidence            34557788888877666 567788899999999886522 2 22338999999999999999988888888888887765


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEe--ccCCCcceEEEEEeCCHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLL--GDYHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~--kd~g~srGfAFVeF~s~e~A~k  409 (437)
                      ...........+..    .....++|++||+..+.++||...|..+ |.+..+++.  .+.+..||+||++|..+++|.+
T Consensus       650 ~~~~~~~~kvs~n~----~R~~~~~fvsnl~~~~~~~dl~~~~~~~-~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~a  724 (881)
T KOG0128|consen  650 AEEKEENFKVSPNE----IRDLIKIFVSNLSPKMSEEDLSERFSPS-GTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGA  724 (881)
T ss_pred             chhhhhccCcCchH----HHHHHHHHHhhcchhhcCchhhhhcCcc-chhhhHHHHHHhhccccccceeeEeecCCchhh
Confidence            33222222222211    1234689999999999999999999985 888877665  4477899999999999999988


Q ss_pred             HHhhcCce
Q 013726          410 LFIHTEFY  417 (437)
Q Consensus       410 al~~~~~~  417 (437)
                      +++.....
T Consensus       725 aV~f~d~~  732 (881)
T KOG0128|consen  725 AVAFRDSC  732 (881)
T ss_pred             hhhhhhhh
Confidence            77665543

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

Probab=97.23  E-value=0.00029  Score=66.84  Aligned_cols=64  Identities=25%  Similarity=0.404  Sum_probs=54.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML  320 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l  320 (437)
                      ...||||.||.+++||++|+.+|+.|-....+++..  ..++..||++|++.+.|..||. |+|..|
T Consensus       209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~--~~g~~vaf~~~~~~~~at~am~~lqg~~~  273 (284)
T KOG1457|consen  209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIRA--RGGMPVAFADFEEIEQATDAMNHLQGNLL  273 (284)
T ss_pred             hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEec--CCCcceEeecHHHHHHHHHHHHHhhccee
Confidence            346899999999999999999999998776666632  3357899999999999999999 988766

>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=97.21  E-value=0.00092  Score=56.95  Aligned_cols=57  Identities=16%  Similarity=0.208  Sum_probs=37.0

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      ..|+|.+++..++.++|++.|++| |.|..|.+.+...    .|||.|.+.++|++++....
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~-g~V~yVD~~~G~~----~g~VRf~~~~~A~~a~~~~~   58 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQF-GEVAYVDFSRGDT----EGYVRFKTPEAAQKALEKLK   58 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS---EEEEE--TT-S----EEEEEESS---HHHHHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhc-CCcceEEecCCCC----EEEEEECCcchHHHHHHHHH
Confidence            468999999999999999999995 9999999887655    79999999999988766433

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

>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=97.19  E-value=0.00072  Score=55.04  Aligned_cols=67  Identities=24%  Similarity=0.269  Sum_probs=45.9

Q ss_pred             cEEEEecCCccchHHH----HHHHHhcCC-CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQ----LAALFVGCG-QVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~----L~~~F~~~G-~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..|+|.|||.+.+...    |+.++..|| .|.+|.        .+.|+|-|.+++.|.+|.+ |+|..+.|.+|.|.+.
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v~--------~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSVS--------GGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE----------TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEEe--------CCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            4699999999877655    555666776 555541        2689999999999999999 9999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        75 ~   75 (90)
T PF11608_consen   75 P   75 (90)
T ss_dssp             -
T ss_pred             C
Confidence            4

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=97.14  E-value=0.00067  Score=71.68  Aligned_cols=65  Identities=23%  Similarity=0.338  Sum_probs=53.5

Q ss_pred             hhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          347 DEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       347 ~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      .+.....++|+|-|||.++++++|+.+|+.| |+|+.|+.-.   ..+|..||+|-+..+|++|+....
T Consensus        69 ~~~~~~~~~L~v~nl~~~Vsn~~L~~~f~~y-Geir~ir~t~---~~~~~~~v~FyDvR~A~~Alk~l~  133 (549)
T KOG4660|consen   69 SEKDMNQGTLVVFNLPRSVSNDTLLRIFGAY-GEIREIRETP---NKRGIVFVEFYDVRDAERALKALN  133 (549)
T ss_pred             CcccCccceEEEEecCCcCCHHHHHHHHHhh-cchhhhhccc---ccCceEEEEEeehHhHHHHHHHHH
Confidence            3445667999999999999999999999995 9999965543   466799999999998877766543

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

Probab=97.13  E-value=0.0012  Score=63.06  Aligned_cols=71  Identities=27%  Similarity=0.360  Sum_probs=61.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....+.+.|.|++..+.+++|.+.|..+|.+.....      ..+++||+|.+.++|..|+. +++..+.++.|.+..
T Consensus        96 ~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~------~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~~~  167 (216)
T KOG0106|consen   96 SRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA------RRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISVEK  167 (216)
T ss_pred             ccccceeeeccchhhhhHHHHhhhhcccCCCchhhh------hccccceeehhhhhhhhcchhccchhhcCceeeecc
Confidence            345677999999999999999999999999854444      24699999999999999999 999999999999943

>KOG2193 consensus IGF-II mRNA-binding protein IMP, contains RRM and KH domains [RNA processing and modification; General function prediction only]

Probab=97.07  E-value=7.3e-05  Score=76.36  Aligned_cols=137  Identities=18%  Similarity=0.207  Sum_probs=101.4

Q ss_pred             EEEEecCCccchHHHHHHHHhcC--CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeE-eeeeeeEEeccCCC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGC--GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTM-LGFYPVRVLPSKTA  333 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~--G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~-l~Gr~L~V~~s~~~  333 (437)
                      .+|++||.+..+..+|..+|...  +.-..+-+      ..||+||.+.+...|.+|++ ++|.. +.|+++.+.++-. 
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~-   75 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP-   75 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceee------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh-
Confidence            58999999999999999999753  11111111      24899999999999999999 88875 8899999887631 


Q ss_pred             CCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHh
Q 013726          334 IAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       334 ~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~  412 (437)
                                .     ...++++-|+|+|+..-.+-|..|..+| |.+++|..... ..  .-.-=|+|.+.+.++.++.
T Consensus        76 ----------k-----kqrsrk~Qirnippql~wevld~Ll~qy-g~ve~~eqvnt~~e--tavvnvty~~~~~~~~ai~  137 (584)
T KOG2193|consen   76 ----------K-----KQRSRKIQIRNIPPQLQWEVLDSLLAQY-GTVENCEQVNTDSE--TAVVNVTYSAQQQHRQAIH  137 (584)
T ss_pred             ----------H-----HHHhhhhhHhcCCHHHHHHHHHHHHhcc-CCHhHhhhhccchH--HHHHHHHHHHHHHHHHHHH
Confidence                      1     1234679999999999999999999995 99999976432 22  1122266777788877766


Q ss_pred             hcCceec
Q 013726          413 HTEFYIL  419 (437)
Q Consensus       413 ~~~~~~~  419 (437)
                      +.++..+
T Consensus       138 kl~g~Q~  144 (584)
T KOG2193|consen  138 KLNGPQL  144 (584)
T ss_pred             hhcchHh
Confidence            6655443

>KOG4454 consensus RNA binding protein (RRM superfamily) [General function prediction only]

Probab=96.96  E-value=0.00042  Score=65.62  Aligned_cols=67  Identities=18%  Similarity=0.155  Sum_probs=57.1

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+||||.|+-..++|+-|.++|-+. |+|..|.|+.+ .++.+ ||||.|.+.-+..-|....++..+-+
T Consensus         9 drtl~v~n~~~~v~eelL~Elfiqa-GPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~   76 (267)
T KOG4454|consen    9 DRTLLVQNMYSGVSEELLSELFIQA-GPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEE   76 (267)
T ss_pred             hhHHHHHhhhhhhhHHHHHHHhhcc-CceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhcc
Confidence            3799999999999999999999996 99999999988 55566 99999999888877776666654444

>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]

Probab=96.83  E-value=0.021  Score=62.10  Aligned_cols=73  Identities=21%  Similarity=0.204  Sum_probs=61.0

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCe-eEEEEeeCCC-CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQV-VDCRICGDPN-SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I-~~vri~~d~~-~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .+.|-+.|+|++++-+||.++|..|-.+ .+|++..+.+ ...|-|.|.|++.++|.+|.. +++..|..+.+++.
T Consensus       867 p~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~  942 (944)
T KOG4307|consen  867 PRVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLR  942 (944)
T ss_pred             CeEEEecCCCccccHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEE
Confidence            3478899999999999999999998654 3455554443 368999999999999999988 99999999888764

>KOG4676 consensus Splicing factor, arginine/serine-rich [RNA processing and modification]

Probab=96.83  E-value=0.00049  Score=69.93  Aligned_cols=69  Identities=19%  Similarity=0.142  Sum_probs=58.5

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEee
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLG  321 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~  321 (437)
                      ..++..+|++|.+|+..+...++.+.|..+|+|...++.....  .-+|-++|....+...|+.++|..+.
T Consensus       146 kleeirRt~~v~sl~~~~~l~e~~e~f~r~Gev~ya~~ask~~--s~~c~~sf~~qts~~halr~~gre~k  214 (479)
T KOG4676|consen  146 KLEEIRRTREVQSLISAAILPESGESFERKGEVSYAHTASKSR--SSSCSHSFRKQTSSKHALRSHGRERK  214 (479)
T ss_pred             hhHHHHhhhhhhcchhhhcchhhhhhhhhcchhhhhhhhccCC--CcchhhhHhhhhhHHHHHHhcchhhh
Confidence            4566779999999999999999999999999999888864443  34778999999999999998887765

>KOG0151 consensus Predicted splicing regulator, contains RRM, SWAP and RPR domains [General function prediction only]

Probab=96.77  E-value=0.0018  Score=70.07  Aligned_cols=79  Identities=13%  Similarity=0.226  Sum_probs=64.1

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-----CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-----YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--  422 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-----~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--  422 (437)
                      ...+++|||+||++.++++.|...|..| |+|.+++|...     ....+-.|||-|.+..+|.+|+....+.+...-  
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrf-gPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg~iv~~~e~  249 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRF-GPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQGIIVMEYEM  249 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhccc-CcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcceeeeeeee
Confidence            3456899999999999999999999995 99999998754     123556899999999999999988887655443  


Q ss_pred             hhhhhhh
Q 013726          423 SIAWLEE  429 (437)
Q Consensus       423 ~i~~~~~  429 (437)
                      .+.|++.
T Consensus       250 K~gWgk~  256 (877)
T KOG0151|consen  250 KLGWGKA  256 (877)
T ss_pred             eeccccc
Confidence            5777654

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

Probab=96.75  E-value=0.0041  Score=52.97  Aligned_cols=54  Identities=19%  Similarity=0.311  Sum_probs=36.3

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN  314 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~  314 (437)
                      ..|.|.+++..++-++|++.|+.||.|..|.+....    ..|+|-|.++++|..|+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~----~~g~VRf~~~~~A~~a~~   55 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGD----TEGYVRFKTPEAAQKALE   55 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-----SEEEEEESS---HHHHHH
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCC----CEEEEEECCcchHHHHHH
Confidence            458899999999999999999999999999886544    389999999999999987

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

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

Probab=96.62  E-value=0.0062  Score=45.38  Aligned_cols=52  Identities=12%  Similarity=0.200  Sum_probs=42.3

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHH
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal  411 (437)
                      +.|-|.+.+.+..+ ++...|.. ||+|..+.+.....    +.+|.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~~-~vl~~F~~-fGeI~~~~~~~~~~----~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAE-EVLEHFAS-FGEIVDIYVPESTN----WMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHH-HHHHHHHh-cCCEEEEEcCCCCc----EEEEEECCHHHHHhhC
Confidence            57889999977664 45668888 59999998874444    8999999999998885

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

Probab=96.61  E-value=0.0066  Score=45.23  Aligned_cols=52  Identities=19%  Similarity=0.400  Sum_probs=42.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHH
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL  313 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al  313 (437)
                      +.|-|.+.+++.. +.+...|.+||+|..+.+....    .+.+|.|.+..+|++||
T Consensus         2 ~wI~V~Gf~~~~~-~~vl~~F~~fGeI~~~~~~~~~----~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLA-EEVLEHFASFGEIVDIYVPEST----NWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHH-HHHHHHHHhcCCEEEEEcCCCC----cEEEEEECCHHHHHhhC
Confidence            5788999998766 4456689999999998886333    49999999999999985

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

Probab=96.37  E-value=0.0073  Score=60.76  Aligned_cols=83  Identities=14%  Similarity=0.239  Sum_probs=59.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE--------EEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR--------LRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--------v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ..+.|||.|||.++|.+++.++|++ ||-|.+        |++.++ .|+.+|=|.+.|--.++..=|+.+.+...++.-
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sK-cGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~  211 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSK-CGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDELRGK  211 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHh-cceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccccCc
Confidence            3467999999999999999999999 798854        777777 788999898888777776555555554433332


Q ss_pred             h--hhhhh-hhcCCcc
Q 013726          423 S--IAWLE-EFSGEYL  435 (437)
Q Consensus       423 ~--i~~~~-~~sg~~~  435 (437)
                      .  ++-|. ++.|+|-
T Consensus       212 ~~rVerAkfq~Kge~~  227 (382)
T KOG1548|consen  212 KLRVERAKFQMKGEYD  227 (382)
T ss_pred             EEEEehhhhhhccCcC
Confidence            2  33232 5566664

>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=96.35  E-value=0.023  Score=47.98  Aligned_cols=75  Identities=21%  Similarity=0.221  Sum_probs=51.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEe-eC-------C-CCCceEEEEEEcCHHHHHHHHHhcCeEeeeee-
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC-GD-------P-NSVLRFAFIEFTDEEGARAALNLAGTMLGFYP-  324 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~-~d-------~-~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~-  324 (437)
                      ..+.|.|-+.|+..+ ..+.+.|++||.|.+..-. ++       + .....+-.|.|.++.+|.+||..||..+.|.- 
T Consensus         5 ~~~wVtVFGfp~~~~-~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~~m   83 (100)
T PF05172_consen    5 SETWVTVFGFPPSAS-NQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGSLM   83 (100)
T ss_dssp             GCCEEEEE---GGGH-HHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTCEE
T ss_pred             CCeEEEEEccCHHHH-HHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCcEE
Confidence            456788999999854 6677889999999877511 11       0 11345999999999999999999999998754 


Q ss_pred             eEEecc
Q 013726          325 VRVLPS  330 (437)
Q Consensus       325 L~V~~s  330 (437)
                      +-|.+.
T Consensus        84 vGV~~~   89 (100)
T PF05172_consen   84 VGVKPC   89 (100)
T ss_dssp             EEEEE-
T ss_pred             EEEEEc
Confidence            445554

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.

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

Probab=96.26  E-value=0.0041  Score=62.78  Aligned_cols=79  Identities=23%  Similarity=0.331  Sum_probs=67.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeE--------EEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD--------CRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLG  321 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~--------vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~  321 (437)
                      ....-||||-+||..+++++|.++|.+||.|..        +.+-+|+.+  ++|-|.|.|.+...|++|+. +++..+.
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~  142 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFC  142 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcccccc
Confidence            345678999999999999999999999998753        334445554  69999999999999999999 9999999


Q ss_pred             eeeeEEeccC
Q 013726          322 FYPVRVLPSK  331 (437)
Q Consensus       322 Gr~L~V~~s~  331 (437)
                      +..|+|..+.
T Consensus       143 gn~ikvs~a~  152 (351)
T KOG1995|consen  143 GNTIKVSLAE  152 (351)
T ss_pred             CCCchhhhhh
Confidence            9999998764

>KOG0129 consensus Predicted RNA-binding protein (RRM superfamily) [Translation, ribosomal structure and biogenesis]

Probab=96.09  E-value=0.02  Score=60.42  Aligned_cols=62  Identities=26%  Similarity=0.312  Sum_probs=56.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHh-cCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFV-GCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN  314 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~-~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~  314 (437)
                      -..++|||||+||.-++.++|..+|. -||.|..+-|-.|++-  ++|-|=|.|.+..+-.+||.
T Consensus       367 lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIs  431 (520)
T KOG0129|consen  367 IDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAIS  431 (520)
T ss_pred             cCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHh
Confidence            35679999999999999999999999 6999999999888643  69999999999999999998

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

Probab=95.96  E-value=0.0084  Score=61.82  Aligned_cols=66  Identities=29%  Similarity=0.490  Sum_probs=56.7

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeC---CCC------------CceEEEEEEcCHHHHHHHHH-
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD---PNS------------VLRFAFIEFTDEEGARAALN-  314 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d---~~~------------s~GfaFVeF~~~e~A~~Al~-  314 (437)
                      .++...+||.+-|||.+-.-+.|.++|..+|.|..|+|+..   +..            .+-+|+|+|...+.|.+|.+ 
T Consensus       226 ~eel~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~  305 (484)
T KOG1855|consen  226 EEELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKAREL  305 (484)
T ss_pred             ccccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHh
Confidence            45568899999999999999999999999999999999865   221            14589999999999999999 


Q ss_pred             hc
Q 013726          315 LA  316 (437)
Q Consensus       315 ln  316 (437)
                      |+
T Consensus       306 ~~  307 (484)
T KOG1855|consen  306 LN  307 (484)
T ss_pred             hc
Confidence            53

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.90  E-value=0.016  Score=58.27  Aligned_cols=75  Identities=21%  Similarity=0.354  Sum_probs=59.6

Q ss_pred             cEEEEecCCccchHHHH------HHHHhcCCCeeEEEEeeCC---CCCceEE--EEEEcCHHHHHHHHH-hcCeEeeeee
Q 013726          257 RTVYVSDIDQQVTEEQL------AALFVGCGQVVDCRICGDP---NSVLRFA--FIEFTDEEGARAALN-LAGTMLGFYP  324 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L------~~~F~~~G~I~~vri~~d~---~~s~Gfa--FVeF~~~e~A~~Al~-lng~~l~Gr~  324 (437)
                      .-+||-+||+.+..++.      .++|.+||.|..+.+-+..   ++..+.+  ||.|.+.|+|.+|+. .+|..++|+-
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DGr~  194 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDGRV  194 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccCce
Confidence            45899999999887773      4689999999888774322   1123433  999999999999999 9999999999


Q ss_pred             eEEeccC
Q 013726          325 VRVLPSK  331 (437)
Q Consensus       325 L~V~~s~  331 (437)
                      |+..+..
T Consensus       195 lkatYGT  201 (480)
T COG5175         195 LKATYGT  201 (480)
T ss_pred             EeeecCc
Confidence            9988754

>KOG4210 consensus Nuclear localization sequence binding protein [Transcription]

Probab=95.87  E-value=0.0046  Score=61.74  Aligned_cols=77  Identities=26%  Similarity=0.471  Sum_probs=66.0

Q ss_pred             CCcEEE-EecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVY-VSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLf-VgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++| |+||++.+++++|+..|..+|.|..+++..++.+  .+|||+|.|.....+..++..+...+.++++.+....
T Consensus       183 ~s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  262 (285)
T KOG4210|consen  183 PSDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQTRSIGGRPLRLEEDE  262 (285)
T ss_pred             ccccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhcccCcccCcccccccCC
Confidence            334555 9999999999999999999999999999887766  4999999999999988888776667888888888754

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=95.79  E-value=0.024  Score=51.00  Aligned_cols=55  Identities=29%  Similarity=0.439  Sum_probs=46.7

Q ss_pred             HHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          271 EQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       271 e~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      .+|.+.|..||.+.-+|+..+      .-+|.|.+.++|.+|+.++|..++|+.|+|....
T Consensus        51 ~~ll~~~~~~GevvLvRfv~~------~mwVTF~dg~sALaals~dg~~v~g~~l~i~LKt  105 (146)
T PF08952_consen   51 DELLQKFAQYGEVVLVRFVGD------TMWVTFRDGQSALAALSLDGIQVNGRTLKIRLKT  105 (146)
T ss_dssp             HHHHHHHHCCS-ECEEEEETT------CEEEEESSCHHHHHHHHGCCSEETTEEEEEEE--
T ss_pred             HHHHHHHHhCCceEEEEEeCC------eEEEEECccHHHHHHHccCCcEECCEEEEEEeCC
Confidence            367778899999998988754      5799999999999999999999999999998864

; PDB: 1UFW_A 2DNR_A.

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=95.67  E-value=0.0054  Score=59.44  Aligned_cols=70  Identities=20%  Similarity=0.250  Sum_probs=59.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC----------C----ceEEEEEEcCHHHHHHHHH-hcCeE
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS----------V----LRFAFIEFTDEEGARAALN-LAGTM  319 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~----------s----~GfaFVeF~~~e~A~~Al~-lng~~  319 (437)
                      ....||+++||+.+...-|+++|+.||.|-.|.+......          +    ..-|+|+|.+...|..+.. ||+..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn~~  152 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNNTP  152 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCCCc
Confidence            3467999999999999999999999999999998654422          1    2357899999999999988 99999


Q ss_pred             eeeee
Q 013726          320 LGFYP  324 (437)
Q Consensus       320 l~Gr~  324 (437)
                      |+|+.
T Consensus       153 Iggkk  157 (278)
T KOG3152|consen  153 IGGKK  157 (278)
T ss_pred             cCCCC
Confidence            99975

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

Probab=95.65  E-value=0.022  Score=58.80  Aligned_cols=64  Identities=20%  Similarity=0.237  Sum_probs=53.0

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-------CCCc--------ceEEEEEeCCHHHHHHHHhhc
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-------YHHS--------TRIAFVEFVMVIASSTLFIHT  414 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-------~g~s--------rGfAFVeF~s~e~A~kal~~~  414 (437)
                      +.++++|.+.|||.+-.-+.|.++|+. ||.|.+|+|++.       .+.+        +-.|+|+|+..+.|.+|....
T Consensus       228 el~srtivaenLP~Dh~~enl~kiFg~-~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~  306 (484)
T KOG1855|consen  228 ELPSRTIVAENLPLDHSYENLSKIFGT-VGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL  306 (484)
T ss_pred             ccccceEEEecCCcchHHHHHHHHhhc-ccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence            457799999999999999999999999 599999999875       1112        336999999999998886655

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=95.58  E-value=0.031  Score=59.56  Aligned_cols=76  Identities=20%  Similarity=0.206  Sum_probs=60.4

Q ss_pred             cCCcEEEEecCCccch--H----HHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEee-eee
Q 013726          254 IIRRTVYVSDIDQQVT--E----EQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLG-FYP  324 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~t--e----e~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~-Gr~  324 (437)
                      .....|+|-|+|.--.  .    .-|..+|+++|+++.+.+..+..+ .+||.|++|.+..+|..|++ +||+.|+ .|.
T Consensus        56 g~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ldknHt  135 (698)
T KOG2314|consen   56 GFDSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLDKNHT  135 (698)
T ss_pred             CcceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceecccce
Confidence            4556799999986322  2    345678999999999999877765 59999999999999999999 9999986 456


Q ss_pred             eEEec
Q 013726          325 VRVLP  329 (437)
Q Consensus       325 L~V~~  329 (437)
                      +.|..
T Consensus       136 f~v~~  140 (698)
T KOG2314|consen  136 FFVRL  140 (698)
T ss_pred             EEeeh
Confidence            66654

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=95.19  E-value=0.03  Score=54.42  Aligned_cols=84  Identities=20%  Similarity=0.138  Sum_probs=69.4

Q ss_pred             HHHHHHH-hcCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEE
Q 013726          308 GARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRL  386 (437)
Q Consensus       308 ~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i  386 (437)
                      -|..|-. |++....|+.+.|.++.                    . ..|||.||..-+..+.+.+-|+.| |+|....+
T Consensus         6 ~ae~ak~eLd~~~~~~~~lr~rfa~--------------------~-a~l~V~nl~~~~sndll~~~f~~f-g~~e~av~   63 (275)
T KOG0115|consen    6 LAEIAKRELDGRFPKGRSLRVRFAM--------------------H-AELYVVNLMQGASNDLLEQAFRRF-GPIERAVA   63 (275)
T ss_pred             HHHHHHHhcCCCCCCCCceEEEeec--------------------c-ceEEEEecchhhhhHHHHHhhhhc-Cccchhee
Confidence            3555655 88999999999999864                    1 589999999999999999999995 99998777


Q ss_pred             ecc-CCCcceEEEEEeCCHHHHHHHHhh
Q 013726          387 LGD-YHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       387 ~kd-~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..| .++..|-++|+|...-.|.+|+..
T Consensus        64 ~vD~r~k~t~eg~v~~~~k~~a~~a~rr   91 (275)
T KOG0115|consen   64 KVDDRGKPTREGIVEFAKKPNARKAARR   91 (275)
T ss_pred             eecccccccccchhhhhcchhHHHHHHH
Confidence            766 678889999999998777555443

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=95.18  E-value=0.018  Score=58.04  Aligned_cols=73  Identities=15%  Similarity=0.261  Sum_probs=60.7

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCC--CeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCG--QVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G--~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ...+|||||-+.+|+++|.+...+.|  .+.++++..++..  ++|||+|...+..+..+-++ |....|.|+.-.|.
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~iHGQ~P~V~  157 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTIHGQSPTVL  157 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhcccceecCCCCeee
Confidence            35799999999999999999999877  5667777666543  69999999999999999999 88888988865553

>KOG2314 consensus Translation initiation factor 3, subunit b (eIF-3b) [Translation, ribosomal structure and biogenesis]

Probab=94.56  E-value=0.058  Score=57.52  Aligned_cols=68  Identities=10%  Similarity=0.065  Sum_probs=54.5

Q ss_pred             cccEEEEEcCCcc--CC----HHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKK--VT----QADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~--vt----eedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      -...|+|-|+|--  ..    ..-|..+|+++ |+|..+.++.+ .|..+||.|++|.+..+|+.|....+++.+.
T Consensus        57 ~D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~-gk~vn~~~P~~e~ggtkG~lf~E~~~~~~A~~aVK~l~G~~ld  131 (698)
T KOG2314|consen   57 FDSVVVVDGAPVVGPARLEKLKKVLTKVFSKA-GKIVNMYYPIDEEGGTKGYLFVEYASMRDAKKAVKSLNGKRLD  131 (698)
T ss_pred             cceEEEECCCcccChhHHHHHHHHHHHHHHhh-ccccceeeccCccCCeeeEEEEEecChhhHHHHHHhcccceec
Confidence            3468999999842  22    23456899996 99999999988 6679999999999999999998888876543

>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=94.35  E-value=0.19  Score=41.19  Aligned_cols=54  Identities=17%  Similarity=0.259  Sum_probs=36.5

Q ss_pred             cEEEEEcCCccCCHHHHH----HHhhhcCC-ceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          354 RTIYCTNIDKKVTQADVK----LFFESVCG-EVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLr----elF~~f~G-~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      ..|+|.|||.+.+...|+    .+++. || .|.+|.        .|-|+|.|.+.+.|.+|+.-+++
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdN-CGGkVl~v~--------~~tAilrF~~~~~A~RA~KRmeg   61 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDN-CGGKVLSVS--------GGTAILRFPNQEFAERAQKRMEG   61 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHT-TT--EEE----------TT-EEEEESSHHHHHHHHHHHTT
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhc-cCCEEEEEe--------CCEEEEEeCCHHHHHHHHHhhcc
Confidence            579999999999887665    55555 65 566652        25799999999999888776664

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=94.17  E-value=0.065  Score=54.32  Aligned_cols=79  Identities=18%  Similarity=0.143  Sum_probs=58.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE--------EEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce--ec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR--------LRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY--IL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--------v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~--~~  419 (437)
                      ...+|||.+||..+++++|.++|.+ ||.|..        +.|-++  ++.++|-|.|.|++..+|++|+..-..-  ..
T Consensus        65 ~~~ti~v~g~~d~~~~~~~~~~f~q-cg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~agkdf~g  143 (351)
T KOG1995|consen   65 DNETIFVWGCPDSVCENDNADFFLQ-CGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAGKDFCG  143 (351)
T ss_pred             ccccceeeccCccchHHHHHHHHhh-cceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhccccccC
Confidence            3479999999999999999999998 798754        333334  6679999999999999998886655442  33


Q ss_pred             cCchhhhhhhhc
Q 013726          420 HNPSIAWLEEFS  431 (437)
Q Consensus       420 ~~~~i~~~~~~s  431 (437)
                      ..+++..|+.-.
T Consensus       144 n~ikvs~a~~r~  155 (351)
T KOG1995|consen  144 NTIKVSLAERRT  155 (351)
T ss_pred             CCchhhhhhhcc
Confidence            444455555443

>KOG2253 consensus U1 snRNP complex, subunit SNU71 and related PWI-motif proteins [RNA processing and modification]

Probab=93.76  E-value=0.07  Score=57.91  Aligned_cols=108  Identities=20%  Similarity=0.208  Sum_probs=78.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      ...++||+|+...+..+-++.+...||.|.++....       |||++|.....+.+|+. ++...++|..+.+..-...
T Consensus        39 ~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr~~-------fgf~~f~~~~~~~ra~r~~t~~~~~~~kl~~~~d~q~  111 (668)
T KOG2253|consen   39 PRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKRDK-------FGFCEFLKHIGDLRASRLLTELNIDDQKLIENVDEQT  111 (668)
T ss_pred             CCceeEecchhhhhhHHHHHHHHhhCCcchhhhhhh-------hcccchhhHHHHHHHHHHhcccCCCcchhhccchhhh
Confidence            446899999999999999999999999998886642       99999999999999998 8888888888877653211


Q ss_pred             CCCC----------CCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhh
Q 013726          334 IAPV----------NPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFE  375 (437)
Q Consensus       334 ~~~~----------~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~  375 (437)
                      +...          ...+.|..      ..+-..|.|+|....+......+.
T Consensus       112 ~~n~~k~~~~~~~~~~~f~p~~------srr~e~i~~k~~~l~~~~~~~~~~  157 (668)
T KOG2253|consen  112 IENADKEKSIANKESHKFVPSS------SRRQESIQNKPLSLDEQIHKKSLQ  157 (668)
T ss_pred             hcCccccccchhhhhcccCCch------hHHHHHhhccccchhHHHHHHHHh
Confidence            1110          01111211      135567788887777766666655

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=93.44  E-value=0.2  Score=49.73  Aligned_cols=60  Identities=23%  Similarity=0.178  Sum_probs=50.1

Q ss_pred             HHHHHHHhcCCCeeEEEEeeCCCCC---ceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          271 EQLAALFVGCGQVVDCRICGDPNSV---LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       271 e~L~~~F~~~G~I~~vri~~d~~~s---~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +++.+-..+||.|..|.|..++..+   .---||+|...++|.+|+- |||..++|+.+..++-
T Consensus       301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnGRyFGGr~v~A~Fy  364 (378)
T KOG1996|consen  301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNGRYFGGRVVSACFY  364 (378)
T ss_pred             HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCCceecceeeeheec
Confidence            4677788899999999987776542   3357999999999999988 9999999998887764

>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=93.33  E-value=0.44  Score=40.30  Aligned_cols=67  Identities=7%  Similarity=0.049  Sum_probs=45.4

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEE-Eecc-C-------CCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLR-LLGD-Y-------HHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~-i~kd-~-------g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+-|.|-+.|+. ....|.+.|++ ||.|.... +.++ .       .....+--|+|.++.+|.+||..+...+...
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~-~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG~i~~g~   81 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSS-FGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNGTIFSGS   81 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHC-CS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTTEEETTC
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHh-cceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCCeEEcCc
Confidence            467999999988 55678889999 59998774 1111 0       0123389999999999999999988766543

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.

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=93.25  E-value=0.038  Score=53.72  Aligned_cols=60  Identities=22%  Similarity=0.377  Sum_probs=49.3

Q ss_pred             HHHHHHHh-cCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          271 EQLAALFV-GCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       271 e~L~~~F~-~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +++...|+ +||+|..+.++.+... -.|-+||.|...++|.+|+. ||+..+.|++|....+
T Consensus        83 Ed~f~E~~~kygEiee~~Vc~Nl~~hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~  145 (260)
T KOG2202|consen   83 EDVFTELEDKYGEIEELNVCDNLGDHLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELS  145 (260)
T ss_pred             HHHHHHHHHHhhhhhhhhhhcccchhhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeec
Confidence            34444445 8999999988765433 37899999999999999999 9999999999998875

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=92.79  E-value=0.63  Score=35.93  Aligned_cols=55  Identities=15%  Similarity=0.312  Sum_probs=44.8

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCC--ceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCG--EVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G--~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..+|+|++++ +++.+||+.+|..||.  ...+|..+.|..     |=|.|.+.+.|.+||.+
T Consensus         5 peavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDtS-----cNvvf~d~~~A~~AL~~   61 (62)
T PF10309_consen    5 PEAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDTS-----CNVVFKDEETAARALVA   61 (62)
T ss_pred             eceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCCc-----EEEEECCHHHHHHHHHc
Confidence            3689999996 5889999999998643  566777777755     77999999999998864

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

Probab=92.57  E-value=0.64  Score=49.83  Aligned_cols=83  Identities=13%  Similarity=0.142  Sum_probs=62.5

Q ss_pred             CHHHHHHHHH-hcCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhh-cCCceE
Q 013726          305 DEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFES-VCGEVY  382 (437)
Q Consensus       305 ~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~-f~G~I~  382 (437)
                      |.+-...+|+ ..+..++.+-.+|.+.+                    ..+.|+++-||.+...|+++.||+. -|-.++
T Consensus       146 DvdLI~Evlresp~VqvDekgekVrp~~--------------------kRcIvilREIpettp~e~Vk~lf~~encPk~i  205 (684)
T KOG2591|consen  146 DVDLIVEVLRESPNVQVDEKGEKVRPNH--------------------KRCIVILREIPETTPIEVVKALFKGENCPKVI  205 (684)
T ss_pred             chHHHHHHHhcCCCceeccCccccccCc--------------------ceeEEEEeecCCCChHHHHHHHhccCCCCCce
Confidence            3444555666 66666777666666543                    2378889999999999999999984 266888


Q ss_pred             EEEEeccCCCcceEEEEEeCCHHHHHHHHh
Q 013726          383 RLRLLGDYHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       383 ~v~i~kd~g~srGfAFVeF~s~e~A~kal~  412 (437)
                      +|.+-.+++     =||+|++..||+.|..
T Consensus       206 scefa~N~n-----WyITfesd~DAQqAyk  230 (684)
T KOG2591|consen  206 SCEFAHNDN-----WYITFESDTDAQQAYK  230 (684)
T ss_pred             eeeeeecCc-----eEEEeecchhHHHHHH
Confidence            998876666     6899999999977754

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=91.91  E-value=0.69  Score=37.85  Aligned_cols=53  Identities=19%  Similarity=0.356  Sum_probs=40.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hc
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LA  316 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-ln  316 (437)
                      ...+|. .|..+...||.++|+.||.|. |.++.|.     -|||.....+.|..|+. +.
T Consensus        10 HVFhlt-FPkeWK~~DI~qlFspfG~I~-VsWi~dT-----SAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen   10 HVFHLT-FPKEWKTSDIYQLFSPFGQIY-VSWINDT-----SAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             CEEEEE---TT--HHHHHHHCCCCCCEE-EEEECTT-----EEEEEECCCHHHHHHHHHHT
T ss_pred             eEEEEe-CchHhhhhhHHHHhccCCcEE-EEEEcCC-----cEEEEeecHHHHHHHHHHhc
Confidence            445665 999999999999999999975 6666653     69999999999999988 53

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

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

Probab=91.71  E-value=0.49  Score=53.26  Aligned_cols=74  Identities=18%  Similarity=0.164  Sum_probs=63.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~s  330 (437)
                      ...+.+++++|..++....|...|..||.|..+.+-.    +.-|++|.|.+...++.|+. |.|..++|  +.|.|.++
T Consensus       453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h----gq~yayi~yes~~~aq~a~~~~rgap~G~P~~r~rvdla  528 (975)
T KOG0112|consen  453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH----GQPYAYIQYESPPAAQAATHDMRGAPLGGPPRRLRVDLA  528 (975)
T ss_pred             ccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc----CCcceeeecccCccchhhHHHHhcCcCCCCCcccccccc
Confidence            4567799999999999999999999999998876632    34599999999999999999 99999976  46777776


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus       529 ~  529 (975)
T KOG0112|consen  529 S  529 (975)
T ss_pred             c
Confidence            4

>KOG4849 consensus mRNA cleavage factor I subunit/CPSF subunit [RNA processing and modification]

Probab=91.59  E-value=0.17  Score=51.32  Aligned_cols=66  Identities=15%  Similarity=0.100  Sum_probs=51.1

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCC--ceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCG--EVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G--~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ..++||+||-..+|++||.+..... |  ++..+++..+  +|.++|||.|...+..+.++.+...-.-.+
T Consensus        80 k~~~YvGNL~W~TTD~DL~~A~~S~-G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~k~i  149 (498)
T KOG4849|consen   80 KYCCYVGNLLWYTTDADLLKALQST-GLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPTKTI  149 (498)
T ss_pred             eEEEEecceeEEeccHHHHHHHHhh-hHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhccccee
Confidence            4689999999999999999888875 6  4555565554  788999999999988888777665444333

>KOG2135 consensus Proteins containing the RNA recognition motif [General function prediction only]

Probab=91.45  E-value=0.13  Score=53.96  Aligned_cols=76  Identities=13%  Similarity=0.143  Sum_probs=63.3

Q ss_pred             ccCCcEEEEecCCccc-hHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQV-TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~-tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..+.++|-+.-.|+.. |-++|...|.+||.|..|.+-....    .|.|.|.+..+|..|....+..|+++.|+|.|.+
T Consensus       369 ~~dhs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~~~----~a~vTF~t~aeag~a~~s~~avlnnr~iKl~whn  444 (526)
T KOG2135|consen  369 VVDHSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYSSL----HAVVTFKTRAEAGEAYASHGAVLNNRFIKLFWHN  444 (526)
T ss_pred             hcccchhhhhccCCCCchHhhhhhhhhhcCccccccccCchh----hheeeeeccccccchhccccceecCceeEEEEec
Confidence            3455667777777764 5588999999999999998865533    7999999999999999999999999999999976


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus       445 p  445 (526)
T KOG2135|consen  445 P  445 (526)
T ss_pred             C
Confidence            4

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=91.45  E-value=0.93  Score=35.01  Aligned_cols=52  Identities=23%  Similarity=0.307  Sum_probs=43.3

Q ss_pred             cEEEEecCCccchHHHHHHHHhcC---CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGC---GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN  314 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~---G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~  314 (437)
                      ..|+|+++. +++.++++.+|..|   .....+.++.|.     -|-|.|.+.+.|.+||.
T Consensus         6 eavhirGvd-~lsT~dI~~y~~~y~~~~~~~~IEWIdDt-----ScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    6 EAVHIRGVD-ELSTDDIKAYFSEYFDEEGPFRIEWIDDT-----SCNVVFKDEETAARALV   60 (62)
T ss_pred             ceEEEEcCC-CCCHHHHHHHHHHhcccCCCceEEEecCC-----cEEEEECCHHHHHHHHH
Confidence            579999996 57889999999988   234578888775     48899999999999986

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=91.44  E-value=0.26  Score=49.75  Aligned_cols=68  Identities=13%  Similarity=0.282  Sum_probs=51.6

Q ss_pred             ccEEEEEcCCccCCHHHH------HHHhhhcCCceEEEEEeccC---CCcceEE--EEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADV------KLFFESVCGEVYRLRLLGDY---HHSTRIA--FVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedL------relF~~f~G~I~~v~i~kd~---g~srGfA--FVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+-+||-+||+.+..|++      .++|.+| |.|..|.|.++.   +...+.+  ||+|.+.++|.++++..++-.+..
T Consensus       114 KNLvYVigi~pkva~Ee~~~vLk~~eyFGQy-GkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDgs~~DG  192 (480)
T COG5175         114 KNLVYVIGIPPKVADEEVAPVLKRHEYFGQY-GKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDGSLLDG  192 (480)
T ss_pred             cceeEEecCCCCCCcccccccccchhhhhhc-cceeEEEecccccccccccccceEEEEecchHHHHHHHHHhccccccC
Confidence            467899999998877773      2899995 999999998873   2222323  999999999999988877644433

>PF07292 NID: Nmi/IFP 35 domain (NID); InterPro: IPR009909 This entry represents a domain of approximately 90 residues that is tandemly repeated within interferon-induced 35 kDa protein (IFP 35) and the homologous N-myc-interactor (Nmi)

Probab=90.30  E-value=0.32  Score=40.17  Aligned_cols=72  Identities=21%  Similarity=0.215  Sum_probs=46.3

Q ss_pred             EEEEEcCHHHHHHHHHhcCe--EeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhh
Q 013726          299 AFIEFTDEEGARAALNLAGT--MLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFE  375 (437)
Q Consensus       299 aFVeF~~~e~A~~Al~lng~--~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~  375 (437)
                      |.|.|.+.+-|++.+++..+  .+++..+.|..+.-.....     .+-+-......++|.|.|||..+++++|++.++
T Consensus         1 AlITF~e~~VA~~i~~~~~~~v~l~~~~~~V~v~P~~~~~~-----~k~qv~~~vs~rtVlvsgip~~l~ee~l~D~Le   74 (88)
T PF07292_consen    1 ALITFEEEGVAQRILKKKKHPVPLEDCCVRVKVSPVTLGHL-----QKFQVFSGVSKRTVLVSGIPDVLDEEELRDKLE   74 (88)
T ss_pred             CEEEeCcHHHHHHHHhCCEEEEEECCEEEEEEEEeEecCCc-----eEEEEEEcccCCEEEEeCCCCCCChhhheeeEE
Confidence            68999999999999985444  4555555444321100000     000111133568999999999999999998876

This domain mediates Nmi-Nmi protein interactions and subcellular localisation [].

>KOG3152 consensus TBP-binding protein, activator of basal transcription (contains rrm motif) [Transcription]

Probab=90.08  E-value=0.27  Score=47.92  Aligned_cols=58  Identities=19%  Similarity=0.283  Sum_probs=46.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--C--------CCcce----EEEEEeCCHHHHHHH
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--Y--------HHSTR----IAFVEFVMVIASSTL  410 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~--------g~srG----fAFVeF~s~e~A~ka  410 (437)
                      .+..||++|||+.+....|+++|+.| |.|-+|-+...  .        |..++    -|.|+|.+...|.++
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~y-GeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~i  144 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQY-GEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRI  144 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhc-cccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHH
Confidence            45799999999999999999999995 99999988754  2        11222    467999999888544

>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=89.82  E-value=2.3  Score=36.54  Aligned_cols=66  Identities=17%  Similarity=0.176  Sum_probs=48.0

Q ss_pred             cEEEEecCCcc-chHHHHHHHHhcC-CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          257 RTVYVSDIDQQ-VTEEQLAALFVGC-GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       257 rtLfVgNLp~~-~tee~L~~~F~~~-G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      .++.|--.|+. ++.++|..+.+.+ ..|..+++++|...++-.+.+.|++.++|..-.. +||..+..
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fns   81 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFNS   81 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccCC
Confidence            34444444444 5556666555554 4677889998877677789999999999999998 99987743

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>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=89.46  E-value=0.56  Score=43.61  Aligned_cols=68  Identities=15%  Similarity=0.079  Sum_probs=44.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhc-CCCe---eEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVG-CGQV---VDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~-~G~I---~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      ....|.|++||+++|++++.+.++. ++.-   ..+.-......    .-.-|||.|.+.+++..-.. ++|..+..
T Consensus         6 ~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D   82 (176)
T PF03467_consen    6 EGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVD   82 (176)
T ss_dssp             ---EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-
T ss_pred             cCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEEC
Confidence            4568999999999999999887776 5655   23332222211    24579999999999988888 99988743

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.

>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=89.37  E-value=0.65  Score=43.16  Aligned_cols=68  Identities=6%  Similarity=0.021  Sum_probs=43.6

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCce---EEEE--Eecc-CC-CcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEV---YRLR--LLGD-YH-HSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I---~~v~--i~kd-~g-~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..+|.|++||+.+|++++++.+++++|.-   .++.  .... .. ..-.-|||.|.+.+++.......+++...
T Consensus         7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~   81 (176)
T PF03467_consen    7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFV   81 (176)
T ss_dssp             --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE
T ss_pred             CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEE
Confidence            46999999999999999999888733655   3443  2222 11 13346999999999988877777665433

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.

>KOG0115 consensus RNA-binding protein p54nrb (RRM superfamily) [RNA processing and modification]

Probab=89.37  E-value=0.36  Score=47.10  Aligned_cols=73  Identities=26%  Similarity=0.323  Sum_probs=57.2

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC-CCCceEEEEEEcCHHHHHHHHH-h--cCe--EeeeeeeEEec
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP-NSVLRFAFIEFTDEEGARAALN-L--AGT--MLGFYPVRVLP  329 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~-~~s~GfaFVeF~~~e~A~~Al~-l--ng~--~l~Gr~L~V~~  329 (437)
                      ..|||.||+..++.+.+...|+.||+|....++-|. ..+.+-++|+|...-.|.+|+. +  .|.  ...+++.-|.+
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~r~k~t~eg~v~~~~k~~a~~a~rr~~~~g~~~~~~~~p~~VeP  110 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDDRGKPTREGIVEFAKKPNARKAARRCREGGFGGTTGGRPVGVEP  110 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecccccccccchhhhhcchhHHHHHHHhccCccccCCCCCccCCCh
Confidence            679999999999999999999999999876665444 4468899999999999999987 4  222  23455555544

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=87.64  E-value=2.9  Score=37.71  Aligned_cols=73  Identities=15%  Similarity=0.140  Sum_probs=53.4

Q ss_pred             ccCCcEEEEecCCccch----HHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVT----EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~t----ee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      +..-.||.|+=|..++.    -..+...++.||+|.+|..+..     --|.|.|.+..+|-+|+. +.. ..-|..+++
T Consensus        83 epPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~cGr-----qsavVvF~d~~SAC~Av~Af~s-~~pgtm~qC  156 (166)
T PF15023_consen   83 EPPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLCGR-----QSAVVVFKDITSACKAVSAFQS-RAPGTMFQC  156 (166)
T ss_pred             CCCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeecCC-----ceEEEEehhhHHHHHHHHhhcC-CCCCceEEe
Confidence            44567888876655543    3344555678999999998754     379999999999999998 554 556777777


Q ss_pred             eccC
Q 013726          328 LPSK  331 (437)
Q Consensus       328 ~~s~  331 (437)
                      .|..
T Consensus       157 sWqq  160 (166)
T PF15023_consen  157 SWQQ  160 (166)
T ss_pred             eccc
Confidence            7754

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=87.59  E-value=2.6  Score=34.58  Aligned_cols=60  Identities=18%  Similarity=0.299  Sum_probs=38.8

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHH---HHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIAS---STLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A---~kal~~~~~~~~~~  421 (437)
                      ...+|. +|.++...||.++|+.| |.|. |..+.|+     -|||...+.+.|   ..++.....|.+.+
T Consensus        10 HVFhlt-FPkeWK~~DI~qlFspf-G~I~-VsWi~dT-----SAfV~l~~r~~~~~v~~~~~~~~~y~i~t   72 (87)
T PF08675_consen   10 HVFHLT-FPKEWKTSDIYQLFSPF-GQIY-VSWINDT-----SAFVALHNRDQAKVVMNTLKKNSSYRIQT   72 (87)
T ss_dssp             CEEEEE---TT--HHHHHHHCCCC-CCEE-EEEECTT-----EEEEEECCCHHHHHHHHHHTT-SSSEEEE
T ss_pred             eEEEEe-CchHhhhhhHHHHhccC-CcEE-EEEEcCC-----cEEEEeecHHHHHHHHHHhccCCceEEEE
Confidence            455566 99999999999999995 9875 5555443     499999998877   44455444444443

; 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.

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=87.41  E-value=0.41  Score=51.62  Aligned_cols=74  Identities=15%  Similarity=0.112  Sum_probs=59.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHh-cCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe---eeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFV-GCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML---GFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~-~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l---~Gr~L~V  327 (437)
                      ...+..|+|.||-.-.|.-+|++++. .+|.|....|  |+-  +..|||.|.+.++|.+-.. |+|..+   +++.|.+
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~Wm--DkI--KShCyV~yss~eEA~atr~AlhnV~WP~sNPK~L~a  516 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEFWM--DKI--KSHCYVSYSSVEEAAATREALHNVQWPPSNPKHLIA  516 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccCchHHHHH--HHh--hcceeEecccHHHHHHHHHHHhccccCCCCCceeEe
Confidence            34567899999999999999999999 5677777633  221  3589999999999999988 999886   5667777


Q ss_pred             ecc
Q 013726          328 LPS  330 (437)
Q Consensus       328 ~~s  330 (437)
                      .+.
T Consensus       517 df~  519 (718)
T KOG2416|consen  517 DFV  519 (718)
T ss_pred             eec
Confidence            664

>KOG4285 consensus Mitotic phosphoprotein [Cell cycle control, cell division, chromosome partitioning]

Probab=86.54  E-value=2.6  Score=42.23  Aligned_cols=69  Identities=23%  Similarity=0.302  Sum_probs=53.4

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeee-eEEec
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYP-VRVLP  329 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~-L~V~~  329 (437)
                      ..=|-|-++|+.-. .-|..+|++||.|++.....+-    .+-+|-|.+.-+|++||..||..|+|.. |-|++
T Consensus       197 D~WVTVfGFppg~~-s~vL~~F~~cG~Vvkhv~~~ng----NwMhirYssr~~A~KALskng~ii~g~vmiGVkp  266 (350)
T KOG4285|consen  197 DTWVTVFGFPPGQV-SIVLNLFSRCGEVVKHVTPSNG----NWMHIRYSSRTHAQKALSKNGTIIDGDVMIGVKP  266 (350)
T ss_pred             cceEEEeccCccch-hHHHHHHHhhCeeeeeecCCCC----ceEEEEecchhHHHHhhhhcCeeeccceEEeeee
Confidence            34477778888755 4566789999999887665222    4899999999999999999999998763 44555

>KOG2416 consensus Acinus (induces apoptotic chromatin condensation) [Chromatin structure and dynamics]

Probab=86.14  E-value=0.39  Score=51.77  Aligned_cols=63  Identities=13%  Similarity=0.105  Sum_probs=48.9

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      ...++.|+|.||=..+|..+|++++.+-||.|+.. + .|  +-+..|||.|.+.++|.+....+|+
T Consensus       441 ~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-W-mD--kIKShCyV~yss~eEA~atr~Alhn  503 (718)
T KOG2416|consen  441 KEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-W-MD--KIKSHCYVSYSSVEEAAATREALHN  503 (718)
T ss_pred             CCccceEeeecccccchHHHHHHHHhhccCchHHH-H-HH--HhhcceeEecccHHHHHHHHHHHhc
Confidence            45678999999999999999999999877877776 2 22  2334699999999999655554443

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

Probab=83.71  E-value=2.3  Score=45.77  Aligned_cols=69  Identities=25%  Similarity=0.415  Sum_probs=55.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHh--cCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcC--eEeeeeeeEEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFV--GCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG--TMLGFYPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~--~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng--~~l~Gr~L~V~  328 (437)
                      .++.|.++-||..+..|+++.+|+  .|-.+.+|.+..+.+     =||.|++..+|+.|.+ |..  ..|.|++|...
T Consensus       174 kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~n-----WyITfesd~DAQqAykylreevk~fqgKpImAR  247 (684)
T KOG2591|consen  174 KRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHNDN-----WYITFESDTDAQQAYKYLREEVKTFQGKPIMAR  247 (684)
T ss_pred             ceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecCc-----eEEEeecchhHHHHHHHHHHHHHhhcCcchhhh
Confidence            456788999999999999999998  488899999876653     5899999999999987 532  34777776543

>KOG1996 consensus mRNA splicing factor [RNA processing and modification]

Probab=83.41  E-value=2.5  Score=42.15  Aligned_cols=49  Identities=18%  Similarity=0.131  Sum_probs=36.7

Q ss_pred             HHHHHHHhhhcCCceEEEEEeccCCC---cceEEEEEeCCHHHHHHHHhhcCc
Q 013726          367 QADVKLFFESVCGEVYRLRLLGDYHH---STRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       367 eedLrelF~~f~G~I~~v~i~kd~g~---srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      ++++.+-+++ ||+|..|.|....+.   ..---||+|+..++|.+|+-..++
T Consensus       300 ede~keEceK-yg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnG  351 (378)
T KOG1996|consen  300 EDETKEECEK-YGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNG  351 (378)
T ss_pred             HHHHHHHHHh-hcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCC
Confidence            4578889999 599999999877433   222479999999999777655444

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=83.19  E-value=8.3  Score=33.15  Aligned_cols=61  Identities=7%  Similarity=0.072  Sum_probs=46.1

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ...+.+-..|..++-++|..+.+.+...|..++|.+|....+-.+.+.|.+.++|......
T Consensus        13 ~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~   73 (110)
T PF07576_consen   13 STLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEE   73 (110)
T ss_pred             ceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHH
Confidence            3455666666667777787777776567889999998666777899999999999765443

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=82.09  E-value=0.57  Score=47.37  Aligned_cols=76  Identities=18%  Similarity=0.284  Sum_probs=59.6

Q ss_pred             CcEEEEecCCccchHHHHHH---HHhcCCCeeEEEEeeCCC--C---CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          256 RRTVYVSDIDQQVTEEQLAA---LFVGCGQVVDCRICGDPN--S---VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~---~F~~~G~I~~vri~~d~~--~---s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      ..-+||-+|+....++.+.+   .|.+||.|..+.+..++.  .   +..-++|.|...++|..||. .+|..++|+.|+
T Consensus        77 knlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g~~~dg~~lk  156 (327)
T KOG2068|consen   77 KNLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDGFVDDGRALK  156 (327)
T ss_pred             hhhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhhHHhhhhhhH
Confidence            34588889998876665543   688899999998877662  1   23358999999999999999 999999999977


Q ss_pred             EeccC
Q 013726          327 VLPSK  331 (437)
Q Consensus       327 V~~s~  331 (437)
                      .....
T Consensus       157 a~~gt  161 (327)
T KOG2068|consen  157 ASLGT  161 (327)
T ss_pred             HhhCC
Confidence            76654

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	437
3b4d_A	96	Crystal Structure Of Human Pabpn1 Rrm Length = 96		3e-07
3ucg_A	89	Crystal Structure Of A Rna Binding Domain Of Hypoth		3e-07
2jwn_A	124	Solution Nmr Structure Of The Protease-Resistent Do		7e-06
1cvj_A	190	X-Ray Crystal Structure Of The Poly(A)-Binding Prot		7e-04
4f02_A	213	Crystal Structure Of The Pabp-Binding Site Of Eif4g		7e-04

>pdb|3B4D|A Chain A, Crystal Structure Of Human Pabpn1 Rrm Length = 96

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 29/81 (35%), Positives = 46/81 (56%), Gaps = 8/81 (9%)
Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFIEFTDEEGARA 311
           R++YV ++D   T E+L A F GCG V    + C +  G P     FA+IEF+D+E  R 
Sbjct: 6   RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYIEFSDKESVRT 62
Query: 312 ALNLAGTMLGFYPVRVLPSKT 332
           +L L  ++     ++V+P +T
Sbjct: 63  SLALDESLFRGRQIKVIPKRT 83

>pdb|3UCG|A Chain A, Crystal Structure Of A Rna Binding Domain Of Hypothetical Polyadenylate-Binding Protein (Pabpn1) From Homo Sapiens At 1.95 A Resolution Length = 89

Iteration: 1
 Score = 52.8 bits (125), Expect = 3e-07,   Method: Composition-based stats.
 Identities = 29/81 (35%), Positives = 46/81 (56%), Gaps = 8/81 (9%)
Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFIEFTDEEGARA 311
           R++YV ++D   T E+L A F GCG V    + C +  G P     FA+IEF+D+E  R 
Sbjct: 7   RSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKG---FAYIEFSDKESVRT 63
Query: 312 ALNLAGTMLGFYPVRVLPSKT 332
           +L L  ++     ++V+P +T
Sbjct: 64  SLALDESLFRGRQIKVIPKRT 84

>pdb|2JWN|A Chain A, Solution Nmr Structure Of The Protease-Resistent Domain Of Xenopus Laevis Epabp2 Length = 124

Iteration: 1
 Score = 48.5 bits (114), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 29/99 (29%), Positives = 52/99 (52%), Gaps = 8/99 (8%)
Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDC-RICGDPNSVLRFAFI 301
           S  +++EI +R+VYV ++D   T + L A F  CG +    + C +  G P     +A+I
Sbjct: 27  SAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKG---YAYI 83
Query: 302 EFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPT 340
           EF +     AA+ +  T+     ++VLP +T +  ++ T
Sbjct: 84  EFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISST 122

>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In Complex With Polyadenylate Rna Length = 190

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 37/149 (24%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD--PNSVLRFAFIEFTDEEGARAALNL 315
           ++YV D+   VTE  L   F   G ++  R+C D      L +A++ F     A  AL+ 
Sbjct: 12  SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 71
Query: 316 AG-TMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
               ++   PVR++ S+            R    R+     I+  N+DK +   D K  +
Sbjct: 72  MNFDVIKGKPVRIMWSQ------------RDPSLRKSGVGNIFIKNLDKSI---DNKALY 116
Query: 375 E--SVCGEVYRLRLLGDYHHSTRIAFVEF 401
           +  S  G +   +++ D + S    FV F
Sbjct: 117 DTFSAFGNILSCKVVCDENGSKGYGFVHF 145

>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In Complex With Rrm1-2 Of Pabp And Poly(A) Length = 213

Iteration: 1
 Score = 42.0 bits (97), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 37/149 (24%), Positives = 63/149 (42%), Gaps = 20/149 (13%)
Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD--PNSVLRFAFIEFTDEEGARAALNL 315
           ++YV D+   VTE  L   F   G ++  R+C D      L +A++ F     A  AL+ 
Sbjct: 17  SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 76
Query: 316 AG-TMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
               ++   PVR++ S+            R    R+     I+  N+DK +   D K  +
Sbjct: 77  MNFDVIKGKPVRIMWSQ------------RDPSLRKSGVGNIFIKNLDKSI---DNKALY 121
Query: 375 E--SVCGEVYRLRLLGDYHHSTRIAFVEF 401
           +  S  G +   +++ D + S    FV F
Sbjct: 122 DTFSAFGNILSCKVVCDENGSKGYGFVHF 150

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	437
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-21
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	5e-16
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	4e-11
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	4e-18
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	9e-08
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-18
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-10
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	6e-18
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	2e-07
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	3e-17
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	5e-09
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	4e-17
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	5e-17
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	3e-10
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-16
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-15
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-16
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-08
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	9e-16
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	4e-06
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-15
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	5e-09
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	5e-15
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	3e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	6e-15
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	8e-15
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-09
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	9e-15
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	5e-10
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	3e-14
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	7e-09
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	3e-14
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	2e-13
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	6e-13
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	2e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	7e-13
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	3e-06
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	7e-13
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	1e-12
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	2e-12
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	2e-12
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	3e-12
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	5e-12
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	7e-09
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	6e-12
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	1e-11
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	1e-11
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	1e-11
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	5e-09
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	2e-11
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	2e-11
1x5o_A	114	RNA binding motif, single-stranded interacting pro	3e-11
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	4e-11
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	4e-11
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	4e-11
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	4e-08
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	4e-11
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	4e-11
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	7e-08
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	7e-11
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	7e-11
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	7e-11
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	8e-11
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	9e-11
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	1e-10
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	1e-10
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	1e-10
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-10
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	2e-10
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	2e-10
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	3e-10
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	3e-10
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	3e-10
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	4e-10
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	4e-10
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	5e-10
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	5e-10
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	7e-10
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	8e-10
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	9e-10
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	1e-09
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	1e-09
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	1e-09
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	1e-09
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	2e-09
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	2e-09
2div_A	99	TRNA selenocysteine associated protein; structural	2e-09
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	2e-09
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	2e-09
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	2e-09
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	2e-09
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-09
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	3e-09
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	3e-09
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	3e-09
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	3e-09
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	4e-09
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	4e-09
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	4e-09
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	5e-09
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	5e-09
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	5e-09
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	5e-09
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	7e-09
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	7e-09
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	9e-09
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	1e-08
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	1e-08
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	1e-08
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	1e-08
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	1e-08
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-08
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	1e-08
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	1e-08
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	2e-08
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	2e-08
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	2e-08
1x5p_A	97	Negative elongation factor E; structure genomics,	2e-08
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	2e-08
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	2e-08
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	2e-08
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	2e-08
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	2e-08
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	3e-08
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	3e-08
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	3e-08
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	3e-08
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	3e-08
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	4e-08
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	8e-07
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	4e-08
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	4e-08
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	4e-08
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	4e-08
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	5e-08
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-08
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	5e-08
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	6e-08
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	6e-08
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	6e-08
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	6e-08
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	6e-08
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	9e-08
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	1e-07
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	2e-07
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	2e-07
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	2e-07
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	2e-07
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	2e-07
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	3e-07
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	3e-07
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	3e-07
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	3e-07
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	4e-07
1x4e_A	85	RNA binding motif, single-stranded interacting pro	5e-07
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	5e-07
2dis_A	109	Unnamed protein product; structural genomics, RRM	6e-07
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	6e-07
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	8e-07
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	2e-06
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	2e-06
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	2e-06
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	3e-06
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	4e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-06
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	5e-06
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	6e-06
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	7e-06
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	1e-05
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	2e-05
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	4e-05
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	4e-05
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	8e-05
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	8e-05
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	9e-05
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	1e-04
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	1e-04
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	2e-04
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	2e-04
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	2e-04
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	2e-04
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	8e-04
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	9e-04

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 92.4 bits (230), Expect = 3e-21
 Identities = 33/184 (17%), Positives = 62/184 (33%), Gaps = 30/184 (16%)

Query: 224 NANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRR----TVYVSDIDQQVTEEQLAALFVG 279
           +A    +R    G       +       E + R     TV V ++ +   + ++   F  
Sbjct: 7   HARPDSKRPLDEGSPAAAGLTSKK--ANEALTRNRELTTVLVKNLPKSYNQNKVYKYFKH 64

Query: 280 CGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNP 339
           CG ++   +        RFA IEF   +GA AA+     ++G   + V            
Sbjct: 65  CGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHLTEC------ 118

Query: 340 TFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLL--GDYHHSTRIA 397
                          T++ TN     TQ +++   +     V     L    ++ S R A
Sbjct: 119 ---------------TLWMTNFPPSYTQRNIRDLLQD-INVVALSIRLPSLRFNTSRRFA 162

Query: 398 FVEF 401
           +++ 
Sbjct: 163 YIDV 166

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 76.9 bits (190), Expect = 5e-16
 Identities = 27/158 (17%), Positives = 58/158 (36%), Gaps = 17/158 (10%)

Query: 252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQV-VDCRICGDPNSVLR-FAFIEFTDEEGA 309
             +   T+++++     T+  +  L      V +  R+     +  R FA+I+ T +E A
Sbjct: 113 SHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDA 172

Query: 310 RAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQA 368
           R  +  L G  +  Y +    S        P    +  D   +  R I   N+  ++   
Sbjct: 173 RYCVEKLNGLKIEGYTLVTKVSN-------PLEKSKRTDSATLEGREIMIRNLSTELLDE 225

Query: 369 DV--KLFFESVCGEVYRLRLLGDYH---HSTRIAFVEF 401
           ++  + F     G + ++ +         +   AF+ F
Sbjct: 226 NLLRESF--EGFGSIEKINIPAGQKEHSFNNCCAFMVF 261

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 62.7 bits (153), Expect = 4e-11
 Identities = 28/171 (16%), Positives = 61/171 (35%), Gaps = 29/171 (16%)

Query: 168 ELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANA 227
            +++L   +N +A     PSL    +       F   +     +   +         A  
Sbjct: 133 NIRDLLQDINVVALSIRLPSLRFNTSR-----RF--AY-----IDVTSKED------ARY 174

Query: 228 AVRR---KKSFGQGKR-RMNSRTSLAQREEIIR---RTVYVSDIDQQVTEEQ-LAALFVG 279
            V +    K  G     ++++    ++R +      R + + ++  ++ +E  L   F G
Sbjct: 175 CVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEG 234

Query: 280 CGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAALNLAGTMLGFYPVRV 327
            G +    I             AF+ F +++ A  AL +  ++LG   + V
Sbjct: 235 FGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISV 285

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 78.9 bits (195), Expect = 4e-18
 Identities = 28/100 (28%), Positives = 41/100 (41%), Gaps = 4/100 (4%)

Query: 236 GQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV 295
             GK  +         EE   RTV+   +  ++    L   F   G+V D RI  D NS 
Sbjct: 5   SSGKSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSR 64

Query: 296 LR---FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
            R    A++EF + +    A+ L G  L   P+ V  S+ 
Sbjct: 65  -RSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQA 103

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 49.2 bits (118), Expect = 9e-08
 Identities = 22/76 (28%), Positives = 41/76 (53%), Gaps = 7/76 (9%)

Query: 329 PSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG 388
              +  +PV       + +ER+  ART++C  +  ++   D++ FF +  G+V  +R++ 
Sbjct: 3   SGSSGKSPVREPVDNLSPEERD--ARTVFCMQLAARIRPRDLEDFFSA-VGKVRDVRIIS 59

Query: 389 DYHHSTR---IAFVEF 401
           D  +S R   IA+VEF
Sbjct: 60  D-RNSRRSKGIAYVEF 74

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 81.6 bits (202), Expect = 5e-18
 Identities = 35/148 (23%), Positives = 60/148 (40%), Gaps = 16/148 (10%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
            ++YV D+   VTE  L   F   G ++  R+C D  +   L +A++ F     A  AL+
Sbjct: 16  ASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALD 75

Query: 315 -LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLF 373
            +   ++   PVR++ S            P            I+  N+DK +    +   
Sbjct: 76  TMNFDVIKGKPVRIMWS---------QRDPSLRKSGV---GNIFIKNLDKSIDNKALYDT 123

Query: 374 FESVCGEVYRLRLLGDYHHSTRIAFVEF 401
           F S  G +   +++ D + S    FV F
Sbjct: 124 F-SAFGNILSCKVVCDENGSKGYGFVHF 150

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 59.2 bits (144), Expect = 2e-10
 Identities = 20/88 (22%), Positives = 42/88 (47%), Gaps = 5/88 (5%)

Query: 245 RTSLAQREEIIRR----TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAF 300
           R   +QR+  +R+     +++ ++D+ +  + L   F   G ++ C++  D N    + F
Sbjct: 88  RIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGF 147

Query: 301 IEFTDEEGARAALN-LAGTMLGFYPVRV 327
           + F  +E A  A+  + G +L    V V
Sbjct: 148 VHFETQEAAERAIEKMNGMLLNDRKVFV 175

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 80.3 bits (199), Expect = 6e-18
 Identities = 26/147 (17%), Positives = 55/147 (37%), Gaps = 17/147 (11%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
              +++ +++   +  +L           D  +        R F +++F   E    AL 
Sbjct: 13  PFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALE 72

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
           L G  +    +++   K              + ++   ART+   N+   +T+ ++K  F
Sbjct: 73  LTGLKVFGNEIKLEKPK------------GRDSKKVRAARTLLAKNLSFNITEDELKEVF 120

Query: 375 ESVCGEVYRLRLLGDYHHSTRIAFVEF 401
           E    E+  +   G    S  IA++EF
Sbjct: 121 ED-ALEIRLVSQDG---KSKGIAYIEF 143

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 49.5 bits (119), Expect = 2e-07
 Identities = 16/80 (20%), Positives = 31/80 (38%), Gaps = 6/80 (7%)

Query: 250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEG 308
            ++    RT+   ++   +TE++L  +F    ++      G      +  A+IEF  E  
Sbjct: 93  SKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKS----KGIAYIEFKSEAD 148

Query: 309 ARAALN-LAGTMLGFYPVRV 327
           A   L    G  +    V +
Sbjct: 149 AEKNLEEKQGAEIDGRSVSL 168

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 79.3 bits (196), Expect = 3e-17
 Identities = 34/159 (21%), Positives = 61/159 (38%), Gaps = 7/159 (4%)

Query: 234 SFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN 293
           S   G++      +  Q    I   VYV  I  ++ E+ +   F   G +    +  D  
Sbjct: 6   SMTGGQQMGRGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSV 65

Query: 294 SV--LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDERE 350
           ++    FAF+E+   E A+ AL  +   MLG   ++V              +     E  
Sbjct: 66  TMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV---GRPSNIGQAQPIIDQLAEEA 122

Query: 351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD 389
                IY  ++ + ++  D+K  FE+  G++    L  D
Sbjct: 123 RAFNRIYVASVHQDLSDDDIKSVFEA-FGKIKSATLARD 160

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 55.0 bits (133), Expect = 5e-09
 Identities = 16/93 (17%), Positives = 41/93 (44%), Gaps = 5/93 (5%)

Query: 239 KRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR- 297
             +          E      +YV+ + Q ++++ + ++F   G++    +  DP +  + 
Sbjct: 108 IGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTT-GKH 166

Query: 298 --FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
             + FIE+   + ++ A++ +    LG   +RV
Sbjct: 167 KGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRV 199

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 75.7 bits (187), Expect = 4e-17
 Identities = 22/72 (30%), Positives = 36/72 (50%), Gaps = 1/72 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
           RT+YV ++ + VTE  +  LF   G    C++  +  S   + F+EF +   A AAL  +
Sbjct: 16  RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM 75

Query: 316 AGTMLGFYPVRV 327
            G  +    V+V
Sbjct: 76  NGRKILGKEVKV 87

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 78.1 bits (193), Expect = 5e-17
 Identities = 27/161 (16%), Positives = 50/161 (31%), Gaps = 16/161 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-------FAFIEFTDEEGA 309
           R +YV +I   +TEE +   F    ++           +         FAF+EF   +  
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 310 RAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCAR------TIYCTNIDK 363
             A+   G +     +++            +  P       +          ++   +  
Sbjct: 65  TQAMAFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPN 124

Query: 364 KVTQADVKLFFESVCGEVYRLRLLGDYH--HSTRIAFVEFV 402
            +    VK    S  G +    L+ D     S   AF E+V
Sbjct: 125 YLNDDQVKELLTS-FGPLKAFNLVKDSATGLSKGYAFCEYV 164

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 58.5 bits (142), Expect = 3e-10
 Identities = 21/172 (12%), Positives = 52/172 (30%), Gaps = 13/172 (7%)

Query: 167 RELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGF--F-----ANNSLIFNNHNAR 219
             + + F+    +      P         +    F   F  F        ++ F+    +
Sbjct: 19  EAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNF--AFLEFRSVDETTQAMAFDGIIFQ 76

Query: 220 NGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIR-RTVYVSDIDQQVTEEQLAALFV 278
             ++        +   G  +        +           +++  +   + ++Q+  L  
Sbjct: 77  GQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLT 136

Query: 279 GCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
             G +    +  D  + + + +AF E+ D      A+  L G  LG   + V
Sbjct: 137 SFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLV 188

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 78.1 bits (193), Expect = 2e-16
 Identities = 21/150 (14%), Positives = 46/150 (30%), Gaps = 19/150 (12%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN- 314
            + V+++   +T++Q   L    G +  C +     +     + F E+  ++ A  A + 
Sbjct: 97  LLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSD 156

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADV--KL 372
           L G  LG   + V  +                    + +R +    +       D   + 
Sbjct: 157 LLGKPLGPRTLYVHWTD-----------AGQLTPALLHSRCLCVDRLPPGFNDVDALCRA 205

Query: 373 FFESVCGEVYRLRLLGDYH-HSTRIAFVEF 401
              S        +L           A +E+
Sbjct: 206 L--SAVHSPTFCQLACGQDGQLKGFAVLEY 233

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 74.6 bits (184), Expect = 4e-15
 Identities = 28/169 (16%), Positives = 52/169 (30%), Gaps = 32/169 (18%)

Query: 236 GQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV 295
            +  R+    T   +R+   RR + +  +   VT +++  L      +  C +       
Sbjct: 5   PEEIRKRLEHT---ERQFRNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDKYKG-- 58

Query: 296 LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCAR 354
              AF+   + E A AA+N    + L    + V    T                      
Sbjct: 59  --TAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPT--------------------DA 96

Query: 355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH--HSTRIAFVEF 401
            +   N+   +TQ   +       G + R  L+       S    F E+
Sbjct: 97  LLCVANLPPSLTQQQFEELV-RPFGSLERCFLVYSERTGQSKGYGFAEY 144

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 57.3 bits (139), Expect = 2e-09
 Identities = 28/169 (16%), Positives = 50/169 (29%), Gaps = 30/169 (17%)

Query: 168 ELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGF-FANNSLIFNNHNARNGNVNAN 226
           + +EL      +   F+  S            G + G+ FA     +   ++      A 
Sbjct: 111 QFEELVRPFGSLERCFLVYSE---------RTGQSKGYGFAE----YMKKDS------AA 151

Query: 227 AAVRRKKSFGQGKRRMNSRTSLAQR-----EEIIRRTVYVSDIDQQVTE-EQLAALFVGC 280
            A         G R +                +  R + V  +     + + L       
Sbjct: 152 RAKSDLLGKPLGPRTL--YVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAV 209

Query: 281 GQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
                C++    +  L+ FA +E+   E A  A     G  LG   +RV
Sbjct: 210 HSPTFCQLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRV 258

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 74.9 bits (185), Expect = 3e-16
 Identities = 34/150 (22%), Positives = 65/150 (43%), Gaps = 20/150 (13%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
             + V+ + Q +T+ +L ALF   G +  CRI  D  +     +AF++FT E  ++ A+ 
Sbjct: 4   TNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIK 63

Query: 315 -LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLF 373
            L G  +    ++V  ++           P  E  ++     +Y TN+ + +T   +   
Sbjct: 64  VLNGITVRNKRLKVSYAR-----------PGGESIKD---TNLYVTNLPRTITDDQLDTI 109

Query: 374 FESVCGEVYRLRLLGDYH--HSTRIAFVEF 401
           F    G + +  +L D        +AFV +
Sbjct: 110 F-GKYGSIVQKNILRDKLTGRPRGVAFVRY 138

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 52.2 bits (126), Expect = 3e-08
 Identities = 23/108 (21%), Positives = 47/108 (43%), Gaps = 5/108 (4%)

Query: 225 ANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV 284
           +  A++         +R+    +    E I    +YV+++ + +T++QL  +F   G +V
Sbjct: 58  SQRAIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIV 117

Query: 285 DCRICGDPNSVL--RFAFIEFTDEEGARAALN-LAGTML--GFYPVRV 327
              I  D  +      AF+ +   E A+ A++ L   +   G  P+ V
Sbjct: 118 QKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV 165

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 72.4 bits (178), Expect = 9e-16
 Identities = 31/111 (27%), Positives = 53/111 (47%), Gaps = 2/111 (1%)

Query: 232 KKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD 291
           K + G          S  +++EI +R+VYV ++D   T + L A F  CG +    I  D
Sbjct: 12  KMTAGAYTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCD 71

Query: 292 PNSVLR--FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPT 340
             S     +A+IEF +     AA+ +  T+     ++VLP +T +  ++ T
Sbjct: 72  KFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLPKRTNMPGISST 122

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 44.7 bits (106), Expect = 4e-06
 Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 3/69 (4%)

Query: 335 APVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH--H 392
               P      E+++E+  R++Y  N+D   T  D++  F S CG + R+ +L D    H
Sbjct: 18  YTEGPPQPLSAEEKKEIDKRSVYVGNVDYGSTAQDLEAHFSS-CGSINRITILCDKFSGH 76

Query: 393 STRIAFVEF 401
               A++EF
Sbjct: 77  PKGYAYIEF 85

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 72.2 bits (178), Expect = 3e-15
 Identities = 24/135 (17%), Positives = 54/135 (40%), Gaps = 15/135 (11%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV-LRFAFIEFTDEEGARAALN- 314
           R +YV ++D+ +TE+ L   F   G + + +I  D N+  + +AF+E+     A  AL  
Sbjct: 1   RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQT 60

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
           L G  +    V++             +  +++         ++  +++  V    ++  F
Sbjct: 61  LNGKQIENNIVKI------------NWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAF 108

Query: 375 ESVCGEVYRLRLLGD 389
                      ++ D
Sbjct: 109 -KDFPSYLSGHVMWD 122

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 54.1 bits (131), Expect = 5e-09
 Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN- 314
            ++V D++  V +E L   F      +   +  D  +     + F+ FT ++ A+ A++ 
Sbjct: 89  NLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDS 148

Query: 315 LAGTMLGFYPVRV 327
           + G  L   P+R+
Sbjct: 149 MQGQDLNGRPLRI 161

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 69.1 bits (170), Expect = 5e-15
 Identities = 30/82 (36%), Positives = 45/82 (54%), Gaps = 2/82 (2%)

Query: 253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGAR 310
           E   R++YV ++D   T E+L A F GCG V    I  D  S     FA+IEF+D+E  R
Sbjct: 3   EADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVR 62

Query: 311 AALNLAGTMLGFYPVRVLPSKT 332
            +L L  ++     ++V+P +T
Sbjct: 63  TSLALDESLFRGRQIKVIPKRT 84

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 41.3 bits (98), Expect = 3e-05
 Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)

Query: 353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH--HSTRIAFVEF 401
           AR+IY  N+D   T  +++  F   CG V R+ +L D    H    A++EF
Sbjct: 6   ARSIYVGNVDYGATAEELEAHFHG-CGSVNRVTILCDKFSGHPKGFAYIEF 55

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 71.5 bits (176), Expect = 6e-15
 Identities = 34/151 (22%), Positives = 69/151 (45%), Gaps = 20/151 (13%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL 313
           +  + V+ + Q +T+E+  +LF   G++  C++  D  +   L + F+ + D + A  A+
Sbjct: 2   KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61

Query: 314 N-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKL 372
           N L G  L    ++V  ++           P +   R+     +Y + + K +TQ +++ 
Sbjct: 62  NTLNGLRLQTKTIKVSYAR-----------PSSASIRD---ANLYVSGLPKTMTQKELEQ 107

Query: 373 FFESVCGEVYRLRLLGDYH--HSTRIAFVEF 401
            F S  G +   R+L D     S  + F+ F
Sbjct: 108 LF-SQYGRIITSRILVDQVTGVSRGVGFIRF 137

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 71.1 bits (175), Expect = 8e-15
 Identities = 25/156 (16%), Positives = 47/156 (30%), Gaps = 26/156 (16%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-------FAFIEFTDEEGA 309
           R +YV +I   +TEE +   F    ++           +         FAF+EF   +  
Sbjct: 5   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 64

Query: 310 RAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQAD 369
             A+   G +     +++                            ++   +   +    
Sbjct: 65  TQAMAFDGIIFQGQSLKIRRPHDYQPLPGAH--------------KLFIGGLPNYLNDDQ 110

Query: 370 VKLFFESVCGEVYRLRLLGDYHHSTR---IAFVEFV 402
           VK    S  G +    L+ D   +      AF E+V
Sbjct: 111 VKELLTS-FGPLKAFNLVKD-SATGLSKGYAFCEYV 144

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 54.5 bits (132), Expect = 5e-09
 Identities = 15/72 (20%), Positives = 30/72 (41%), Gaps = 3/72 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN-L 315
           +++  +   + ++Q+  L    G +    +  D  + L   +AF E+ D      A+  L
Sbjct: 97  LFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGL 156

Query: 316 AGTMLGFYPVRV 327
            G  LG   + V
Sbjct: 157 NGMQLGDKKLLV 168

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 71.1 bits (175), Expect = 9e-15
 Identities = 33/155 (21%), Positives = 62/155 (40%), Gaps = 23/155 (14%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR----FAFIEFTDEEGARA 311
              ++V  + +  +E+ L  LF   G V +  +  D +          F+ F   + A  
Sbjct: 3   AIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALE 62

Query: 312 ALN-LAGTML---GFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQ 367
           A N L    +     +P+++ P+              +E    +  R ++   I KK T+
Sbjct: 63  AQNALHNMKVLPGMHHPIQMKPAD-------------SEKNNAVEDRKLFIGMISKKCTE 109

Query: 368 ADVKLFFESVCGEVYRLRLLGDYHHSTR-IAFVEF 401
            D+++ F S  G++   R+L      +R  AFV F
Sbjct: 110 NDIRVMFSS-FGQIEECRILRGPDGLSRGCAFVTF 143

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 57.2 bits (139), Expect = 5e-10
 Identities = 31/153 (20%), Positives = 58/153 (37%), Gaps = 21/153 (13%)

Query: 167 RELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNAN 226
           ++L+ELF +   + E  V       N       G    F     + F    A      A 
Sbjct: 18  KDLRELFEQYGAVYEINVLRD-RSQNPPQS--KGC--CF-----VTFYTRKA------AL 61

Query: 227 AAVRR---KKSFGQGKRRMNSRTSLAQREEIIRRT-VYVSDIDQQVTEEQLAALFVGCGQ 282
            A       K        +  + + +++   +    +++  I ++ TE  +  +F   GQ
Sbjct: 62  EAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQ 121

Query: 283 VVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
           + +CRI   P+ + R  AF+ FT    A+ A+ 
Sbjct: 122 IEECRILRGPDGLSRGCAFVTFTTRAMAQTAIK 154

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 71.6 bits (176), Expect = 3e-14
 Identities = 37/169 (21%), Positives = 60/169 (35%), Gaps = 28/169 (16%)

Query: 236 GQGKR-RMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS 294
           G G    + S     ++    R  ++V ++   +TEE    LF   G+  +  I  D   
Sbjct: 1   GMGFTIDIKSFLKPGEKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRDRG- 59

Query: 295 VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCA 353
              F FI       A  A   L GT+L   P+R+   + A                    
Sbjct: 60  ---FGFIRLESRTLAEIAKAELDGTILKSRPLRI---RFATHGAA--------------- 98

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYH-HSTRIAFVEF 401
             +   N+   V+   ++  F S  G V +  ++ D    +T   FVEF
Sbjct: 99  --LTVKNLSPVVSNELLEQAF-SQFGPVEKAVVVVDDRGRATGKGFVEF 144

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 55.5 bits (134), Expect = 7e-09
 Identities = 34/194 (17%), Positives = 55/194 (28%), Gaps = 38/194 (19%)

Query: 168 ELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANA 227
           + + LF +    +E F+               GF  GF     +   +         A  
Sbjct: 38  DFKRLFERYGEPSEVFINRDR-----------GF--GF-----IRLESRT------LAEI 73

Query: 228 AVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCR 287
           A           R +  R   A         + V ++   V+ E L   F   G V    
Sbjct: 74  AKAELDGTILKSRPL--RIRFATHG----AALTVKNLSPVVSNELLEQAFSQFGPVEKAV 127

Query: 288 ICGDPNSVLR-FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTE 346
           +  D         F+EF  +  AR AL                  T   PV    + + +
Sbjct: 128 VVVDDRGRATGKGFVEFAAKPPARKALE---RCGD----GAFLLTTTPRPVIVEPMEQFD 180

Query: 347 DEREMCARTIYCTN 360
           DE  +  + +  T 
Sbjct: 181 DEDGLPEKLMQKTQ 194

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 67.3 bits (165), Expect = 3e-14
 Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 2/84 (2%)

Query: 246 TSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFT 304
           + +   +E   RTV+V +++ +V EE L  LF+  G +    IC D     + F F+ F 
Sbjct: 6   SGMFPAQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFK 65

Query: 305 DEEGARAALN-LAGTMLGFYPVRV 327
             E    A+  L G  L   P+ V
Sbjct: 66  HPESVSYAIALLNGIRLYGRPINV 89

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 65.4 bits (160), Expect = 2e-13
 Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL- 313
            TVYV  +D++V+E  L  LF+  G VV+  +  D  +     + F+EF  EE A  A+ 
Sbjct: 16  ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 75

Query: 314 NLAGTMLGFYPVRV 327
            +    L   P+RV
Sbjct: 76  IMDMIKLYGKPIRV 89

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 66.7 bits (162), Expect = 6e-13
 Identities = 23/173 (13%), Positives = 52/173 (30%), Gaps = 31/173 (17%)

Query: 256 RRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL- 313
              + V  +DQ  +  +++  +F   G V   +           A +E  D      A+ 
Sbjct: 4   SPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSKPG---AAMVEMADGYAVDRAIT 60

Query: 314 NLAGTMLGFYPVRVLPSK-TAIAPVNPTFLP----------------------RTEDERE 350
           +L    +    + V  SK  AI P     L                         ++  +
Sbjct: 61  HLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQ 120

Query: 351 MCARTIYCTNIDKKVTQADVKLFFESVCGEV--YRLRLLGDYHHSTRIAFVEF 401
             +  ++  N   +VT+ +     +   G      +++       +    +E+
Sbjct: 121 HPSNVLHFFNAPLEVTEENFFEICDE-LGVKRPTSVKVFSGKSERSSSGLLEW 172

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 47.8 bits (113), Expect = 2e-06
 Identities = 12/100 (12%), Positives = 29/100 (29%), Gaps = 2/100 (2%)

Query: 216 HNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAA 275
              ++  +   +   +  S  +  R      +   R +     ++  +   +VTEE    
Sbjct: 83  MPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFE 142

Query: 276 LFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL 313
           +    G      +        R     +E+  +  A   L
Sbjct: 143 ICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETL 182

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 63.6 bits (155), Expect = 7e-13
 Identities = 13/82 (15%), Positives = 31/82 (37%), Gaps = 1/82 (1%)

Query: 251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGA 309
           + ++  R+VY+       T + +       GQV++ ++    +   +   F+ F   E A
Sbjct: 6   KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESA 65

Query: 310 RAALNLAGTMLGFYPVRVLPSK 331
           +  +   G       + +L   
Sbjct: 66  KKFVETPGQKYKETDLLILFKD 87

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 44.3 bits (105), Expect = 3e-06
 Identities = 13/59 (22%), Positives = 26/59 (44%), Gaps = 2/59 (3%)

Query: 344 RTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTR-IAFVEF 401
           R   + ++  R++Y        T  D+K + E   G+V  +++    H + +   FV F
Sbjct: 2   RWILKNDVKNRSVYIKGFPTDATLDDIKEWLED-KGQVLNIQMRRTLHKAFKGSIFVVF 59

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 63.5 bits (155), Expect = 7e-13
 Identities = 17/72 (23%), Positives = 27/72 (37%), Gaps = 5/72 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
            T Y+ +I    TE  L  LF   G ++D +   +        FI++   E A   +  L
Sbjct: 28  TTAYIGNIPHFATEADLIPLFQNFGFILDFKHYPEKG----CCFIKYDTHEQAAVCIVAL 83

Query: 316 AGTMLGFYPVRV 327
           A        +R 
Sbjct: 84  ANFPFQGRNLRT 95

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 63.1 bits (154), Expect = 1e-12
 Identities = 17/73 (23%), Positives = 36/73 (49%), Gaps = 5/73 (6%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-N 314
             TVY   I   +T++ +   F   GQ+++ R+  +      ++F+ F+  E A  A+ +
Sbjct: 25  NCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG----YSFVRFSTHESAAHAIVS 80

Query: 315 LAGTMLGFYPVRV 327
           + GT +  + V+ 
Sbjct: 81  VNGTTIEGHVVKC 93

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 62.0 bits (151), Expect = 2e-12
 Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
           R+V+VS   + V   QL+  F+  G V    +  D      FA +E  D     A L+ +
Sbjct: 9   RSVFVSGFPRGVDSAQLSEYFLAFGPVASVVMDKDKG---VFAIVEMGDVGAREAVLSQS 65

Query: 317 GTMLGFYPVRVLPSK 331
              LG + +RV P +
Sbjct: 66  QHSLGGHRLRVRPRE 80

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A Length = 115

 Score = 62.3 bits (152), Expect = 2e-12
 Identities = 27/116 (23%), Positives = 48/116 (41%), Gaps = 17/116 (14%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG 317
           +++ ++D+ +  + L   F   G ++ C++  D N    + F+ F  +E A  A+  + G
Sbjct: 8   IFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNG 67

Query: 318 TMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCAR-----TIYCTNIDKKVTQA 368
            +L    V V             F  R E E E+ AR      +Y  N     T+A
Sbjct: 68  MLLNDRKVFVGR-----------FKSRKEREAELGARAKEFTNVYIKNFGPGSTRA 112

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score = 61.5 bits (150), Expect = 3e-12
 Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 4/74 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
            T ++ ++   VTEE +   F G   +   R+  +P++  R   F + EF D +   +AL
Sbjct: 20  YTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL 78

Query: 314 NLAGTMLGFYPVRV 327
           +L    LG   +RV
Sbjct: 79  SLNEESLGNRRIRV 92

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 62.9 bits (154), Expect = 5e-12
 Identities = 32/150 (21%), Positives = 56/150 (37%), Gaps = 22/150 (14%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL-R-FAFIEFTDEEGARAALN 314
             +++  ++   TE+ L   F   G V D +I  DP +   R F F+ F         + 
Sbjct: 4   CKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK 63

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
               + G    +V+  K AI        PR E ++      I+   I   V   + + FF
Sbjct: 64  TQHILDG----KVIDPKRAI--------PRDEQDK---TGKIFVGGIGPDVRPKEFEEFF 108

Query: 375 ESVCGEVYRLRLLGDYHHSTR---IAFVEF 401
               G +   +L+ D   + +     FV +
Sbjct: 109 SQ-WGTIIDAQLMLD-KDTGQSRGFGFVTY 136

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 54.1 bits (131), Expect = 7e-09
 Identities = 10/90 (11%), Positives = 33/90 (36%), Gaps = 2/90 (2%)

Query: 240 RRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-- 297
           + ++ + ++ + E+     ++V  I   V  ++    F   G ++D ++  D ++     
Sbjct: 71  KVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRG 130

Query: 298 FAFIEFTDEEGARAALNLAGTMLGFYPVRV 327
           F F+ +   +                 + +
Sbjct: 131 FGFVTYDSADAVDRVCQNKFIDFKDRKIEI 160

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 61.1 bits (149), Expect = 6e-12
 Identities = 21/74 (28%), Positives = 36/74 (48%), Gaps = 4/74 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
            T ++ ++   VTEE +   F G   +   R+  +P++  R   F + EF D +   +AL
Sbjct: 16  YTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSAL 74

Query: 314 NLAGTMLGFYPVRV 327
           +L    LG   +RV
Sbjct: 75  SLNEESLGNKRIRV 88

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 60.3 bits (147), Expect = 1e-11
 Identities = 11/75 (14%), Positives = 27/75 (36%), Gaps = 1/75 (1%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNLA 316
            +++ +++   +  +L           D  +        R F +++F   E    AL L 
Sbjct: 19  NLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELT 78

Query: 317 GTMLGFYPVRVLPSK 331
           G  +    +++   K
Sbjct: 79  GLKVFGNEIKLEKPK 93

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 59.6 bits (145), Expect = 1e-11
 Identities = 17/79 (21%), Positives = 31/79 (39%), Gaps = 2/79 (2%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
             TV +      VTE+ +          V  RI  + +     + F++F++EE  + AL 
Sbjct: 10  CHTVKLRGAPFNVTEKNVMEFLAPLK-PVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK 68

Query: 315 LAGTMLGFYPVRVLPSKTA 333
                +G   + V   K+ 
Sbjct: 69  CNREYMGGRYIEVFREKSG 87

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 62.6 bits (152), Expect = 1e-11
 Identities = 32/168 (19%), Positives = 63/168 (37%), Gaps = 29/168 (17%)

Query: 257 RTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-N 314
             + VS+++ + VT + L  LF   G V   +I  +       A ++  D   A+ A+ +
Sbjct: 4   SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSH 60

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCA--------------------- 353
           L G  L   P+R+  SK     +           ++                        
Sbjct: 61  LNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS 120

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF 401
            T++ +NI   V++ D+K+ F S  G V +      +    ++A ++ 
Sbjct: 121 ATLHLSNIPPSVSEEDLKVLFSS-NGGVVKGFKF--FQKDRKMALIQM 165

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 54.9 bits (132), Expect = 5e-09
 Identities = 32/143 (22%), Positives = 49/143 (34%), Gaps = 8/143 (5%)

Query: 198 VNGFNGGFFANNSLIFN--NHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEII 255
           ++  NG       +      H                K +G        +      + I 
Sbjct: 58  MSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIF 117

Query: 256 R--RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
               T+++S+I   V+EE L  LF   G VV        +   + A I+    E A  AL
Sbjct: 118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR--KMALIQMGSVEEAVQAL 175

Query: 314 N-LAGTMLGF-YPVRVLPSKTAI 334
             L    LG  + +RV  SK+ I
Sbjct: 176 IDLHNHDLGENHHLRVSFSKSTI 198

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 60.2 bits (146), Expect = 2e-11
 Identities = 21/97 (21%), Positives = 35/97 (36%), Gaps = 2/97 (2%)

Query: 236 GQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNS 294
             GK     + S ++        VY+  +  +   + +   F     V D   I   PN 
Sbjct: 5   SSGKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNG 64

Query: 295 VLR-FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS 330
                 F+EF +E   +AAL      +G   ++V P 
Sbjct: 65  KATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPI 101

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 59.2 bits (144), Expect = 2e-11
 Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 5/86 (5%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIE 302
           +S +S  ++    R  ++V ++   +TEE++  LF   G+  +  I  D      F FI 
Sbjct: 2   SSGSSGGEKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG----FGFIR 57

Query: 303 FTDEEGARAALN-LAGTMLGFYPVRV 327
                 A  A   L    L    +RV
Sbjct: 58  LETRTLAEIAKVELDNMPLRGKQLRV 83

>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 Length = 114

 Score = 59.2 bits (144), Expect = 3e-11
 Identities = 20/97 (20%), Positives = 40/97 (41%), Gaps = 2/97 (2%)

Query: 237 QGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL 296
            G +    +  +A+++E     +Y+S++   + E++L  +    GQV+  RI  D +   
Sbjct: 6   SGLKASGVQAQMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTS 65

Query: 297 R-FAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK 331
           R   F      E   A +    G  +   P    P++
Sbjct: 66  RGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE 102

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 57.9 bits (141), Expect = 4e-11
 Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           R +YV  + ++V ++ L A F+  G + D +I  D  +  +   FAF+EF   E A AA+
Sbjct: 8   RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET-EKHRGFAFVEFELAEDAAAAI 66

Query: 314 -NLAGTMLGFYPVRV 327
            N+  + L    +RV
Sbjct: 67  DNMNESELFGRTIRV 81

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 59.8 bits (145), Expect = 4e-11
 Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           R +YV  + ++V ++ L A F+  G + D +I  D  +  +   FAF+EF   E A AA+
Sbjct: 64  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET-EKHRGFAFVEFELAEDAAAAI 122

Query: 314 -NLAGTMLGFYPVRV 327
            N+  + L    +RV
Sbjct: 123 DNMNESELFGRTIRV 137

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 61.2 bits (149), Expect = 4e-11
 Identities = 33/150 (22%), Positives = 65/150 (43%), Gaps = 15/150 (10%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL-R-FAFIEFTDEEGARAALN 314
           R +++  +  + T+E L + F   G + DC +  DPN+   R F F+ +   E   AA+N
Sbjct: 14  RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 73

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
                +     RV+  K A++  +            +  + I+   I +   +  ++ +F
Sbjct: 74  ARPHKVDG---RVVEPKRAVSREDS-----QRPGAHLTVKKIFVGGIKEDTEEHHLRDYF 125

Query: 375 ESVCGEVYRLRLLGDYHHSTR---IAFVEF 401
           E   G++  + ++ D   S +    AFV F
Sbjct: 126 EQ-YGKIEVIEIMTD-RGSGKKRGFAFVTF 153

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 52.3 bits (126), Expect = 4e-08
 Identities = 15/73 (20%), Positives = 27/73 (36%), Gaps = 2/73 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN 314
           + ++V  I +   E  L   F   G++    I  D  S  +  FAF+ F D +     + 
Sbjct: 105 KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 164

Query: 315 LAGTMLGFYPVRV 327
                +  +   V
Sbjct: 165 QKYHTVNGHNCEV 177

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 59.9 bits (145), Expect = 4e-11
 Identities = 26/117 (22%), Positives = 43/117 (36%), Gaps = 4/117 (3%)

Query: 212 IFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEE 271
           +F  +   NG           K+F   +   +    + +    +   VYV ++     + 
Sbjct: 29  VFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKT 88

Query: 272 QLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
           +L   F   G +    +  +P     FAF+EF D   A  A+  L G  L    VRV
Sbjct: 89  ELERAFGYYGPLRSVWVARNPP---GFAFVEFEDPRDAADAVRELDGRTLCGCRVRV 142

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 61.6 bits (149), Expect = 4e-11
 Identities = 34/168 (20%), Positives = 70/168 (41%), Gaps = 29/168 (17%)

Query: 257 RTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-N 314
             + VS+++ + VT + L  LF   G V   +I  +       A ++  D   A+ A+ +
Sbjct: 35  SVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNKKE---NALVQMADGNQAQLAMSH 91

Query: 315 LAGTMLGFYPVRVLPSKTAI-------------------APVNPTFLPRTEDEREMCA-- 353
           L G  L   P+R+  SK                      +P++    P +++ + +    
Sbjct: 92  LNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS 151

Query: 354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEF 401
            T++ +NI   V++ D+K+ F S  G V +      +    ++A ++ 
Sbjct: 152 ATLHLSNIPPSVSEEDLKVLFSS-NGGVVKGFKF--FQKDRKMALIQM 196

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 51.9 bits (124), Expect = 7e-08
 Identities = 29/136 (21%), Positives = 45/136 (33%), Gaps = 8/136 (5%)

Query: 198 VNGFNGGFFANNSLIFN--NHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEII 255
           ++  NG       +      H                K +G        +      + I 
Sbjct: 89  MSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIF 148

Query: 256 R--RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL 313
               T+++S+I   V+EE L  LF   G VV        +   + A I+    E A  AL
Sbjct: 149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR--KMALIQMGSVEEAVQAL 206

Query: 314 N-LAGTMLGF-YPVRV 327
             L    LG  + +RV
Sbjct: 207 IDLHNHDLGENHHLRV 222

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 58.2 bits (141), Expect = 7e-11
 Identities = 17/74 (22%), Positives = 30/74 (40%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL- 313
           + V  + ++  V E  L  +    G+V +  I   P +   L  A + FT   GA+  + 
Sbjct: 7   KEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVK 66

Query: 314 NLAGTMLGFYPVRV 327
           NL  T +    +  
Sbjct: 67  NLHLTSVMGNIIHA 80

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 59.1 bits (143), Expect = 7e-11
 Identities = 18/105 (17%), Positives = 34/105 (32%), Gaps = 2/105 (1%)

Query: 230 RRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC 289
                 G  +    S  S    +      V++  +  + TE  +   F      V   I 
Sbjct: 20  HMASMTGGQQMGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIE 78

Query: 290 GDPNSVLR-FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
             P+  +   A +EF   E A AA++     +    + +  + T 
Sbjct: 79  IGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNSTT 123

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 58.7 bits (142), Expect = 7e-11
 Identities = 20/107 (18%), Positives = 34/107 (31%), Gaps = 2/107 (1%)

Query: 229 VRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-R 287
           V R                    +      V +  +    T+E++   F G   V +   
Sbjct: 15  VPRGSHMASMTGGQQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGIT 74

Query: 288 ICGDPNSVLR-FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
           +  DP   +   AF++F  +E A  AL      +G   + V  S   
Sbjct: 75  LPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFKSSQE 121

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 59.0 bits (143), Expect = 8e-11
 Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 5/93 (5%)

Query: 240 RRMNSRTSLAQREEIIR--RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--V 295
           R  + R    ++E++++   T+YV ++    TEEQ+  LF   G +    +  D      
Sbjct: 21  RDQHFRGDNEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTA 80

Query: 296 LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
             F F+E+     A  A+  + GT L    +R 
Sbjct: 81  CGFCFVEYYSRADAENAMRYINGTRLDDRIIRT 113

>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 Length = 87

 Score = 57.1 bits (138), Expect = 9e-11
 Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 15/82 (18%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQ-----------VVDCRICGDPNSVLRFAFIEFTD 305
           R +YV +I   +TEE +   F    +           V+  +I  D N    FAF+EF  
Sbjct: 7   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKN----FAFLEFRS 62

Query: 306 EEGARAALNLAGTMLGFYPVRV 327
            +    A+   G +     +++
Sbjct: 63  VDETTQAMAFDGIIFQGQSLKI 84

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 57.7 bits (140), Expect = 1e-10
 Identities = 19/91 (20%), Positives = 33/91 (36%), Gaps = 2/91 (2%)

Query: 238 GKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR 297
           G   M+    +          +YV ++   +  + +  +F   G + D  +         
Sbjct: 4   GSSGMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRGGP-P 62

Query: 298 FAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
           FAF+EF D   A  A+    G     Y +RV
Sbjct: 63  FAFVEFEDPRDAEDAVYGRDGYDYDGYRLRV 93

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 57.2 bits (139), Expect = 1e-10
 Identities = 24/75 (32%), Positives = 40/75 (53%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           R +YV  + ++V ++ L A F+  G + D +I  D  +  +   FAF+EF   E A AA+
Sbjct: 13  RVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYET-EKHRGFAFVEFELAEDAAAAI 71

Query: 314 -NLAGTMLGFYPVRV 327
            N+  + L    +RV
Sbjct: 72  DNMNESELFGRTIRV 86

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score = 56.9 bits (138), Expect = 1e-10
 Identities = 17/73 (23%), Positives = 34/73 (46%), Gaps = 3/73 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN 314
            T YV ++     +  + A+F     +   R+  D ++   + F ++EF + +  + AL 
Sbjct: 16  YTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALT 74

Query: 315 LAGTMLGFYPVRV 327
             G +LG   +RV
Sbjct: 75  YDGALLGDRSLRV 87

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 57.3 bits (139), Expect = 1e-10
 Identities = 24/96 (25%), Positives = 38/96 (39%), Gaps = 7/96 (7%)

Query: 237 QGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL 296
            G     S     Q  E+    ++V      V E +L  +F   G + + +I        
Sbjct: 12  SGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILNG----- 66

Query: 297 RFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK 331
            FAF+EF + E A  A+  + G      P+ V+ SK
Sbjct: 67  -FAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK 101

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 57.1 bits (138), Expect = 2e-10
 Identities = 13/76 (17%), Positives = 23/76 (30%), Gaps = 2/76 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNL 315
             V V  +     E  +   F G  +V    +  D          ++F   +    AL  
Sbjct: 17  LYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKR 75

Query: 316 AGTMLGFYPVRVLPSK 331
              ++    V V P+ 
Sbjct: 76  NRMLMIQRYVEVSPAT 91

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 55.7 bits (135), Expect = 2e-10
 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 6/73 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-- 314
            T+YV  +   +TE  L   F   G++    +          AFI+F   + A  A    
Sbjct: 13  TTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQRQQ----CAFIQFATRQAAEVAAEKS 68

Query: 315 LAGTMLGFYPVRV 327
               ++    + V
Sbjct: 69  FNKLIVNGRRLNV 81

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 56.1 bits (136), Expect = 3e-10
 Identities = 16/77 (20%), Positives = 35/77 (45%), Gaps = 2/77 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-N 314
             +++S +    T+E+L  +    G V D R+  +     +  A++E+ +E  A  A+  
Sbjct: 18  HKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMK 77

Query: 315 LAGTMLGFYPVRVLPSK 331
           + G  +    ++V  S 
Sbjct: 78  MDGMTIKENIIKVAISN 94

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 55.9 bits (135), Expect = 3e-10
 Identities = 18/93 (19%), Positives = 35/93 (37%), Gaps = 2/93 (2%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNSVLR-FAF 300
           +S +S    +      V +  +    ++E++   F G   V +   +  D        AF
Sbjct: 2   SSGSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAF 61

Query: 301 IEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
           ++F  +E A  AL      +G   + +  S  A
Sbjct: 62  VQFASQEIAEKALKKHKERIGHRYIEIFKSSRA 94

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 56.3 bits (136), Expect = 3e-10
 Identities = 13/77 (16%), Positives = 28/77 (36%), Gaps = 2/77 (2%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNSVLR-FAFIEFTDEEGARAAL 313
           +   ++++I   +T+  +     G     +   +  D N      A ++F +E+ AR + 
Sbjct: 15  KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE 74

Query: 314 NLAGTMLGFYPVRVLPS 330
            L    L      V   
Sbjct: 75  RLHRKKLNGREAFVHVV 91

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 55.3 bits (134), Expect = 4e-10
 Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 5/72 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
             ++V  +    +   LA  F   G +         +    FA+I++   + A+AA   +
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDS----FAYIQYESLDAAQAACAKM 73

Query: 316 AGTMLGFYPVRV 327
            G  LG    R+
Sbjct: 74  RGFPLGGPDRRL 85

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 55.3 bits (134), Expect = 4e-10
 Identities = 19/73 (26%), Positives = 36/73 (49%), Gaps = 5/73 (6%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAALN- 314
           V+V D+  ++T   +AA F   G++ D R+  D  +  +   + F+ F ++  A  A+  
Sbjct: 9   VFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMAT-GKSKGYGFVSFFNKWDAENAIQQ 67

Query: 315 LAGTMLGFYPVRV 327
           + G  LG   +R 
Sbjct: 68  MGGQWLGGRQIRT 80

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 55.5 bits (134), Expect = 5e-10
 Identities = 16/79 (20%), Positives = 29/79 (36%), Gaps = 2/79 (2%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
              V++  +  + TE  +   F      +   I   P+  +   A +EF   E A AA+ 
Sbjct: 15  GHCVHMRGLPYRATENDIYNFFSPLN-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMA 73

Query: 315 LAGTMLGFYPVRVLPSKTA 333
                +    V +  + TA
Sbjct: 74  KDKANMQHRYVELFLNSTA 92

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 54.9 bits (133), Expect = 5e-10
 Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 7/76 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
             +++ ++ ++ TE+++ +LF   G+V++C I      +  + F+   D+  A  A+ NL
Sbjct: 9   VKLFIGNLPREATEQEIRSLFEQYGKVLECDI------IKNYGFVHIEDKTAAEDAIRNL 62

Query: 316 AGTMLGFYPVRVLPSK 331
               L    + V  SK
Sbjct: 63  HHYKLHGVNINVEASK 78

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 54.5 bits (132), Expect = 7e-10
 Identities = 22/95 (23%), Positives = 35/95 (36%), Gaps = 16/95 (16%)

Query: 238 GKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR 297
           G    + + S           ++V +I    T ++L A F   G V++C I      V  
Sbjct: 1   GSSGSSGKAS---------TKLHVGNISPTCTNQELRAKFEEYGPVIECDI------VKD 45

Query: 298 FAFIEFTDEEGARAAL-NLAGTMLGFYPVRVLPSK 331
           +AF+     E A  A+  L  T      + V  S 
Sbjct: 46  YAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST 80

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 54.5 bits (132), Expect = 8e-10
 Identities = 19/76 (25%), Positives = 36/76 (47%), Gaps = 7/76 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
             ++V ++    T ++L +LF   G+V++C +      V  +AF+    E  A+AA+  L
Sbjct: 10  WKIFVGNVSAACTSQELRSLFERRGRVIECDV------VKDYAFVHMEKEADAKAAIAQL 63

Query: 316 AGTMLGFYPVRVLPSK 331
            G  +    + V  S 
Sbjct: 64  NGKEVKGKRINVELST 79

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 54.5 bits (132), Expect = 9e-10
 Identities = 27/75 (36%), Positives = 40/75 (53%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           R VY+  I    TEEQ+  L    G V++ ++  DP +  R   +AFIEF D E + +A+
Sbjct: 3   RVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQT-GRSKGYAFIEFRDLESSASAV 61

Query: 314 -NLAGTMLGFYPVRV 327
            NL G  LG   ++ 
Sbjct: 62  RNLNGYQLGSRFLKC 76

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 54.2 bits (131), Expect = 1e-09
 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 6/76 (7%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-----FAFIEFTDEEGARAA 312
            +++ +++   TEE L  +F   G +  C I    N         F F+E+   E A+ A
Sbjct: 7   GLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKA 66

Query: 313 LN-LAGTMLGFYPVRV 327
           L  L G  +  + + V
Sbjct: 67  LKQLQGHTVDGHKLEV 82

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 54.6 bits (132), Expect = 1e-09
 Identities = 15/75 (20%), Positives = 32/75 (42%), Gaps = 3/75 (4%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FA 299
           +S +S    ++     + V +I  Q  + ++  LF   G++   R+            F 
Sbjct: 2   SSGSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFG 61

Query: 300 FIEFTDEEGARAALN 314
           F++F  ++ A+ A N
Sbjct: 62  FVDFITKQDAKKAFN 76

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 54.6 bits (132), Expect = 1e-09
 Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 2/86 (2%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIE 302
           S +S A +   +  TV+V+++D +V  ++L  +F   G VV   I  D +   R    + 
Sbjct: 3   SGSSGALQAGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVT 62

Query: 303 FTDEEGARAALN-LAGTMLGFYPVRV 327
           F     A  A++   G +L   P+ V
Sbjct: 63  FEQSIEAVQAISMFNGQLLFDRPMHV 88

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 54.3 bits (131), Expect = 1e-09
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 11/86 (12%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAA- 312
           +TV++ ++     EE L  +    G +   R+   P++       AF +F  +E A+   
Sbjct: 16  KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDT-EHSKGCAFAQFMTQEAAQKCL 74

Query: 313 --LNLAGTMLGFY----PVRVLPSKT 332
              +L     G       ++V  + T
Sbjct: 75  AAASLEAEGGGLKLDGRQLKVDLAVT 100

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 53.8 bits (130), Expect = 2e-09
 Identities = 21/82 (25%), Positives = 33/82 (40%), Gaps = 11/82 (13%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL---R-------FAFIEFTDE 306
            T++V  + + VT E +A  F   G +   +  G P   L   R        A + F D 
Sbjct: 14  NTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDP 73

Query: 307 EGARAAL-NLAGTMLGFYPVRV 327
             A+AA+    G      P++V
Sbjct: 74  PSAKAAIDWFDGKEFSGNPIKV 95

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 53.9 bits (130), Expect = 2e-09
 Identities = 16/77 (20%), Positives = 34/77 (44%), Gaps = 5/77 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQ-VVDCRICGDPNS--VLRFAFIEFTDEEGARAAL 313
            ++++ D++  + E  ++  F   G+ V+  +I  +  +     + F+EF D   A   L
Sbjct: 10  ASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCL 69

Query: 314 -NLAGTML-GFYPVRVL 328
             + G  L G  P +  
Sbjct: 70  HKINGKPLPGATPAKRF 86

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 54.3 bits (131), Expect = 2e-09
 Identities = 19/74 (25%), Positives = 36/74 (48%), Gaps = 5/74 (6%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAALN 314
            V+V D+  ++T E + A F   G++ D R+  D  +  +   + F+ F ++  A  A+ 
Sbjct: 17  HVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMAT-GKSKGYGFVSFFNKWDAENAIQ 75

Query: 315 -LAGTMLGFYPVRV 327
            + G  LG   +R 
Sbjct: 76  QMGGQWLGGRQIRT 89

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 53.8 bits (130), Expect = 2e-09
 Identities = 21/70 (30%), Positives = 31/70 (44%), Gaps = 4/70 (5%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NLAG 317
           VYV ++     + +L   F   G +    I  +P     FAF+EF D   A  A+  L G
Sbjct: 3   VYVGNLGTGAGKGELERAFSYYGPLRTVWIARNPPG---FAFVEFEDPRDAEDAVRGLDG 59

Query: 318 TMLGFYPVRV 327
            ++    VRV
Sbjct: 60  KVICGSRVRV 69

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 53.8 bits (130), Expect = 2e-09
 Identities = 18/73 (24%), Positives = 40/73 (54%), Gaps = 1/73 (1%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFI 301
           +S +S ++      R ++V  +++Q +EE +  LF   G + +C +   P+   +  AF+
Sbjct: 2   SSGSSGSESRGGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFV 61

Query: 302 EFTDEEGARAALN 314
           +F+    A+AA++
Sbjct: 62  KFSSHTEAQAAIH 74

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 55.6 bits (134), Expect = 2e-09
 Identities = 26/140 (18%), Positives = 43/140 (30%), Gaps = 8/140 (5%)

Query: 190 KTNNNNHGVNGFNGGFFANNSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLA 249
           K N N   VN   G      +       AR G        R K    + +  +       
Sbjct: 28  KLNRNQRRVNRGGGPRRNRPA------IARGGRNRPAPYSRPKPLPDKWQHDLFDSGCGG 81

Query: 250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEG 308
                    + VS++D  V++  +  LF   G +    +  D +      A + F     
Sbjct: 82  GEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRAD 141

Query: 309 ARAALN-LAGTMLGFYPVRV 327
           A  A+    G  L   P+ +
Sbjct: 142 ALKAMKQYKGVPLDGRPMDI 161

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 52.9 bits (128), Expect = 3e-09
 Identities = 16/73 (21%), Positives = 34/73 (46%), Gaps = 5/73 (6%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAALN- 314
           ++V D++  V +E L   F      +   +  D  +      + F+ FT ++ A+ A++ 
Sbjct: 4   LFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQT-GSSRGYGFVSFTSQDDAQNAMDS 62

Query: 315 LAGTMLGFYPVRV 327
           + G  L   P+R+
Sbjct: 63  MQGQDLNGRPLRI 75

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 53.1 bits (128), Expect = 3e-09
 Identities = 19/85 (22%), Positives = 37/85 (43%), Gaps = 1/85 (1%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEF 303
           S +S     +   + ++VS+I  +  +  L  +F   G+++D  I  +      F F+ F
Sbjct: 3   SGSSGNSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTF 62

Query: 304 TDEEGARAALN-LAGTMLGFYPVRV 327
            +   A  A   L GT++    + V
Sbjct: 63  ENSADADRAREKLHGTVVEGRKIEV 87

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 53.5 bits (129), Expect = 3e-09
 Identities = 17/78 (21%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-N 314
           R +Y+ ++  ++T E++  +F   G +   R+   P +  R  A++ + D   A+ A+ +
Sbjct: 9   RILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET--RGTAYVVYEDIFDAKNAVDH 66

Query: 315 LAGTMLGFYPVRVLPSKT 332
           L+G  +    + VL    
Sbjct: 67  LSGFNVSNRYLVVLYYNA 84

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 53.1 bits (128), Expect = 3e-09
 Identities = 18/72 (25%), Positives = 33/72 (45%), Gaps = 7/72 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
           + ++V ++   VTEE L   F   G++   +   D      +AFI F + +GA  A+  +
Sbjct: 12  KVLFVRNLANTVTEEILEKAFSQFGKLERVKKLKD------YAFIHFDERDGAVKAMEEM 65

Query: 316 AGTMLGFYPVRV 327
            G  L    + +
Sbjct: 66  NGKDLEGENIEI 77

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 53.1 bits (128), Expect = 3e-09
 Identities = 23/93 (24%), Positives = 41/93 (44%), Gaps = 5/93 (5%)

Query: 239 KRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR- 297
                +  +  Q+       +YV  +   +TE+ L  +F   G++   ++  D  +  R 
Sbjct: 9   SHMAAAMANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETG-RS 67

Query: 298 --FAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
             + FI F+D E A+ AL  L G  L   P++V
Sbjct: 68  KGYGFITFSDSECAKKALEQLNGFELAGRPMKV 100

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 53.6 bits (129), Expect = 4e-09
 Identities = 20/89 (22%), Positives = 35/89 (39%), Gaps = 11/89 (12%)

Query: 250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR----------FA 299
           +++     T++V  + + VT E +A  F   G +   +  G P   L            A
Sbjct: 1   EQDNSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEA 60

Query: 300 FIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
            + F D   A+AA+    G      P++V
Sbjct: 61  TVSFDDPPSAKAAIDWFDGKEFSGNPIKV 89

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 53.0 bits (128), Expect = 4e-09
 Identities = 16/70 (22%), Positives = 33/70 (47%), Gaps = 1/70 (1%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG 317
           +YV ++D  + +E+L   F   G +   ++  +      F F+ F+  E A  A+  + G
Sbjct: 18  LYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNG 77

Query: 318 TMLGFYPVRV 327
            ++   P+ V
Sbjct: 78  RIVATKPLYV 87

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 53.1 bits (128), Expect = 4e-09
 Identities = 20/106 (18%), Positives = 46/106 (43%), Gaps = 3/106 (2%)

Query: 225 ANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV 284
           + +A+              +  +  Q E      +++  + Q+ T+  LA+ F+  G V+
Sbjct: 9   SASALSTSPLASVALSAAAAAAAGKQIEGPEGCNLFIYHLPQEFTDTDLASTFLPFGNVI 68

Query: 285 DCRICGDPNSVLR--FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
             ++  D  + L   F F+ F + + A+ A+  + G  +G   ++V
Sbjct: 69  SAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKV 114

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 52.9 bits (127), Expect = 5e-09
 Identities = 14/80 (17%), Positives = 22/80 (27%), Gaps = 4/80 (5%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGC---GQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL 313
            +    +    T E +   F  C             + +   R  A IE   E+  + AL
Sbjct: 13  LIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKAL 72

Query: 314 NLAGTMLGFYPVRVLPSKTA 333
                 +G   V V      
Sbjct: 73  EKHRMYMGQRYVEVYEINNE 92

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 52.8 bits (127), Expect = 5e-09
 Identities = 22/95 (23%), Positives = 36/95 (37%), Gaps = 11/95 (11%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR------ 297
           S +S    E+     +YV  ++  VT + LA  F  CG V   +  G P   +       
Sbjct: 3   SGSSGDPDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETG 62

Query: 298 ----FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
                A + + D   A+AA+    G       ++V
Sbjct: 63  KPKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKV 97

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 52.6 bits (127), Expect = 5e-09
 Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAAL-N 314
            ++V+ + ++ TEE +   F   G++ +  +  D  +  L+ +  +E+   + A+AA+  
Sbjct: 25  ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 84

Query: 315 LAGTMLGFYPVRV 327
           L G  L   P+ V
Sbjct: 85  LNGQDLMGQPISV 97

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 52.3 bits (126), Expect = 5e-09
 Identities = 18/73 (24%), Positives = 33/73 (45%), Gaps = 7/73 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-N 314
           + +YV ++    +EE +   F         R+       +R +AF+ F++ E A  A+  
Sbjct: 16  KILYVRNLMLSTSEEMIEKEFNNIKPGAVERV-----KKIRDYAFVHFSNREDAVEAMKA 70

Query: 315 LAGTMLGFYPVRV 327
           L G +L   P+ V
Sbjct: 71  LNGKVLDGSPIEV 83

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 53.1 bits (127), Expect = 7e-09
 Identities = 15/101 (14%), Positives = 28/101 (27%), Gaps = 4/101 (3%)

Query: 237 QGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGC---GQVVDCRICGDPN 293
            G ++M   + +   E      V +  +    + E +      C                
Sbjct: 25  TGGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE 84

Query: 294 SVLR-FAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
                 AF+E   E+  + AL      +G   + V  S   
Sbjct: 85  GRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVFKSHRT 125

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 51.8 bits (125), Expect = 7e-09
 Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 3/75 (4%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL 313
           + TVYVS++   +T   L  +F   G+VV   I  D ++      AFI F D++ A+   
Sbjct: 16  KSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCT 75

Query: 314 -NLAGTMLGFYPVRV 327
             +    L    ++ 
Sbjct: 76  RAINNKQLFGRVIKA 90

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 51.7 bits (124), Expect = 9e-09
 Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 4/81 (4%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN- 314
            R + + +I   +  E L +L V  G V  C      +       + ++ ++ AR AL+ 
Sbjct: 15  IRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSE-TAVVNVTYSSKDQARQALDK 73

Query: 315 LAGTMLGFYPVRV--LPSKTA 333
           L G  L  + ++V  +P + A
Sbjct: 74  LNGFQLENFTLKVAYIPDEMA 94

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 51.9 bits (125), Expect = 1e-08
 Identities = 18/72 (25%), Positives = 36/72 (50%), Gaps = 2/72 (2%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-NL 315
            +++  ++++  E+ L A+F   G + +  +  D  S  R FAFI F +   A+ A  ++
Sbjct: 9   KLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDM 68

Query: 316 AGTMLGFYPVRV 327
            G  L    ++V
Sbjct: 69  NGKSLHGKAIKV 80

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 52.1 bits (125), Expect = 1e-08
 Identities = 12/73 (16%), Positives = 25/73 (34%), Gaps = 5/73 (6%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN- 314
           +  +   ++       ++   F   G +    +   P      A +EF +   AR A   
Sbjct: 10  KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLL---PEGG-ITAIVEFLEPLEARKAFRH 65

Query: 315 LAGTMLGFYPVRV 327
           LA +     P+ +
Sbjct: 66  LAYSKFHHVPLYL 78

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 51.4 bits (123), Expect = 1e-08
 Identities = 19/78 (24%), Positives = 30/78 (38%), Gaps = 4/78 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
             VYV ++ +      L       G  V  R+        R AF+ + D   A+ A+  L
Sbjct: 20  ADVYVGNLPRDARVSDLKRALRELG-SVPLRLTWQGPR--RRAFLHYPDSAAAQQAVSCL 76

Query: 316 AGTMLGFYPVRVLPSKTA 333
            G  LG   +RV  ++  
Sbjct: 77  QGLRLGTDTLRVALARQQ 94

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 51.5 bits (124), Expect = 1e-08
 Identities = 26/74 (35%), Positives = 39/74 (52%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL- 313
           R+V+V +I  + TEEQL  +F   G VV  R+  D  +     + F E+ D+E A +A+ 
Sbjct: 9   RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68

Query: 314 NLAGTMLGFYPVRV 327
           NL G       +RV
Sbjct: 69  NLNGREFSGRALRV 82

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 52.0 bits (125), Expect = 1e-08
 Identities = 15/72 (20%), Positives = 28/72 (38%), Gaps = 2/72 (2%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-L 315
            + VS++D  V++  +  LF   G +    +  D +      A + F     A  A+   
Sbjct: 37  KLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQY 96

Query: 316 AGTMLGFYPVRV 327
            G  L   P+ +
Sbjct: 97  KGVPLDGRPMDI 108

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 115

 Score = 51.9 bits (125), Expect = 1e-08
 Identities = 20/80 (25%), Positives = 35/80 (43%), Gaps = 5/80 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           + +Y+ ++  +VTE  L +LF    +     I     +  R    AFI F ++E A  AL
Sbjct: 26  KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMT-GRMRGQAFITFPNKEIAWQAL 84

Query: 314 N-LAGTMLGFYPVRVLPSKT 332
           + + G  L    + +   K 
Sbjct: 85  HLVNGYKLYGKILVIEFGKN 104

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 51.8 bits (124), Expect = 1e-08
 Identities = 13/80 (16%), Positives = 22/80 (27%), Gaps = 4/80 (5%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGC---GQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL 313
            V +  +    + E +      C     V                AF+E   E+  + AL
Sbjct: 19  VVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLAL 78

Query: 314 NLAGTMLGFYPVRVLPSKTA 333
                 +G   + V  S   
Sbjct: 79  KKDRESMGHRYIEVFKSHRT 98

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 51.0 bits (123), Expect = 1e-08
 Identities = 20/73 (27%), Positives = 33/73 (45%), Gaps = 2/73 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALN 314
           R +YV ++    T EQ+  LF   G+V + ++  D  +     F F+E  +E  + A   
Sbjct: 2   RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAK 61

Query: 315 LAGTMLGFYPVRV 327
           L  T      +RV
Sbjct: 62  LDNTDFMGRTIRV 74

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 51.2 bits (123), Expect = 2e-08
 Identities = 20/100 (20%), Positives = 38/100 (38%), Gaps = 8/100 (8%)

Query: 236 GQGKRRMNSRTSLAQREEIIRR-------TVYVSDIDQQVTEEQLAALFVGCGQVVDCRI 288
           G      +  + L  R   +          ++VS+I  +  +  L  +F   G+++D  I
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEI 61

Query: 289 CGDPNSVLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
             +      F F+ F +   A  A   L GT++    + V
Sbjct: 62  IFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEV 101

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 52.1 bits (125), Expect = 2e-08
 Identities = 24/116 (20%), Positives = 49/116 (42%), Gaps = 3/116 (2%)

Query: 215 NHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLA 274
           +H+  +  +    +     + GQ   R +        +     ++ V ++  + + + L 
Sbjct: 6   HHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLR 65

Query: 275 ALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
            +F   G+V D  I  D  +   R FAF+ F D+  A  A++ + G +L    +RV
Sbjct: 66  RVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRV 121

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 51.6 bits (124), Expect = 2e-08
 Identities = 19/95 (20%), Positives = 45/95 (47%), Gaps = 3/95 (3%)

Query: 236 GQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV 295
             G  + +   + +Q+E      +++  + Q+  ++ L  +F+  G VV  ++  D  + 
Sbjct: 5   SSGLTQQSIGAAGSQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTN 64

Query: 296 LR--FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
           L   F F+ + +   A+AA+  + G  +G   ++V
Sbjct: 65  LSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKV 99

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 50.7 bits (122), Expect = 2e-08
 Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 8/86 (9%)

Query: 244 SRTSLAQREEIIR-RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIE 302
           S  S  +R    +  T+YV   D  +T   L   F   G ++D  +    N     AF+ 
Sbjct: 2   SSGSSGERRAPRKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRN----CAFVT 55

Query: 303 FTDEEGARAAL-NLAGTMLGFYPVRV 327
           +   E A  A+  L GT +    ++V
Sbjct: 56  YEKMESADQAVAELNGTQVESVQLKV 81

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 50.8 bits (122), Expect = 2e-08
 Identities = 12/79 (15%), Positives = 30/79 (37%), Gaps = 3/79 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNSVLR-FAFIEFTDEEGARAALN- 314
            + V ++   V+ +++   F G   +     +  +   +    A + F   + A AA+  
Sbjct: 17  IIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 76

Query: 315 LAGTMLGFYPVRVLPSKTA 333
           L    +G   V+++     
Sbjct: 77  LNDRPIGSRKVKLVLGSGP 95

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 50.6 bits (122), Expect = 2e-08
 Identities = 12/74 (16%), Positives = 33/74 (44%), Gaps = 4/74 (5%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL- 313
            V++  + + VT++ +  +F   G++    +  +         +A++EF + + A  AL 
Sbjct: 6   KVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALK 65

Query: 314 NLAGTMLGFYPVRV 327
           ++ G  +    +  
Sbjct: 66  HMDGGQIDGQEITA 79

>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 Length = 229

 Score = 53.6 bits (128), Expect = 2e-08
 Identities = 12/113 (10%), Positives = 34/113 (30%), Gaps = 5/113 (4%)

Query: 220 NGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALF-- 277
                    +              +  ++       R  +Y+ ++    T+E L      
Sbjct: 32  GDAPEDRDYMDTLPPTVGDDVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHS 91

Query: 278 VGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
           +G   +++ +   +  +   + FA +    E  ++  ++ L    L      V
Sbjct: 92  LGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVV 144

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 51.0 bits (122), Expect = 2e-08
 Identities = 12/78 (15%), Positives = 23/78 (29%), Gaps = 7/78 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
             V+V  + + V E  L       G +    +          A +EF + + A+  +  A
Sbjct: 16  PVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKR----QALVEFENIDSAKECVTFA 71

Query: 317 ---GTMLGFYPVRVLPSK 331
                 +         S 
Sbjct: 72  ADVPVYIAGQQAFFNYST 89

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 50.7 bits (122), Expect = 2e-08
 Identities = 15/72 (20%), Positives = 29/72 (40%), Gaps = 2/72 (2%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-L 315
            + VS++D  V++  +  LF   G +    +  D +      A + F  +  A  A+   
Sbjct: 31  KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQY 90

Query: 316 AGTMLGFYPVRV 327
            G  L   P+ +
Sbjct: 91  NGVPLDGRPMNI 102

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 51.2 bits (123), Expect = 3e-08
 Identities = 17/73 (23%), Positives = 37/73 (50%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAAL-N 314
            ++V+ + ++ TEE +   F   G++ +  +  D  +  L+ +  +E+   + A+AA+  
Sbjct: 24  ILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEG 83

Query: 315 LAGTMLGFYPVRV 327
           L G  L   P+ V
Sbjct: 84  LNGQDLMGQPISV 96

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 50.3 bits (121), Expect = 3e-08
 Identities = 21/87 (24%), Positives = 34/87 (39%), Gaps = 3/87 (3%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFI 301
           S +S   R      T+ V+++ +   E  L  LF   G +    +  D  +     FAFI
Sbjct: 3   SGSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFI 62

Query: 302 EFTDEEGARAALN-LAGTMLGFYPVRV 327
            F   E A  A+  ++G       + V
Sbjct: 63  SFHRREDAARAIAGVSGFGYDHLILNV 89

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 50.8 bits (122), Expect = 3e-08
 Identities = 14/73 (19%), Positives = 35/73 (47%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAAL-N 314
            ++V+ I ++  E+++   F   G++ +  +  D  +   + +A +E+   + A AA   
Sbjct: 28  ILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEA 87

Query: 315 LAGTMLGFYPVRV 327
           L G  +    ++V
Sbjct: 88  LNGAEIMGQTIQV 100

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 50.3 bits (121), Expect = 3e-08
 Identities = 20/82 (24%), Positives = 43/82 (52%), Gaps = 8/82 (9%)

Query: 257 RTVYVSDIDQQVTEEQL----AALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARA 311
            T+Y++++++++ +++L     A+F   GQ++D  +        R  AF+ F +   A  
Sbjct: 9   HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM--RGQAFVIFKEVSSATN 66

Query: 312 AL-NLAGTMLGFYPVRVLPSKT 332
           AL ++ G      P+R+  +KT
Sbjct: 67  ALRSMQGFPFYDKPMRIQYAKT 88

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 50.5 bits (121), Expect = 3e-08
 Identities = 19/100 (19%), Positives = 43/100 (43%), Gaps = 8/100 (8%)

Query: 234 SFGQGKRRMNSRTSLAQREEIIRRTVYVSDID-QQVTEEQLAALFVGCGQVVDCRICGDP 292
           S G   +   S  +     + I   V++ +++   V +  +  +F   G+V  C +    
Sbjct: 5   SSGMSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV---- 60

Query: 293 NSVLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVRVLPSK 331
                +AF+++++E  ARAA+    G +L    + +  + 
Sbjct: 61  --HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAG 98

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 53.3 bits (127), Expect = 4e-08
 Identities = 20/82 (24%), Positives = 42/82 (51%), Gaps = 8/82 (9%)

Query: 257 RTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARA 311
            T+Y++++++++ +++L     A+F   GQ++D  +        R  AF+ F +   A  
Sbjct: 10  HTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRSLKM--RGQAFVIFKEVSSATN 67

Query: 312 ALN-LAGTMLGFYPVRVLPSKT 332
           AL  + G      P+R+  +KT
Sbjct: 68  ALRSMQGFPFYDKPMRIQYAKT 89

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A Length = 282

 Score = 49.5 bits (117), Expect = 8e-07
 Identities = 22/184 (11%), Positives = 50/184 (27%), Gaps = 7/184 (3%)

Query: 148 LYNQNNQRSNGGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFA 207
           +     +R       K   +E       +       V  ++         +         
Sbjct: 97  MKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHH 156

Query: 208 NNSLIFNNHNARNGNVNANAAVRR--KKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDID 265
                              A  +        Q         +    E      ++++++ 
Sbjct: 157 MPGQPPYMPPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLP 216

Query: 266 QQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG-TMLGFY 323
           ++  E  L+ LF       + R+    +     AF+EF +E  A AA + L G  +    
Sbjct: 217 EETNELMLSMLFNQFPGFKEVRLVPGRHD---IAFVEFDNEVQAGAARDALQGFKITQNN 273

Query: 324 PVRV 327
            +++
Sbjct: 274 AMKI 277

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 50.0 bits (120), Expect = 4e-08
 Identities = 16/73 (21%), Positives = 29/73 (39%), Gaps = 6/73 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-N 314
           RT+   ++   +TE++L  +F    ++      G      +  A+IEF  E  A   L  
Sbjct: 17  RTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKS----KGIAYIEFKSEADAEKNLEE 72

Query: 315 LAGTMLGFYPVRV 327
             G  +    V +
Sbjct: 73  KQGAEIDGRSVSL 85

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 49.9 bits (120), Expect = 4e-08
 Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
             + V  +    TE  L  +F   G + D  I  D  S  R   FAF+ F + + A+ A 
Sbjct: 16  CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSR-RSRGFAFVYFENVDDAKEAK 74

Query: 314 -NLAGTMLGFYPVRV 327
               G  L    +RV
Sbjct: 75  ERANGMELDGRRIRV 89

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 50.7 bits (121), Expect = 4e-08
 Identities = 21/100 (21%), Positives = 45/100 (45%), Gaps = 7/100 (7%)

Query: 239 KRRMNSRTSLAQREEII-RRTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPN 293
           ++ M+S    +        + V +++I+ +V +E+L     AL    G ++D  +    +
Sbjct: 11  RQHMDSPDLGSTPPHTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDD 70

Query: 294 SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT 332
           +    A+I F  +E A+A +    G      P+ +  S+T
Sbjct: 71  N-SGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSET 109

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 49.9 bits (120), Expect = 4e-08
 Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAAL-N 314
            +YV  +   +TE+ L  +F   G++ +  +  D ++   + + FI F+D E AR AL  
Sbjct: 7   GLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQ 66

Query: 315 LAGTMLGFYPVRV 327
           L G  L   P+RV
Sbjct: 67  LNGFELAGRPMRV 79

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 49.5 bits (119), Expect = 5e-08
 Identities = 15/72 (20%), Positives = 26/72 (36%), Gaps = 1/72 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
             ++V ++    T + L   F  CG V+   I  +         ++F   E A  A   +
Sbjct: 9   CQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMM 68

Query: 316 AGTMLGFYPVRV 327
            G  L    + V
Sbjct: 69  NGMKLSGREIDV 80

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 49.5 bits (119), Expect = 5e-08
 Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN- 314
            ++V ++    +EE L  LF   G + +     D  +   + FAF+ F   E A  A   
Sbjct: 10  RLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAE 69

Query: 315 LAGTMLGFYPVRVLPSK 331
           + G +     + VLPS 
Sbjct: 70  VDGQVFQGRMLHVLPST 86

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 49.5 bits (119), Expect = 5e-08
 Identities = 21/73 (28%), Positives = 36/73 (49%), Gaps = 3/73 (4%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAALN- 314
           T+ V ++  + + + L  +F   G+V D  I  +P++   R FAF+ F D   A+ A   
Sbjct: 15  TLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAA 74

Query: 315 LAGTMLGFYPVRV 327
           + G  L    +RV
Sbjct: 75  MDGAELDGRELRV 87

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 49.2 bits (118), Expect = 6e-08
 Identities = 17/98 (17%), Positives = 39/98 (39%), Gaps = 8/98 (8%)

Query: 236 GQGKRRMNSRTSLAQREEIIRRTVYVSDID-QQVTEEQLAALFVGCGQVVDCRICGDPNS 294
           G      +  + L  R   ++  +++ ++  + V++E L  +F   G ++   I      
Sbjct: 2   GSSHHHHHHSSGLVPRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------ 55

Query: 295 VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK 331
              F FI+F + +  R A+   +  M     + +  S 
Sbjct: 56  KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSS 93

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 51.0 bits (122), Expect = 6e-08
 Identities = 15/101 (14%), Positives = 41/101 (40%), Gaps = 3/101 (2%)

Query: 230 RRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC 289
               S+ + +   +       +  +    ++V+ I ++  E+++   F   G++ +  + 
Sbjct: 46  EAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLN 105

Query: 290 GDPNS--VLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
            D  +     +A +E+   + A AA   L G  +    ++V
Sbjct: 106 LDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV 146

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 49.2 bits (118), Expect = 6e-08
 Identities = 12/78 (15%), Positives = 30/78 (38%), Gaps = 3/78 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNSVLR-FAFIEFTDEEGARAALN- 314
            + V ++   V+ +++   F G   +     +  +   +    A + F   + A AA+  
Sbjct: 17  VIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVID 76

Query: 315 LAGTMLGFYPVRVLPSKT 332
           L    +G   V++    +
Sbjct: 77  LNDRPIGSRKVKLSGPSS 94

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 49.2 bits (118), Expect = 6e-08
 Identities = 11/58 (18%), Positives = 25/58 (43%), Gaps = 4/58 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN 314
             +Y+ ++   VT + L  LF      +  ++         +AF+++ D+  A  A+ 
Sbjct: 9   NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSG----YAFVDYPDQNWAIRAIE 62

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 50.5 bits (121), Expect = 6e-08
 Identities = 21/119 (17%), Positives = 44/119 (36%), Gaps = 11/119 (9%)

Query: 212 IFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEE 271
           + + ++                   Q +++ +   +    E  + R + V+ I   V E 
Sbjct: 6   LVSQYDPYGQTAQLQQL--------QQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEV 57

Query: 272 QLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
           QL  LF   G +   +I  D  +     + F++F     A+ A+  L G  +    ++V
Sbjct: 58  QLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKV 116

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 49.2 bits (118), Expect = 9e-08
 Identities = 16/75 (21%), Positives = 33/75 (44%), Gaps = 5/75 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
             ++V  +     E+ L  +F   GQ+ +  +  D  +  R   F F+ F + + A+ A+
Sbjct: 13  GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQ-RSRGFGFVTFENIDDAKDAM 71

Query: 314 N-LAGTMLGFYPVRV 327
             + G  +    +RV
Sbjct: 72  MAMNGKSVDGRQIRV 86

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 48.9 bits (117), Expect = 1e-07
 Identities = 12/68 (17%), Positives = 31/68 (45%), Gaps = 2/68 (2%)

Query: 249 AQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDE 306
           +  ++     +++  I + + E+ L  LF   G++ +  +  D  + +    AF+ + + 
Sbjct: 6   SGMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCER 65

Query: 307 EGARAALN 314
           E A  A +
Sbjct: 66  ESALKAQS 73

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 49.9 bits (119), Expect = 2e-07
 Identities = 22/128 (17%), Positives = 44/128 (34%), Gaps = 8/128 (6%)

Query: 206 FANNSLIFNNHNARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDID 265
             ++ +     N    ++     VR++ S  +   +  +           R  VYV    
Sbjct: 6   HHSSGVDLGTENLYFQSMEPPPPVRQEPS-PKPNNKTPAILYTYSGLRNRRAAVYVGSFS 64

Query: 266 QQVTEEQLAALF--VGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAALN-LAGTM 319
              T++QL  +   +G   VV+ +   +  +  +   +A +    E      L  L G +
Sbjct: 65  WWTTDQQLIQVIRSIGVYDVVELKFAENRAN-GQSKGYAEVVVASENSVHKLLELLPGKV 123

Query: 320 LGFYPVRV 327
           L    V V
Sbjct: 124 LNGEKVDV 131

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 49.8 bits (119), Expect = 2e-07
 Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 3/101 (2%)

Query: 230 RRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRIC 289
               +         S       +     ++ V ++  + + + L  +F   G+V D  I 
Sbjct: 44  TYDDATKTFTVTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIP 103

Query: 290 GDPNS-VLR-FAFIEFTDEEGARAAL-NLAGTMLGFYPVRV 327
            D  +   R FAF+ F D+  A  A+  + G +L    +RV
Sbjct: 104 RDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRV 144

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 48.4 bits (116), Expect = 2e-07
 Identities = 13/57 (22%), Positives = 28/57 (49%), Gaps = 1/57 (1%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
           V+V  ID ++ E ++ + F   G V + +I  D   V + + F+ F ++   +  + 
Sbjct: 12  VFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE 68

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 48.3 bits (115), Expect = 2e-07
 Identities = 16/63 (25%), Positives = 30/63 (47%), Gaps = 4/63 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
           R +++  +   VTE ++ +L +  G+V +  +    N     AFIE   EE A   +N  
Sbjct: 17  RVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKN----QAFIEMNTEEAANTMVNYY 72

Query: 317 GTM 319
            ++
Sbjct: 73  TSV 75

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 50.2 bits (119), Expect = 2e-07
 Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 1/76 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNL 315
           R+VY+       T + +       GQV++ ++    +   +   F+ F   E A+  +  
Sbjct: 110 RSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVET 169

Query: 316 AGTMLGFYPVRVLPSK 331
            G       + +L   
Sbjct: 170 PGQKYKETDLLILFKD 185

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 47.2 bits (113), Expect = 3e-07
 Identities = 18/74 (24%), Positives = 37/74 (50%), Gaps = 4/74 (5%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNSVLR--FAFIEFTDEEGARAALN 314
            +++ ++D ++ E+ L   F   G ++   +I  DP++     +AFI F   + + AA+ 
Sbjct: 7   GIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIE 66

Query: 315 -LAGTMLGFYPVRV 327
            + G  L   P+ V
Sbjct: 67  AMNGQYLCNRPITV 80

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 48.2 bits (115), Expect = 3e-07
 Identities = 24/104 (23%), Positives = 36/104 (34%), Gaps = 6/104 (5%)

Query: 229 VRRKKSFGQGKRRMNSRTSLAQREEIIR-RTVYVSDIDQQVTEEQLAALFVGCGQVVDCR 287
                S   G++       +  R        + V  +    TE  L  +F   G + D  
Sbjct: 18  GSHMASMTGGQQMGRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVS 77

Query: 288 ICGDPNSVLR---FAFIEFTDEEGARAALN-LAGTMLGFYPVRV 327
           I  D  S  R   FAF+ F + + A+ A     G  L    +RV
Sbjct: 78  IVYDQQS-RRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV 120

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 47.9 bits (114), Expect = 3e-07
 Identities = 14/93 (15%), Positives = 35/93 (37%), Gaps = 9/93 (9%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQL---AALFVGCGQVVDCRICGDPNSVLR--- 297
           S +S A    + +  V+V  + Q++ + ++      F   G++    I    +       
Sbjct: 3   SGSSGASVRVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGP 62

Query: 298 --FAFIEFTDEEGA-RAALNLAGTMLGFYPVRV 327
              A++ +   E A RA   +   ++    ++ 
Sbjct: 63  SASAYVTYIRSEDALRAIQCVNNVVVDGRTLKA 95

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 48.0 bits (114), Expect = 3e-07
 Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 5/81 (6%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDC----RICGDPNSVLR-FAFIEFTDEEGARAA 312
            V +  +    T E++ A F     +            P+      AF+ F  EE A+ A
Sbjct: 25  IVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNA 84

Query: 313 LNLAGTMLGFYPVRVLPSKTA 333
           L     +LG   + +  S  A
Sbjct: 85  LRKHKDLLGKRYIELFRSTAA 105

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 46.8 bits (112), Expect = 4e-07
 Identities = 14/78 (17%), Positives = 33/78 (42%), Gaps = 8/78 (10%)

Query: 256 RRTVYVSDID-QQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL- 313
           +  +++ ++  + V++E L  +F   G ++   I         F FI+F + +  R A+ 
Sbjct: 10  KSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINI------KNAFGFIQFDNPQSVRDAIE 63

Query: 314 NLAGTMLGFYPVRVLPSK 331
             +  M     + +  S 
Sbjct: 64  CESQEMNFGKKLILEVSS 81

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 46.4 bits (111), Expect = 5e-07
 Identities = 12/72 (16%), Positives = 29/72 (40%), Gaps = 3/72 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL--RFAFIEFTDEEGARAALN-L 315
           +Y+  +    T++ L  L    G++V  +   D  +     + F++F     A+ A+  L
Sbjct: 8   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 67

Query: 316 AGTMLGFYPVRV 327
             + +     + 
Sbjct: 68  KASGVQAQMAKQ 79

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 46.7 bits (111), Expect = 5e-07
 Identities = 15/63 (23%), Positives = 22/63 (34%), Gaps = 4/63 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
             V++  +   V E  L       G +    +        R A +EF D  GA  A+N A
Sbjct: 22  PVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK----KRQALVEFEDVLGACNAVNYA 77

Query: 317 GTM 319
              
Sbjct: 78  ADN 80

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 47.1 bits (112), Expect = 6e-07
 Identities = 13/78 (16%), Positives = 27/78 (34%), Gaps = 7/78 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVV-DCRICGDPNSVLR---FAFIEFTDEEGARAA 312
             +++  I +    E++        + V D  +       ++   FAF+E+     A  A
Sbjct: 9   CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMA 68

Query: 313 ---LNLAGTMLGFYPVRV 327
              L      L  + + V
Sbjct: 69  RRKLMPGRIQLWGHQIAV 86

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 47.2 bits (112), Expect = 6e-07
 Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 4/81 (4%)

Query: 238 GKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR 297
           G     S    ++   +  R +++  +   VTE ++ +L +  G+V +  +    N    
Sbjct: 13  GLVPRGSHMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKGKN---- 68

Query: 298 FAFIEFTDEEGARAALNLAGT 318
            AFIE   EE A   +N   +
Sbjct: 69  QAFIEMNTEEAANTMVNYYTS 89

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 46.4 bits (110), Expect = 8e-07
 Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 4/58 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN 314
           R +++  +  +VTE ++ AL +  G+V +  +    N     AF+E   EE A   +N
Sbjct: 16  RVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKN----QAFLELATEEAAITMVN 69

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 5/73 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL-N 314
           +T+ +S++    TEE L  +F     +   ++  + N   + +AFIEF   E A+ AL +
Sbjct: 16  KTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNS 72

Query: 315 LAGTMLGFYPVRV 327
                +    +R+
Sbjct: 73  CNKREIEGRAIRL 85

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 45.3 bits (108), Expect = 2e-06
 Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 8/75 (10%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
           +T++V  + +  TEE L   F      V  RI  D  +      F F++F  EE A+AA 
Sbjct: 16  KTLFVKGLSEDTTEETLKESF---DGSVRARIVTDRETG-SSKGFGFVDFNSEEDAKAAK 71

Query: 314 -NLAGTMLGFYPVRV 327
             +    +    V +
Sbjct: 72  EAMEDGEIDGNKVTL 86

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 45.0 bits (107), Expect = 2e-06
 Identities = 13/80 (16%), Positives = 25/80 (31%), Gaps = 9/80 (11%)

Query: 257 RTVYVSDIDQQVTEEQLAALF--VGCGQVVDCRICGDPNS-VLR-FAFIEFTDEEGARAA 312
            T+ + +I      + +           V + R+  D  +   R FAF++ +    A   
Sbjct: 10  DTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQL 69

Query: 313 LN-LAGTMLGFY----PVRV 327
           L  L             + V
Sbjct: 70  LQILQSLHPPLKIDGKTIGV 89

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 45.0 bits (107), Expect = 3e-06
 Identities = 19/77 (24%), Positives = 32/77 (41%), Gaps = 10/77 (12%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGC-GQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALNL 315
           +++V D+   V +  L   FV         ++  D   V + + F++FTDE   + AL  
Sbjct: 11  SLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALT- 69

Query: 316 AGTMLGFY-----PVRV 327
                G       PVR+
Sbjct: 70  --ECQGAVGLGSKPVRL 84

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 44.1 bits (105), Expect = 4e-06
 Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 15/82 (18%)

Query: 256 RRTVYVSDIDQQVTEEQLAALF--VGCGQVVDCRICGDPNSVLR-------FAFIEFTDE 306
           R  +Y+ ++    T+E L      +G   +++ +   +     R       FA +    E
Sbjct: 1   RIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFEN-----RANGQSKGFALVGVGSE 55

Query: 307 EGARAALN-LAGTMLGFYPVRV 327
             ++  ++ L    L      V
Sbjct: 56  ASSKKLMDLLPKRELHGQNPVV 77

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 5e-06
 Identities = 58/458 (12%), Positives = 120/458 (26%), Gaps = 153/458 (33%)

Query: 13  DDVKQIPHSSIRRSSSVFDSL--SNSLCVNYFVTESKKSKNNNNSLALRFVLHQWKEFQF 70
           D +     + +  +  +F +L       V  FV E  +  N        F++   K  Q 
Sbjct: 52  DHIIMSKDA-VSGTLRLFWTLLSKQEEMVQKFVEEVLR-INYK------FLMSPIKTEQR 103

Query: 71  QLSLRLFSFIDQ-----------SK--VKIFERVNQVQEGKKERKKET------MA---- 107
           Q S+    +I+Q           +K  V   +   ++++   E +         +     
Sbjct: 104 QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163

Query: 108 --VVESASQDSAVSSAGSIPA---SNGQDH-PKQNGGTMVMPLDQGLYNQN----NQRSN 157
             V         V           +    + P+      V+ + Q L  Q       RS+
Sbjct: 164 TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET-----VLEMLQKLLYQIDPNWTSRSD 218

Query: 158 GGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHN 217
              + K  +  +Q    +L  +  +     L                      L+  N  
Sbjct: 219 HSSNIKLRIHSIQAELRRL--LKSKPYENCL----------------------LVLLN-- 252

Query: 218 ARNGNVNANAAVRRK---KSFGQG-KRRMNSR-TSLAQREEIIRRT-VYVSDIDQQVTEE 271
                      V+      +F    K  + +R   +         T + +      +T +
Sbjct: 253 -----------VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPD 301

Query: 272 QLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK 331
           ++ +L     + +DCR    P  VL                L++    +           
Sbjct: 302 EVKSLL---LKYLDCRPQDLPREVLT----------TNPRRLSIIAESI----------- 337

Query: 332 TAIAPVNPTFLPRTEDEREMCARTIYCTNID-KKVTQADVKLFFESVCGEVYRLRLLGDY 390
                            R+  A      +++  K+T   ++     +    YR       
Sbjct: 338 -----------------RDGLATWDNWKHVNCDKLTTI-IESSLNVLEPAEYR-----KM 374

Query: 391 HHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLE 428
                + F      I +  L            S+ W +
Sbjct: 375 FDRLSV-FPPSAH-IPTILL------------SLIWFD 398

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 44.4 bits (105), Expect = 5e-06
 Identities = 15/87 (17%), Positives = 25/87 (28%), Gaps = 6/87 (6%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIE 302
           +S +S           V VS +    + + L       G V    +  D         +E
Sbjct: 2   SSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVE 56

Query: 303 FTDEEGARAALN-LAGTMLGFYPVRVL 328
           F  +E    A+  L  T    +     
Sbjct: 57  FVRKEDMTYAVRKLDNTKFRSHEGETA 83

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 44.1 bits (104), Expect = 6e-06
 Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 5/63 (7%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG 317
           V    +   V+  QL  +   CG V    +  +      ++F  +   E ++ A   L G
Sbjct: 30  VANGGLGNGVSRNQLLPVLEKCGLVDALLMPPNKP----YSFARYRTTEESKRAYVTLNG 85

Query: 318 TML 320
             +
Sbjct: 86  KEV 88

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 43.2 bits (102), Expect = 7e-06
 Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 6/78 (7%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-N 314
              + V ++ Q    +++  L      +  C +    +   R AF+   + E A+ A+  
Sbjct: 5   SSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYV----DRNKRTAFVTLLNGEQAQNAIQM 59

Query: 315 LAGTMLGFYPVRVLPSKT 332
                     + V    T
Sbjct: 60  FHQYSFRGKDLIVQLQPT 77

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 43.0 bits (102), Expect = 1e-05
 Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 2/59 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAALNL 315
           ++V  I     E +L   F   G V +  +  D        F FI F DE+    A+N+
Sbjct: 13  IFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNM 71

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 42.7 bits (101), Expect = 2e-05
 Identities = 15/100 (15%), Positives = 31/100 (31%), Gaps = 7/100 (7%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FA 299
            S      +++     ++V  +    T+  L   F G G + +  +  D  +  +   + 
Sbjct: 4   GSSGMHGSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQT-GKSRGYG 62

Query: 300 FIEFTDEEGARAALNLAGTMLGFYPVRVLPSKTAIAPVNP 339
           F+   D   A  A      ++      V     A     P
Sbjct: 63  FVTMADRAAAERACKDPNPIIDGRKANV---NLAYLGAKP 99

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 41.7 bits (98), Expect = 4e-05
 Identities = 14/86 (16%), Positives = 22/86 (25%), Gaps = 6/86 (6%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIE 302
             R             V VS +    + + L       G V    +  D         +E
Sbjct: 3   APRGRYGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVE 57

Query: 303 FTDEEGARAALN-LAGTMLGFYPVRV 327
           F  +E    A+  L  T    +    
Sbjct: 58  FVRKEDMTYAVRKLDNTKFRSHEGET 83

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 42.5 bits (100), Expect = 4e-05
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 8/84 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-------FAFIEFTDEEGA 309
             +YV ++ + V E+ L  +F               +  L         AFI   +E+ A
Sbjct: 46  CRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAA 105

Query: 310 RAALN-LAGTMLGFYPVRVLPSKT 332
             AL    G +L   P+ V  +++
Sbjct: 106 AKALKEANGYVLFGKPMVVQFARS 129

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Length = 89

 Score = 40.3 bits (95), Expect = 8e-05
 Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 5/57 (8%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN 314
           V+V    + +T E+L   F   G+VVD  I        R FAF+ F D++ A++   
Sbjct: 14  VFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKPF----RAFAFVTFADDKVAQSLCG 66

>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* Length = 437

 Score = 43.7 bits (102), Expect = 8e-05
 Identities = 15/66 (22%), Positives = 27/66 (40%), Gaps = 2/66 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN 314
           +T++V+ ++   TE +L   F   G +    +     S     +AFIE+  E    +A  
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYK 162

Query: 315 LAGTML 320
            A    
Sbjct: 163 HADGKK 168

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Length = 87

 Score = 39.9 bits (94), Expect = 9e-05
 Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
             ++V  +    +++ L   F   G+VVDC I  DPN+  R   F FI F D       L
Sbjct: 12  GKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNT-GRSRGFGFILFKDAASVEKVL 70

Query: 314 N 314
           +
Sbjct: 71  D 71

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 39.4 bits (93), Expect = 1e-04
 Identities = 15/57 (26%), Positives = 26/57 (45%), Gaps = 2/57 (3%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL 313
           ++V  +     EE++   F G G+V    +  D  +  R  F FI F +EE  +  +
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIM 58

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 40.2 bits (94), Expect = 1e-04
 Identities = 13/89 (14%), Positives = 25/89 (28%), Gaps = 2/89 (2%)

Query: 240 RRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFA 299
             +  R S   +    R  + + ++ +  + + L  L                +      
Sbjct: 12  SGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTRDFD-GTG 70

Query: 300 FIEFTDEEGARAALN-LAGTMLGFYPVRV 327
            +EF  EE    AL  L         + V
Sbjct: 71  ALEFPSEEILVEALERLNNIEFRGSVITV 99

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 88

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 5/56 (8%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAAL 313
           V+V      +TE++L   F   G V+D  I        R FAF+ F D++ A++  
Sbjct: 8   VFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPF----RAFAFVTFADDQIAQSLC 59

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A Length = 240

 Score = 42.1 bits (98), Expect = 2e-04
 Identities = 14/92 (15%), Positives = 29/92 (31%), Gaps = 14/92 (15%)

Query: 257 RTVYVSDIDQQVT---------EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEE 307
           +T+YV  ID  +          E ++  +F   G +   R            F++F  + 
Sbjct: 135 KTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES----KNCGFVKFKYQA 190

Query: 308 GA-RAALNLAGTMLGFYPVRVLPSKTAIAPVN 338
            A  A   ++   L     +    +     + 
Sbjct: 191 NAEFAKEAMSNQTLLLPSDKEWDDRREGTGLL 222

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A Length = 164

 Score = 40.9 bits (95), Expect = 2e-04
 Identities = 17/103 (16%), Positives = 41/103 (39%), Gaps = 5/103 (4%)

Query: 213 FNNHNARNGNVNA-NAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEE 271
            ++H +    + A N+      +       +++  ++A +  ++R  + V ++   VT +
Sbjct: 4   HHHHGSAQAALQAVNSVQSGNLALAASAAAVDAGMAMAGQSPVLR--IIVENLFYPVTLD 61

Query: 272 QLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN 314
            L  +F   G V+        N     A +++ D   A+ A  
Sbjct: 62  VLHQIFSKFGTVLKIITFTKNNQF--QALLQYADPVSAQHAKL 102

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 39.5 bits (93), Expect = 2e-04
 Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 4/75 (5%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FA 299
           +S +S  +R       + V  +  + TE+ L   F   G+V+  ++  D  +      F 
Sbjct: 2   SSGSSGVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTG-HSKGFG 60

Query: 300 FIEFTDEEGARAALN 314
           F+ FT+ E     ++
Sbjct: 61  FVRFTEYETQVKVMS 75

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 38.0 bits (89), Expect = 8e-04
 Identities = 18/81 (22%), Positives = 35/81 (43%), Gaps = 6/81 (7%)

Query: 237 QGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL 296
           +    +       ++E+   R +++  +  + TEE L   +   G++ DC +  DP S  
Sbjct: 10  KTLETVPLERKKREKEQF--RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASK- 66

Query: 297 R---FAFIEFTDEEGARAALN 314
           R   F F+ F+      AA+ 
Sbjct: 67  RSRGFGFVTFSSMAEVDAAMA 87

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 37.8 bits (88), Expect = 9e-04
 Identities = 14/65 (21%), Positives = 25/65 (38%), Gaps = 3/65 (4%)

Query: 260 YVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL-NLA 316
            +      V ++ L +LF   G+VV+     D  +     F F+E      A+  + +  
Sbjct: 16  VIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75

Query: 317 GTMLG 321
           G  L 
Sbjct: 76  GKRLD 80

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	437
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.96
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.96
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.96
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.96
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.95
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.95
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.95
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.95
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.95
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.94
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.93
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.93
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.93
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.93
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.93
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.93
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.92
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.92
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.92
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.92
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.82
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.74
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.69
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.67
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.65
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.64
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.64
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.64
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.63
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.61
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.61
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.61
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.61
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.6
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.6
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.6
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.6
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.6
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.6
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.6
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.6
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.6
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.6
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.6
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.59
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.59
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.59
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.59
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.59
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.59
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.59
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.59
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.58
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.58
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.58
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.58
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.58
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.58
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.58
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.58
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.58
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.57
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.57
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.57
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.57
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.57
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.57
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.57
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.57
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.56
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.56
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.56
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.56
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.56
2div_A	99	TRNA selenocysteine associated protein; structural	99.56
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.56
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.56
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.56
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.55
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.55
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.55
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.55
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.55
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.55
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.55
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.55
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.55
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.55
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.54
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.54
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.54
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.54
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.54
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.54
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.53
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.53
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.53
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.53
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.53
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.53
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.53
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.53
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.53
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.53
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.52
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.52
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.52
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.52
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.52
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.51
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.51
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.51
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.51
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.51
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.51
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.51
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.51
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.51
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.51
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.51
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.51
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.5
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.5
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.5
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.5
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.5
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.5
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.5
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.5
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.5
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.5
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.5
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.49
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.49
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.49
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.49
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.49
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.49
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.49
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.49
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.49
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.49
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.49
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.49
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.49
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.48
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.48
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.48
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.48
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.48
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.47
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.47
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.47
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.47
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.46
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.46
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.46
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.46
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.45
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.45
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.45
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.45
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.45
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.45
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.45
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.44
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.44
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.44
1x5p_A	97	Negative elongation factor E; structure genomics,	99.44
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.44
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.43
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.43
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.43
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.43
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.43
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.43
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.43
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.43
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.43
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.42
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.14
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.42
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.42
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.41
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.41
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.41
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.41
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.41
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.4
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.4
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.4
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.4
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.39
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.39
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.39
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.39
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.39
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.39
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.38
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.38
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.38
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.38
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.38
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.38
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.38
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.38
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.37
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.37
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.37
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.37
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.37
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.37
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.37
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.37
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.36
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.36
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.36
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.36
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.36
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.36
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.36
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.36
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.36
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.36
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.36
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.36
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.35
2div_A	99	TRNA selenocysteine associated protein; structural	99.35
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.35
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.35
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.35
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.35
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.35
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.35
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.35
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.35
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.34
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.34
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.34
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.34
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.34
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.34
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.34
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.33
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.33
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.33
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.33
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.33
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.33
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.33
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.33
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.33
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.33
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.33
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.32
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.32
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.32
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.32
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.32
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.32
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.32
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.32
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.31
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.31
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.31
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.31
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.31
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.3
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.3
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.3
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.3
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.29
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.29
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.29
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.29
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.29
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.29
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.29
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.29
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.29
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.28
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.28
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.28
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.28
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.28
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.28
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.28
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.28
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.28
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.28
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.28
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.27
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.27
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.27
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.27
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.26
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.26
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.26
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.26
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.26
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.26
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.25
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.25
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.24
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.24
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.24
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.24
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.24
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.24
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.23
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.23
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.22
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.22
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.22
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.22
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.22
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.22
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.22
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.21
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.21
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.2
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.2
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.2
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.19
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.19
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.19
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.18
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.17
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.17
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.16
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.16
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.16
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.16
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.16
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.16
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.16
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.15
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.15
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.15
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.15
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.13
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.12
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.12
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.12
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.12
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.11
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.71
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.1
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.09
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.09
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.09
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.07
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.04
1x5p_A	97	Negative elongation factor E; structure genomics,	99.04
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.03
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.03
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.01
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.99
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.98
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.96
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.94
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.92
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.9
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.89
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.82
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.81
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.78
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.77
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.74
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.72
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.68
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.67
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.6
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.47
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.38
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.37
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.26
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.77
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.58
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	97.46
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	97.29
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	96.9
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	96.54
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	96.41
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	96.35
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	96.24
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.15
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	96.1
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	95.68
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	94.84
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	94.62
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	94.51
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	93.83
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	93.78
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	93.78
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	93.5
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	92.81
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	92.35
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	90.45

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

Probab=99.96  E-value=1.4e-28  Score=230.85  Aligned_cols=162  Identities=22%  Similarity=0.357  Sum_probs=138.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...+||||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|++ +++..+.|+.|.+.++
T Consensus        13 ~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~   92 (213)
T 4f02_A           13 YPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS   92 (213)
T ss_dssp             --CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhhhhcCCcccccccc
Confidence            35689999999999999999999999999999999998765  58999999999999999999 9999999999999886


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~ka  410 (437)
                      ...            ........++|||+|||+++|+++|+++|++| |.|..|+|++|.+.++|||||+|.+.++|.+|
T Consensus        93 ~~~------------~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~-G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~A  159 (213)
T 4f02_A           93 QRD------------PSLRKSGVGNIFIKNLDKSIDNKALYDTFSAF-GNILSCKVVCDENGSKGYGFVHFETQEAAERA  159 (213)
T ss_dssp             CCC------------THHHHHCTTEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEEETTEEEEEEEEEESSHHHHHHH
T ss_pred             ccc------------ccccccccccceECCcccccHHHHHHHHHhhc-CCeEEEEeeccCCCCceEEEEEeCCHHHHHHH
Confidence            421            11223345799999999999999999999995 99999999999888999999999999999999


Q ss_pred             HhhcCceeccCc--hhhhhh
Q 013726          411 FIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       411 l~~~~~~~~~~~--~i~~~~  428 (437)
                      +...+...++..  .|.||.
T Consensus       160 i~~lng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          160 IEKMNGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             HHHHTTCEETTEECEEEECC
T ss_pred             HHHhCCCEECCEEEEEEEcC
Confidence            987665444433  355554

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.96  E-value=2.3e-28  Score=223.67  Aligned_cols=168  Identities=18%  Similarity=0.282  Sum_probs=137.9

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      .+...++|||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|+++++..+.|+.|.|.+
T Consensus         9 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~l~v~~   88 (196)
T 1l3k_A            9 EPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKR   88 (196)
T ss_dssp             CCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCCCEECCEEeeeec
Confidence            3456789999999999999999999999999999999998765  58999999999999999999999999999999998


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHH
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A  407 (437)
                      +........        .......++|||+|||.++|+++|+++|++| |.|..|+++++  ++.++|||||+|.+.++|
T Consensus        89 ~~~~~~~~~--------~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A  159 (196)
T 1l3k_A           89 AVSREDSQR--------PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY-GKIEVIEIMTDRGSGKKRGFAFVTFDDHDSV  159 (196)
T ss_dssp             CCC-------------------CCSEEEEECCTTTCCHHHHHHHHTTT-SCEEEEEEEECTTTCCEEEEEEEEESSHHHH
T ss_pred             ccCcccccc--------cccCCCcceEEEeCCCCCCCHHHHHHHHhcC-CCeEEEEEeecCCCCCccceEEEEECCHHHH
Confidence            753221111        1112345899999999999999999999995 99999999988  577999999999999999


Q ss_pred             HHHHhhcCceeccCc-hhhhhh
Q 013726          408 STLFIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       408 ~kal~~~~~~~~~~~-~i~~~~  428 (437)
                      .+|+...+..+.+.+ .|.||.
T Consensus       160 ~~A~~~~~~~~~G~~i~v~~a~  181 (196)
T 1l3k_A          160 DKIVIQKYHTVNGHNCEVRKAL  181 (196)
T ss_dssp             HHHHHCSCCEETTEECEEEECC
T ss_pred             HHHHHhCCcEECCEEEEEEecC
Confidence            999977544444332 355543

>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=99.96  E-value=6.4e-28  Score=214.30  Aligned_cols=151  Identities=21%  Similarity=0.378  Sum_probs=133.0

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      .++|||+|||+++|+++|+++|+.||.|.+++++.++.+  ++|||||+|.+.++|.+|++ |+|..+.|+.|.|.++..
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~   81 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARP   81 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCC
Confidence            589999999999999999999999999999999988744  48999999999999999999 999999999999998752


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~ka  410 (437)
                      ..              .....++|||+|||..+|+++|+++|++| |.|..++++.+  +|.++|||||+|.+.++|.+|
T Consensus        82 ~~--------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A  146 (167)
T 1fxl_A           82 SS--------------ASIRDANLYVSGLPKTMTQKELEQLFSQY-GRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEA  146 (167)
T ss_dssp             CC--------------GGGTTCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHH
T ss_pred             Cc--------------ccCCCCcEEECCCCCcCCHHHHHHHHHhc-CCEeEEEEEecCCCCCccceEEEEeCCHHHHHHH
Confidence            11              12245799999999999999999999995 99999999987  567899999999999999999


Q ss_pred             HhhcCceeccC
Q 013726          411 FIHTEFYILHN  421 (437)
Q Consensus       411 l~~~~~~~~~~  421 (437)
                      +...+...+..
T Consensus       147 ~~~l~g~~~~g  157 (167)
T 1fxl_A          147 IKGLNGQKPSG  157 (167)
T ss_dssp             HHHHTTCCCTT
T ss_pred             HHHhcCCccCC
Confidence            88666544443

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

Probab=99.96  E-value=8.5e-28  Score=213.30  Aligned_cols=159  Identities=19%  Similarity=0.287  Sum_probs=135.3

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAI  334 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~  334 (437)
                      |+|||+|||+++|+++|+++|++||.|.+|++..++.+ ++|||||+|.+.++|.+|++ |+|..+.|+.|.|.++....
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~   80 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNNKNVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQ   80 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC-CCEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCCCCCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCC
Confidence            68999999999999999999999999999999988754 68999999999999999997 99999999999999875322


Q ss_pred             CCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHh
Q 013726          335 APVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       335 ~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~  412 (437)
                      ..            .....++|||+|||.++|+++|+++|++| |.|.++.++++  .+.++|||||+|.+.++|.+|+.
T Consensus        81 ~~------------~~~~~~~l~v~nl~~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~  147 (166)
T 3md3_A           81 QS------------SSDDTFNLFVGDLNVNVDDETLRNAFKDF-PSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD  147 (166)
T ss_dssp             CC------------CCTTCEEEEEESCCTTCCHHHHHHHHTTS-TTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHH
T ss_pred             CC------------CCCCCceEEECCCCCCCCHHHHHHHHhcc-CCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHH
Confidence            11            12345799999999999999999999995 99999999987  57799999999999999999988


Q ss_pred             hcCceeccCc--hhhhhh
Q 013726          413 HTEFYILHNP--SIAWLE  428 (437)
Q Consensus       413 ~~~~~~~~~~--~i~~~~  428 (437)
                      ..+...+...  .+.||+
T Consensus       148 ~l~g~~~~g~~i~v~~a~  165 (166)
T 3md3_A          148 SMQGQDLNGRPLRINWAA  165 (166)
T ss_dssp             HHTTCEETTEECEEEESC
T ss_pred             HhCCCccCCcEEEEEecC
Confidence            5554333332  355553

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.95  E-value=9e-28  Score=214.21  Aligned_cols=150  Identities=22%  Similarity=0.363  Sum_probs=132.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|+.||.|.+|++..++.+  ++|||||+|.+.++|.+|++ |+|..+.|++|.|.++.
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            3589999999999999999999999999999999988754  58999999999999999998 99999999999999875


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~k  409 (437)
                      ....              ....++|||+|||..+|+++|+++|++| |.|..++++++  .+.++|||||+|.+.++|.+
T Consensus        82 ~~~~--------------~~~~~~l~v~nl~~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~  146 (168)
T 1b7f_A           82 PGGE--------------SIKDTNLYVTNLPRTITDDQLDTIFGKY-GSIVQKNILRDKLTGRPRGVAFVRYNKREEAQE  146 (168)
T ss_dssp             CCSS--------------TTTTCEEEEESCCTTCCHHHHHHHHTSS-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHH
T ss_pred             CCcc--------------cCCCCCEEEeCCCCCCCHHHHHHhhhcC-CcEEEEEEEEcCCCCCcceEEEEEECCHHHHHH
Confidence            3211              1234799999999999999999999995 99999999987  57799999999999999999


Q ss_pred             HHhhcCceec
Q 013726          410 LFIHTEFYIL  419 (437)
Q Consensus       410 al~~~~~~~~  419 (437)
                      |+...+...+
T Consensus       147 A~~~l~g~~~  156 (168)
T 1b7f_A          147 AISALNNVIP  156 (168)
T ss_dssp             HHHHHTTCCC
T ss_pred             HHHHhcCCEe
Confidence            9886665443

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.95  E-value=7.1e-28  Score=215.95  Aligned_cols=149  Identities=22%  Similarity=0.321  Sum_probs=129.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeEee---eeeeE
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTMLG---FYPVR  326 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~l~---Gr~L~  326 (437)
                      +.++|||+|||+++|+++|+++|++||.|.+|+++.++.+    ++|||||+|.+.++|.+|++ |++..+.   ++.+.
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~   81 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQ   81 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEccCCccceE
Confidence            5689999999999999999999999999999999988765    58999999999999999999 9998775   67788


Q ss_pred             EeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHH
Q 013726          327 VLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVI  405 (437)
Q Consensus       327 V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e  405 (437)
                      +.++.....             .....++|||+|||.++|+++|+++|++| |.|.+++++++ .|.++|||||+|.+.+
T Consensus        82 ~~~~~~~~~-------------~~~~~~~l~v~nl~~~~t~~~l~~~F~~~-G~i~~v~~~~~~~g~~~g~afV~f~~~~  147 (175)
T 3nmr_A           82 MKPADSEKN-------------NAVEDRKLFIGMISKKCTENDIRVMFSSF-GQIEECRILRGPDGLSRGCAFVTFTTRA  147 (175)
T ss_dssp             EEECGGGCC-------------SCGGGSEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTSCEEEEEEEEESSHH
T ss_pred             Ecccccccc-------------ccCCCCeEEEcCCCCcCCHHHHHHHHHhC-CCEEEEEEEECCCCCEEEEEEEEECCHH
Confidence            877642111             12245799999999999999999999995 99999999988 6779999999999999


Q ss_pred             HHHHHHhhcCce
Q 013726          406 ASSTLFIHTEFY  417 (437)
Q Consensus       406 ~A~kal~~~~~~  417 (437)
                      +|.+|+...+..
T Consensus       148 ~A~~A~~~l~g~  159 (175)
T 3nmr_A          148 MAQTAIKAMHQA  159 (175)
T ss_dssp             HHHHHHHHHTTS
T ss_pred             HHHHHHHHhcCC
Confidence            999998776653

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

Probab=99.95  E-value=6.9e-28  Score=223.84  Aligned_cols=174  Identities=20%  Similarity=0.276  Sum_probs=138.4

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ......++|||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |++..+.|+.|.|
T Consensus        23 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v  102 (216)
T 2qfj_A           23 GALAIMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKV  102 (216)
T ss_dssp             HHHHHHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEE
T ss_pred             cccCcCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEE
Confidence            34456789999999999999999999999999999999988744  68999999999999999999 9999999999999


Q ss_pred             eccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHH
Q 013726          328 LPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVI  405 (437)
Q Consensus       328 ~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e  405 (437)
                      .++........   ............++|||+|||.++|+++|+++|++| |.|..|+++++  ++.++|||||+|.+.+
T Consensus       103 ~~~~~~~~~~~---~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~g~~~g~afV~F~~~~  178 (216)
T 2qfj_A          103 GRPSNIGQAQP---IIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEAF-GKIKSATLARDPTTGKHKGYGFIEYEKAQ  178 (216)
T ss_dssp             ECCSCCGGGHH---HHHHHHHHHTTSCEEEEECCCTTCCHHHHHHHHTTS-SCEEEEEEEECTTTCCEEEEEEEEESSHH
T ss_pred             ecCCCccccch---hhhhhhcccCCCcEEEEeCCCCcCCHHHHHHHHhcc-CCeeEEEEEecCCCCCcCceEEEEecCHH
Confidence            87642110000   000001123456899999999999999999999995 99999999987  6779999999999999


Q ss_pred             HHHHHHhhcCceeccCch--hhhhh
Q 013726          406 ASSTLFIHTEFYILHNPS--IAWLE  428 (437)
Q Consensus       406 ~A~kal~~~~~~~~~~~~--i~~~~  428 (437)
                      +|.+|+...+...++...  |.|+.
T Consensus       179 ~A~~A~~~l~g~~~~g~~i~V~~a~  203 (216)
T 2qfj_A          179 SSQDAVSSMNLFDLGGQYLRVGKAV  203 (216)
T ss_dssp             HHHHHHHHHTTCBCSSSBCEEEECS
T ss_pred             HHHHHHHHccCCEeCCcEEEEEEec
Confidence            999998865554444332  44543

>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=99.95  E-value=6.7e-28  Score=215.15  Aligned_cols=158  Identities=18%  Similarity=0.260  Sum_probs=132.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      +.++|||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|+. ++..+.|+.|.|.++..
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~i~v~~~~~   80 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVK-TQHILDGKVIDPKRAIP   80 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHH-SCCEETTEECCCEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHh-cccccCCeEcccccccc
Confidence            4589999999999999999999999999999999988654  68999999999999999999 45789999999887641


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~ka  410 (437)
                                    .......++|||+|||.++|+++|+++|++| |.|.+++++.+  +|.++|||||+|.+.++|.+|
T Consensus        81 --------------~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A  145 (167)
T 2cjk_A           81 --------------RDEQDKTGKIFVGGIGPDVRPKEFEEFFSQW-GTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRV  145 (167)
T ss_dssp             --------------HHHHHHCEEEEEEEECTTCCHHHHHHHHHTT-SCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHH
T ss_pred             --------------hhhccCCCeEEECCCCCCCCHHHHHHHHHhC-ccEEEEEEEEcCCCCccceEEEEEECCHHHHHHH
Confidence                          1122345799999999999999999999995 99999999987  578999999999999999999


Q ss_pred             HhhcCceeccCc-hhhhhh
Q 013726          411 FIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       411 l~~~~~~~~~~~-~i~~~~  428 (437)
                      +......+.+.+ .|.||.
T Consensus       146 ~~~~~~~~~g~~i~V~~a~  164 (167)
T 2cjk_A          146 CQNKFIDFKDRKIEIKRAE  164 (167)
T ss_dssp             HHCSEECSSSSCEEEEECC
T ss_pred             HhCCCEEeCCeEEEEeecC
Confidence            984333333332 355554

>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=99.95  E-value=5.5e-27  Score=220.10  Aligned_cols=164  Identities=14%  Similarity=0.158  Sum_probs=135.1

Q ss_pred             CCcEEEEecCC-ccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDID-QQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp-~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+||| ..+|+++|+++|++||.|.+|+++.++   +|||||+|.+.++|.+|++ |||..+.|++|.|.+++.
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~---~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~   79 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK---PGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQ   79 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTS---TTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCC---CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccC
Confidence            46899999999 799999999999999999999998764   5999999999999999999 999999999999999864


Q ss_pred             CCCCCCCC------------CC----CCChh--h-----hcccccEEEEEcCCccCCHHHHHHHhhhcCCce--EEEEEe
Q 013726          333 AIAPVNPT------------FL----PRTED--E-----REMCARTIYCTNIDKKVTQADVKLFFESVCGEV--YRLRLL  387 (437)
Q Consensus       333 ~~~~~~~~------------~~----pr~~~--~-----~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I--~~v~i~  387 (437)
                      ........            +.    .+-..  .     ...+.++|||+|||+++|+++|+++|++| |.|  .++++.
T Consensus        80 ~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~p~~~l~v~NLp~~~t~~~L~~~F~~~-G~v~~~~v~~~  158 (205)
T 3tyt_A           80 PAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQHPSNVLHFFNAPLEVTEENFFEICDEL-GVKRPTSVKVF  158 (205)
T ss_dssp             SCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCCCCCSEEEEEEECTTCCHHHHHHHHHHH-TCCCCSEEEEC
T ss_pred             CccCCCcccccccCCccccccCCCccccccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHHhc-CCcceEEEEEE
Confidence            32111000            00    00000  0     01345789999999999999999999996 999  899999


Q ss_pred             ccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          388 GDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       388 kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      .+.+.++|||||+|.+.++|.+|+...+.+.+..+
T Consensus       159 ~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~  193 (205)
T 3tyt_A          159 SGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNP  193 (205)
T ss_dssp             SCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCS
T ss_pred             cCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCC
Confidence            88777789999999999999999998888766554

>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=99.94  E-value=8.5e-26  Score=202.41  Aligned_cols=147  Identities=22%  Similarity=0.313  Sum_probs=127.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcC----C-------CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGC----G-------QVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFY  323 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~----G-------~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr  323 (437)
                      +.++|||+|||+++|+++|+++|++|    |       .|.++++..+    +|||||+|.+.++|.+|+.++|..+.|+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~~----~g~afV~f~~~~~A~~A~~~~~~~~~g~   78 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD----KNFAFLEFRSVDETTQAMAFDGIIFQGQ   78 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEETT----TTEEEEEESSHHHHHHHGGGTTCEETTE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecCC----CCEEEEEeCCHHHHHHHHHhCCcEecCc
Confidence            45899999999999999999999999    7       7888877544    5899999999999999999999999999


Q ss_pred             eeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEe
Q 013726          324 PVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEF  401 (437)
Q Consensus       324 ~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF  401 (437)
                      +|.|.++.....              ....++|||+|||.++|+++|+++|++| |.|..++++++  ++.++|||||+|
T Consensus        79 ~i~v~~~~~~~~--------------~~~~~~l~v~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~g~~~g~afV~f  143 (172)
T 2g4b_A           79 SLKIRRPHDYQP--------------LPGAHKLFIGGLPNYLNDDQVKELLTSF-GPLKAFNLVKDSATGLSKGYAFCEY  143 (172)
T ss_dssp             ECEEECCSSCCC--------------CTTTTCEEEECCCTTCCHHHHHHHHHTT-SCEEEEEEEECTTTCSEEEEEEEEE
T ss_pred             eeeecCCcccCC--------------CCCCCEEEEEcCCCcCCHHHHHHHHHhc-CCceEEEEEecCCCCCcceEEEEEe
Confidence            999998653211              1125899999999999999999999995 99999999988  677999999999


Q ss_pred             CCHHHHHHHHhhcCceecc
Q 013726          402 VMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       402 ~s~e~A~kal~~~~~~~~~  420 (437)
                      .+.++|.+|+...+...++
T Consensus       144 ~~~~~A~~A~~~l~g~~~~  162 (172)
T 2g4b_A          144 VDINVTDQAIAGLNGMQLG  162 (172)
T ss_dssp             SSTTHHHHHHHHHTTCEET
T ss_pred             CCHHHHHHHHHHcCCCEEC
Confidence            9999999999865554433

>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=99.93  E-value=6.2e-26  Score=221.40  Aligned_cols=164  Identities=18%  Similarity=0.249  Sum_probs=131.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+.+|+++|+++|+.|| .|..|+++.++.+ ++|||||+|.+.++|.+|+. |+|..+.|+.|.|.++.
T Consensus       116 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          116 TECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             CSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            578999999999999999999999999 9999999887743 68999999999999999999 99999999999999876


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEecc-C--CCcceEEEEEeCCHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGD-Y--HHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd-~--g~srGfAFVeF~s~e~A  407 (437)
                      ........       .......++|||+|||.+ +|+++|+++|++| |.|.+|+++++ .  +.++|||||+|.+.++|
T Consensus       196 ~~~~~~~~-------~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~-G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A  267 (292)
T 2ghp_A          196 PLEKSKRT-------DSATLEGREIMIRNLSTELLDENLLRESFEGF-GSIEKINIPAGQKEHSFNNCCAFMVFENKDSA  267 (292)
T ss_dssp             CC----------------CCTTTEEEEEEECTTTCCHHHHHHHHGGG-SCEEEEECCSCCC---CCCEEEEEEESSHHHH
T ss_pred             CCcccccc-------cccCCCCceEEEECCCcccCCHHHHHHHHhcc-CCeeEEEEEecCCcCCCCceEEEEEeCCHHHH
Confidence            32211110       112345689999999999 9999999999995 99999999998 3  78999999999999999


Q ss_pred             HHHHhhcCceeccCc--hhhhh
Q 013726          408 STLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       408 ~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .+|+ ..+...++..  .+.||
T Consensus       268 ~~A~-~l~g~~~~g~~i~V~~a  288 (292)
T 2ghp_A          268 ERAL-QMNRSLLGNREISVSLA  288 (292)
T ss_dssp             HHHG-GGTTEEETTEEEEEEEC
T ss_pred             HHHH-HhcCCEECCcEEEEEEe
Confidence            9999 5555444333  24454

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

Probab=99.93  E-value=3.1e-25  Score=203.19  Aligned_cols=169  Identities=19%  Similarity=0.256  Sum_probs=133.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcC----C-------CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGC----G-------QVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFY  323 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~----G-------~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr  323 (437)
                      ..++|||+|||+++|+++|+++|+.|    |       .|.++++..    ++|||||+|.+.++|.+|+.|+|..+.|+
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~----~~g~afV~F~~~~~A~~Al~l~g~~~~g~   78 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ----DKNFAFLEFRSVDETTQAMAFDGIIFQGQ   78 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET----TTTEEEEEESCSHHHHHHGGGTTEEETTE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecC----CCCEEEEEeCCHHHHHHHHHhcCCEEcCc
Confidence            46899999999999999999999999    5       677777643    36899999999999999999999999999


Q ss_pred             eeEEeccCCCCCCCCCCCC-----CC-ChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcce
Q 013726          324 PVRVLPSKTAIAPVNPTFL-----PR-TEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTR  395 (437)
Q Consensus       324 ~L~V~~s~~~~~~~~~~~~-----pr-~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srG  395 (437)
                      .|.|.++............     +. .........++|||+|||..+|+++|+++|++| |.|..++++++  .+.++|
T Consensus        79 ~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~-G~v~~~~~~~~~~~~~~~g  157 (198)
T 2yh0_A           79 SLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSF-GPLKAFNLVKDSATGLSKG  157 (198)
T ss_dssp             EEEEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCHHHHHHHHHTB-SCEEEEEEEECTTTCSEEE
T ss_pred             eEEEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHc-CCccEEEEeecCCCCCcce
Confidence            9999987643221111000     00 001112456899999999999999999999995 99999999988  677999


Q ss_pred             EEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          396 IAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       396 fAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus       158 ~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  192 (198)
T 2yh0_A          158 YAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS  192 (198)
T ss_dssp             EEEEEESSSSHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             EEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            999999999999999886555444333  345543

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.93  E-value=5.2e-26  Score=204.95  Aligned_cols=160  Identities=16%  Similarity=0.213  Sum_probs=128.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeC-CCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD-PNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d-~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|..||.+..+.+... ...++|||||+|.+.++|.+|++|+|..+.|++|.|.++.
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~v~~~~   89 (175)
T 1fje_B           10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (175)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEECCCCccccEEEEEECCHHHHHHHHhcCCCEeCCeEEEEecCC
Confidence            456799999999999999999999999987655222111 1236899999999999999999999999999999999875


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLF  411 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal  411 (437)
                      ....            ......++|||+|||.++|+++|+++|++| |.|..+   ...+.++|||||+|.+.++|.+|+
T Consensus        90 ~~~~------------~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~-g~v~~~---~~~~~~~g~afV~f~~~~~A~~A~  153 (175)
T 1fje_B           90 GRDS------------KKVRAARTLLAKNLSFNITEDELKEVFEDA-LEIRLV---SQDGKSKGIAYIEFKSEADAEKNL  153 (175)
T ss_dssp             CSSC------------STTGGGGEEEEESCCSSCCHHHHHHHCTTC-SEEEEE---CSSSSCCSEEEEECSSHHHHHHHH
T ss_pred             Cccc------------cccccCCEEEEeCCCCCCCHHHHHHHHHhc-CeEEEe---cCCCCCceEEEEEECCHHHHHHHH
Confidence            3211            112345899999999999999999999995 998877   557889999999999999999999


Q ss_pred             hhcCceeccCc--hhhhhh
Q 013726          412 IHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       412 ~~~~~~~~~~~--~i~~~~  428 (437)
                      ...+...+...  .+.||.
T Consensus       154 ~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B          154 EEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             HHHTEEEETTEEEEEEECS
T ss_pred             HHhCCCEECCeEEEEEecC
Confidence            87665444333  355554

>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=99.93  E-value=2.3e-25  Score=217.42  Aligned_cols=147  Identities=19%  Similarity=0.295  Sum_probs=125.7

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ..+...++|||+|||+++|+++|+++|+.||.|.+|+++.++.+++|||||+|.+.++|.+|++++|..++|+.|.|.++
T Consensus        36 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~A~~A~~~~~~~~~g~~i~v~~~  115 (292)
T 2ghp_A           36 TRNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHL  115 (292)
T ss_dssp             ------CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEEC
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEEECCHHHHHHHHHhCCcEeCCcEEEEEEC
Confidence            34567899999999999999999999999999999999998887899999999999999999999999999999999875


Q ss_pred             CCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEecc-CCCcceEEEEEeCCHHHHH
Q 013726          331 KTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGD-YHHSTRIAFVEFVMVIASS  408 (437)
Q Consensus       331 ~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~kd-~g~srGfAFVeF~s~e~A~  408 (437)
                      .                     .++|||+|||.++|+++|+++|++| | .|..|+++++ .+.++|||||+|.+.++|.
T Consensus       116 ~---------------------~~~l~v~nlp~~~t~~~l~~~f~~~-G~~i~~v~i~~~~~~~~~g~afV~f~~~~~a~  173 (292)
T 2ghp_A          116 T---------------------ECTLWMTNFPPSYTQRNIRDLLQDI-NVVALSIRLPSLRFNTSRRFAYIDVTSKEDAR  173 (292)
T ss_dssp             C---------------------SCEEEEECCCTTCCHHHHHHHHHHT-TCCCCEEECC-------CCEEEEECSSHHHHH
T ss_pred             C---------------------CCEEEEECCCCCCCHHHHHHHHHHh-CCCeEEEEEEeCCCCCcceEEEEEECCHHHHH
Confidence            2                     3799999999999999999999995 9 9999999987 5679999999999999999


Q ss_pred             HHHhhcCceec
Q 013726          409 TLFIHTEFYIL  419 (437)
Q Consensus       409 kal~~~~~~~~  419 (437)
                      +|+...+...+
T Consensus       174 ~A~~~l~g~~~  184 (292)
T 2ghp_A          174 YCVEKLNGLKI  184 (292)
T ss_dssp             HHHHHHTTCEE
T ss_pred             HHHHHhCCCEe
Confidence            99885544333

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.93  E-value=4.1e-25  Score=213.66  Aligned_cols=137  Identities=23%  Similarity=0.310  Sum_probs=125.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+++|+++|+++|+.||.|..|++..+    +|||||+|.+.++|.+|+. |+|..+.|+.|.|.++.
T Consensus        19 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~----kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~   94 (261)
T 3sde_A           19 YTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD----RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT   94 (261)
T ss_dssp             SCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETT----TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCC----CcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc
Confidence            345689999999999999999999999999999999654    5899999999999999999 99999999999999874


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~ka  410 (437)
                                          ..++|||+|||..+|+++|+++|++| |.|.+|+++.+ +|.++|||||+|.+.++|.+|
T Consensus        95 --------------------~~~~l~v~nl~~~~t~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A  153 (261)
T 3sde_A           95 --------------------HGAALTVKNLSPVVSNELLEQAFSQF-GPVEKAVVVVDDRGRATGKGFVEFAAKPPARKA  153 (261)
T ss_dssp             --------------------CSSEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEEETTSCEEEEEEEEESSHHHHHHH
T ss_pred             --------------------cCCcccccCCCCCCCHHHHHHHHHhc-CCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHH
Confidence                                13699999999999999999999995 99999999988 777999999999999999888


Q ss_pred             Hhhc
Q 013726          411 FIHT  414 (437)
Q Consensus       411 l~~~  414 (437)
                      +...
T Consensus       154 ~~~l  157 (261)
T 3sde_A          154 LERC  157 (261)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            8775

>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=99.93  E-value=7.5e-25  Score=212.69  Aligned_cols=171  Identities=20%  Similarity=0.322  Sum_probs=134.7

Q ss_pred             ccCCcEEEEecCCccchHHHHH----HHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~----~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ....++|||+|||+++|+++|+    ++|+.||.|.+|++..+ ..++|||||+|.+.++|.+|++ |+|..+.|+.|.|
T Consensus         6 ~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v   84 (282)
T 3pgw_A            6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   84 (282)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcCC-CCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEE
Confidence            4467899999999999999976    89999999999998763 3468999999999999999998 9999999999999


Q ss_pred             eccCCCCCCC---CCCCCCC------------------------------------------------------------
Q 013726          328 LPSKTAIAPV---NPTFLPR------------------------------------------------------------  344 (437)
Q Consensus       328 ~~s~~~~~~~---~~~~~pr------------------------------------------------------------  344 (437)
                      .+++......   ...+..+                                                            
T Consensus        85 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~  164 (282)
T 3pgw_A           85 QYAKTDSDIIAKMKGTFVERDRKREKRKPKSQETPATKKAVQGGGATPVVGAVQGPVPGMPPMTQAPRIMHHMPGQPPYM  164 (282)
T ss_pred             EEeccCcchhhhhcCCcccchhhhhhhhccccchhhhhhhccCcCCcccCCCCCCCCCCCCcccccccccccCCCCCCCC
Confidence            9875432100   0000000                                                            


Q ss_pred             ----------------------------------ChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC
Q 013726          345 ----------------------------------TEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY  390 (437)
Q Consensus       345 ----------------------------------~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~  390 (437)
                                                        .........++|||+|||.++|+++|+++|++| |.|.+|++..+.
T Consensus       165 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F~~~-G~i~~v~~~~~~  243 (282)
T 3pgw_A          165 PPPGMIPPPGLAPGQIPPGAMPPQQLMPGQMPPAQPLSENPPNHILFLTNLPEETNELMLSMLFNQF-PGFKEVRLVPGR  243 (282)
T ss_pred             CCCCCCCCCCCCccccCcccCcccccCccccCccCCccCCCCCCEEEEeCCCCcCCHHHHHHHHHhc-CCeEEEEEecCC
Confidence                                              000112245789999999999999999999995 999999998654


Q ss_pred             CCcceEEEEEeCCHHHHHHHHhhcCceecc-C--chhhhhh
Q 013726          391 HHSTRIAFVEFVMVIASSTLFIHTEFYILH-N--PSIAWLE  428 (437)
Q Consensus       391 g~srGfAFVeF~s~e~A~kal~~~~~~~~~-~--~~i~~~~  428 (437)
                         +|||||+|.+.++|.+|+...+.+.+. .  ..|.||+
T Consensus       244 ---~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~ak  281 (282)
T 3pgw_A          244 ---HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFAK  281 (282)
T ss_pred             ---CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEec
Confidence               579999999999999999877765544 2  2466664

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.92  E-value=1.3e-24  Score=211.29  Aligned_cols=162  Identities=13%  Similarity=0.142  Sum_probs=137.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|+.||.|..++++.++.+  ++|||||+|.+.++|.+|+. |+|..++|+.|.|.++.
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            4579999999999999999999999999999999988754  58999999999999999997 99999999999999986


Q ss_pred             CCCCCCCCCCCCCChhhhcccccEEEEEcCCccC-CHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHH
Q 013726          332 TAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKV-TQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASST  409 (437)
Q Consensus       332 ~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~v-teedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~k  409 (437)
                      ......           .....++|||+|||.++ |+++|+++|++| |.|.+++++++ .|.++|||||+|.+.++|.+
T Consensus       174 ~~~~~~-----------~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~  241 (284)
T 3smz_A          174 AGQLTP-----------ALLHSRCLCVDRLPPGFNDVDALCRALSAV-HSPTFCQLACGQDGQLKGFAVLEYETAEMAEE  241 (284)
T ss_dssp             GGGCCT-----------TTTSCSEEEEECCCTTCCCHHHHHHHTCSS-SCCSEEEEEECSSCCEEEEEEEECSSHHHHHH
T ss_pred             CCCCCc-----------ccCCccEEEEecCCcccCCHHHHHHHhhCC-CCeEEEEEEECCCCCcccEEEEEeCCHHHHHH
Confidence            432111           12345899999999995 999999999995 99999999988 77899999999999999999


Q ss_pred             HHhhcCceeccCc--hhhhhh
Q 013726          410 LFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       410 al~~~~~~~~~~~--~i~~~~  428 (437)
                      |+...++..++..  .+.|+.
T Consensus       242 A~~~l~g~~~~g~~l~v~~a~  262 (284)
T 3smz_A          242 AQQQADGLSLGGSHLRVSFCA  262 (284)
T ss_dssp             HHHHHTTCEETTEECEEEECC
T ss_pred             HHHHhCCCccCCeEEEEEEec
Confidence            9886665544433  355553

>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=99.92  E-value=1.7e-24  Score=205.23  Aligned_cols=161  Identities=23%  Similarity=0.287  Sum_probs=130.0

Q ss_pred             ccCCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+ ++|+++|+++|+.||.|.+|++..++   +|||||+|.+.++|.+|++ |+|..+.|+.|.|.++
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~---~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a  107 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS  107 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC---CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEe
Confidence            44678999999999 99999999999999999999999876   5899999999999999998 9999999999999987


Q ss_pred             CCCCCCCCCC------------------CC-CCCh--hhhcccccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEec
Q 013726          331 KTAIAPVNPT------------------FL-PRTE--DEREMCARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLG  388 (437)
Q Consensus       331 ~~~~~~~~~~------------------~~-pr~~--~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~k  388 (437)
                      ..........                  +. +...  .......++|||+|||..+|+++|+++|++| | .|..+++..
T Consensus       108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~-G~~i~~v~i~~  186 (229)
T 2adc_A          108 KHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSN-GGVVKGFKFFQ  186 (229)
T ss_dssp             SCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSCSEEEEECCCTTCCHHHHHHHHHTT-SCCEEEEEECS
T ss_pred             cCccccCccccccccccccccccCcccccCCccccccccCCCCCCEEEEeCCCccCCHHHHHHHHHHc-CCCeeEEEEEE
Confidence            6432111000                  00 0000  0112346899999999999999999999995 9 999999965


Q ss_pred             cCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          389 DYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       389 d~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +   .+|||||+|.+.++|.+|+...+...+.
T Consensus       187 ~---~~g~afV~f~~~~~A~~Ai~~l~g~~~~  215 (229)
T 2adc_A          187 K---DRKMALIQMGSVEEAVQALIDLHNHDLG  215 (229)
T ss_dssp             S---STTCEEEEESSHHHHHHHHHHHTTCBSS
T ss_pred             C---CCcEEEEEECCHHHHHHHHHHHCCCccC
Confidence            3   3679999999999999998865554443

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.92  E-value=2.7e-24  Score=209.02  Aligned_cols=152  Identities=18%  Similarity=0.211  Sum_probs=130.2

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ......++|||+|||+++|+++|+++|+.|| |.+|.+    ..++|||||+|.+.++|.+|+. |+|..+.|+.|.|.+
T Consensus        17 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~----~~~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~   91 (284)
T 3smz_A           17 RQFRNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFV----DKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQL   91 (284)
T ss_dssp             HHHHCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEE----ETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEE----ecCCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEe
Confidence            3455779999999999999999999999999 999988    2346899999999999999998 999999999999997


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHH
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIAS  407 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A  407 (437)
                      +.                    ..++|||+|||.++|+++|+++|++| |.|.+++++.+  +|.++|||||+|.+.++|
T Consensus        92 ~~--------------------~~~~l~v~nlp~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a  150 (284)
T 3smz_A           92 QP--------------------TDALLCVANLPPSLTQQQFEELVRPF-GSLERCFLVYSERTGQSKGYGFAEYMKKDSA  150 (284)
T ss_dssp             CC--------------------CSCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHH
T ss_pred             cC--------------------CCCEEEEcCCCCcCCHHHHHHHHHhc-CCeeEEEEEeeCCCCccceEEEEEECCHHHH
Confidence            53                    22699999999999999999999995 99999999887  677999999999999999


Q ss_pred             HHHHhhcCceeccCc--hhhhhh
Q 013726          408 STLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       408 ~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .+|+...+...+...  .+.|+.
T Consensus       151 ~~A~~~l~~~~~~g~~i~v~~a~  173 (284)
T 3smz_A          151 ARAKSDLLGKPLGPRTLYVHWTD  173 (284)
T ss_dssp             HHHHHHHTTCEETTEECEEEECC
T ss_pred             HHHHHHhCCCEeCCcEEEEEECC
Confidence            999855544333332  345543

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

Probab=99.92  E-value=1.3e-24  Score=200.00  Aligned_cols=158  Identities=23%  Similarity=0.288  Sum_probs=128.1

Q ss_pred             CCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||+ ++|+++|+++|+.||.|.+|++..++   +|||||+|.+.++|.+|++ |+|..+.|+.|.|.++..
T Consensus         2 ~~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~---~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~   78 (198)
T 1qm9_A            2 GNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKH   78 (198)
T ss_dssp             CCCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC---SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC---CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecC
Confidence            458999999999 99999999999999999999998876   5899999999999999999 999999999999998764


Q ss_pred             CCCCCCCC------------------CC-CCC--hhhhcccccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEeccC
Q 013726          333 AIAPVNPT------------------FL-PRT--EDEREMCARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGDY  390 (437)
Q Consensus       333 ~~~~~~~~------------------~~-pr~--~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~kd~  390 (437)
                      ........                  +. +..  ......+.++|||+|||..+|+++|+++|++| | .|..+++..+ 
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~f~~~-G~~v~~v~i~~~-  156 (198)
T 1qm9_A           79 QNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSN-GGVVKGFKFFQK-  156 (198)
T ss_dssp             CSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCCCEEEECCCCTTCCHHHHHHHHHHT-TSCCCEEEESST-
T ss_pred             CCcCCCCcCCccccccccccCCchhhccCccccccccCCCCccEEEEeCCCCCCCHHHHHHHHHHc-CCCceEEEEEeC-
Confidence            32111000                  00 000  00012346899999999999999999999995 9 9999999664 


Q ss_pred             CCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          391 HHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       391 g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                        .+|||||+|.+.++|.+|+...+...+
T Consensus       157 --~~g~afV~f~~~~~A~~A~~~l~g~~~  183 (198)
T 1qm9_A          157 --DRKMALIQMGSVEEAVQALIDLHNHDL  183 (198)
T ss_dssp             --TSSCEEEECSSHHHHHHHHHHHTSSCC
T ss_pred             --CCcEEEEEeCCHHHHHHHHHHhcCCcc
Confidence              268999999999999999886555433

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.82  E-value=1.6e-20  Score=160.00  Aligned_cols=109  Identities=20%  Similarity=0.351  Sum_probs=73.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|+++.++.+++|||||+|.+.++|.+|++ |+|..++|+.|.|.++...
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~~~   83 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFKSR   83 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESSCC
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCCc
Confidence            457899999999999999999999999999999999988789999999999999999998 9999999999999987632


Q ss_pred             CCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHH
Q 013726          334 IAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQAD  369 (437)
Q Consensus       334 ~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteed  369 (437)
                      ....      ..........++|||+|||+++|++.
T Consensus        84 ~~~~------~~~~~~~~~~~~lyv~Nl~~~~T~~a  113 (115)
T 4f25_A           84 KERE------AELGARAKEFTNVYIKNFGPGSTRAA  113 (115)
T ss_dssp             CC----------------------------------
T ss_pred             cccc------cccccccCCCCceEeCCCCCCccccc
Confidence            1111      01111233446899999999999863

>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=99.74  E-value=8.1e-18  Score=149.96  Aligned_cols=135  Identities=12%  Similarity=0.084  Sum_probs=97.9

Q ss_pred             EEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeE-e------eeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEE
Q 013726          285 DCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTM-L------GFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTI  356 (437)
Q Consensus       285 ~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~-l------~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL  356 (437)
                      +++++.+...++|||||+|.+.++|.+|++ +++.. +      ++.............        ..........++|
T Consensus         2 ~~kl~ln~~~~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~l   73 (158)
T 2kn4_A            2 QYKLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHH--------HHHHMDVEGMTSL   73 (158)
T ss_dssp             EEEEEEECSSCEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCCCC--------SSCCCCCCBCCEE
T ss_pred             cEEEEecCccccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccccccc--------cccccCCCCCCEE
Confidence            467777877889999999999999999997 66432 2      222222211110000        0011112346899


Q ss_pred             EEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          357 YCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       357 ~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ||+|||+++|+++|+++|++| |.|..|+++++  ++.++|||||+|.+.++|.+|+...+...+...  .+.|+.
T Consensus        74 ~v~nl~~~~~~~~l~~~F~~~-G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  148 (158)
T 2kn4_A           74 KVDNLTYRTSPDTLRRVFEKY-GRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  148 (158)
T ss_dssp             EEESCCTTCCHHHHHHHHHHH-SCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEEC
T ss_pred             EEeCCCCCCCHHHHHHHHHhc-CCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            999999999999999999996 99999999998  678999999999999999999987665444333  355554

>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=99.69  E-value=1e-16  Score=133.14  Aligned_cols=78  Identities=23%  Similarity=0.417  Sum_probs=72.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      -..++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |||..++|++|.|.++
T Consensus        17 ~~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~A   96 (99)
T 4fxv_A           17 FQGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA   96 (99)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            34578999999999999999999999999999999998765  58999999999999999998 9999999999999998


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        97 k   97 (99)
T 4fxv_A           97 R   97 (99)
T ss_dssp             C
T ss_pred             e
Confidence            5

>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=99.67  E-value=1.6e-16  Score=140.84  Aligned_cols=137  Identities=9%  Similarity=0.049  Sum_probs=100.9

Q ss_pred             EEeeCCCCCceEEEEEEcCHHHHHHHHH-h-cCeEeeeeeeEEeccCCCCCCCCC--CCCCCChhhhcccccEEEEEcCC
Q 013726          287 RICGDPNSVLRFAFIEFTDEEGARAALN-L-AGTMLGFYPVRVLPSKTAIAPVNP--TFLPRTEDEREMCARTIYCTNID  362 (437)
Q Consensus       287 ri~~d~~~s~GfaFVeF~~~e~A~~Al~-l-ng~~l~Gr~L~V~~s~~~~~~~~~--~~~pr~~~~~~~~~~tL~V~NLp  362 (437)
                      .+..+...-+|+++|+|.+.++|.+|++ + +|..++| .+.+..+.........  ..............++|||+|||
T Consensus         4 al~l~g~~l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~   82 (150)
T 2i2y_A            4 KLILNGKTLKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLG   82 (150)
T ss_dssp             EEEECCSSSCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSSCCCCSCSSSSTTSCEEEEESCC
T ss_pred             EeeeccccccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccccccccccccCCCCCCEEEEeCCC
Confidence            3444444558999999999999999998 9 9999999 9999887532110000  00001111223456899999999


Q ss_pred             ccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          363 KKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       363 ~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      +++|+++|+++|++| |.|.+|+++++   ++|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus        83 ~~~t~~~l~~~F~~~-G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A           83 NNGNKTELERAFGYY-GPLRSVWVARN---PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             SCCSCHHHHHHHHHH-SCEEEEEECSS---SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCCCHHHHHHHHHhh-CCEEEEEEeeC---CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            999999999999996 99999999987   688999999999999999875544333322  355553

>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=99.65  E-value=2.9e-16  Score=132.64  Aligned_cols=102  Identities=22%  Similarity=0.359  Sum_probs=90.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||+++|+++|+++|+.||.|.+|++..+.. ++|||||+|.+.++|.+|+. |+|..++|+.|.|.++..
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~-~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   84 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPE-TRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNA   84 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECSTT-TTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECCH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCC-CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEecC
Confidence            3568999999999999999999999999999999987654 48999999999999999999 999999999999999751


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCC
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCG  379 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G  379 (437)
                                    ....        ++++...++++|.++|++| |
T Consensus        85 --------------~~~~--------~~~~~~~~~~~l~~~~~~~-g  108 (115)
T 3lqv_A           85 --------------NRAF--------QKMDTKKKEEQLKLLKEKY-G  108 (115)
T ss_dssp             --------------HHHT--------TTSCHHHHHHHHHHHHHHH-C
T ss_pred             --------------Chhh--------hhhhHhHhHHHHHHHHHHh-C
Confidence                          1100        6788899999999999996 7

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

Probab=99.64  E-value=2e-16  Score=130.62  Aligned_cols=99  Identities=22%  Similarity=0.261  Sum_probs=81.8

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIA  335 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~  335 (437)
                      ++|||+|||+++|+++|+++|++||.|.+|++..+   ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++....
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~~~~   77 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN---PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTGMPR   77 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS---SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSSCCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC---CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccCCCC
Confidence            48999999999999999999999999999999887   67999999999999999999 999999999999999875432


Q ss_pred             CCCCCCCCCChhhhcccccEEEEEcCC
Q 013726          336 PVNPTFLPRTEDEREMCARTIYCTNID  362 (437)
Q Consensus       336 ~~~~~~~pr~~~~~~~~~~tL~V~NLp  362 (437)
                      .......    ........+|||+||+
T Consensus        78 ~~~~~~~----~~~~~~~~~ifvg~L~  100 (101)
T 2hvz_A           78 RSRFDRP----PARRKLLEVLFNGPLE  100 (101)
T ss_dssp             SSCCCSC----CCSCCCCSCCCSCCCC
T ss_pred             cccCCCC----CccccCCCceecCCCC
Confidence            2211111    1112345789999997

>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=99.64  E-value=1.2e-15  Score=126.37  Aligned_cols=80  Identities=29%  Similarity=0.408  Sum_probs=75.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|+++.++.+++|||||+|.+.++|.+|+. |++..+.|+.|.|.+++
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2cqi_A           12 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   91 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECC
Confidence            45678999999999999999999999999999999999987789999999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        92 ~   92 (103)
T 2cqi_A           92 T   92 (103)
T ss_dssp             C
T ss_pred             C
Confidence            4

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.64  E-value=1.5e-15  Score=125.73  Aligned_cols=80  Identities=21%  Similarity=0.321  Sum_probs=75.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.++..++|||||+|.+.++|.+|+. |++..++|+.|.|.++.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           12 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            45679999999999999999999999999999999999887789999999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        92 ~   92 (103)
T 2cq3_A           92 A   92 (103)
T ss_dssp             S
T ss_pred             c
Confidence            4

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

Probab=99.63  E-value=8.9e-16  Score=129.98  Aligned_cols=78  Identities=22%  Similarity=0.226  Sum_probs=73.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |||..++|+.|.|.++
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a   83 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLD   83 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            35689999999999999999999999999999999998865  59999999999999999999 9999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        84 ~   84 (110)
T 3s8s_A           84 I   84 (110)
T ss_dssp             S
T ss_pred             C
Confidence            5

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

Probab=99.61  E-value=4.7e-16  Score=126.94  Aligned_cols=76  Identities=21%  Similarity=0.229  Sum_probs=69.8

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-h-cCeEeeeeeeEEecc
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-L-AGTMLGFYPVRVLPS  330 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-l-ng~~l~Gr~L~V~~s  330 (437)
                      +++|||+|||+++|+++|+++|++|| .|.+|+++.|+.+  ++|||||+|.+.++|.+|++ + ++..++|++|.|.++
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            46899999999999999999999999 8999999988764  69999999999999999998 6 566799999999998


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        81 ~   81 (91)
T 2lxi_A           81 D   81 (91)
T ss_dssp             C
T ss_pred             C
Confidence            6

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

Probab=99.61  E-value=3.9e-15  Score=125.71  Aligned_cols=84  Identities=23%  Similarity=0.380  Sum_probs=76.1

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .....++|||+|||+.+|+++|+++|+.||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   90 (115)
T 2dgo_A           11 DTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTN   90 (115)
T ss_dssp             CSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3456789999999999999999999999999999999988644  58999999999999999999 99999999999999


Q ss_pred             ccCCCCC
Q 013726          329 PSKTAIA  335 (437)
Q Consensus       329 ~s~~~~~  335 (437)
                      +++....
T Consensus        91 ~a~~~~~   97 (115)
T 2dgo_A           91 WATRKPP   97 (115)
T ss_dssp             ESSCCCC
T ss_pred             EccCCCC
Confidence            9875433

>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=99.61  E-value=1.9e-15  Score=120.35  Aligned_cols=78  Identities=31%  Similarity=0.425  Sum_probs=72.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus         5 ~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A            5 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            46689999999999999999999999999999999888655  58999999999999999998 9999999999999986


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        85 k   85 (85)
T 3mdf_A           85 K   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.61  E-value=6.7e-16  Score=127.61  Aligned_cols=79  Identities=16%  Similarity=0.201  Sum_probs=71.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCC--eeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCe----Eeeeee
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQ--VVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGT----MLGFYP  324 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~--I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~----~l~Gr~  324 (437)
                      ..-.||||+|||+++|+++|+++|++||.  |.+|++++|+.+  ++|||||+|.+.++|.+|++ |||.    .++|++
T Consensus         7 ~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~   86 (95)
T 2lkz_A            7 HHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKT   86 (95)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEE
T ss_pred             CccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEE
Confidence            45679999999999999999999999995  678999998865  69999999999999999999 9986    589999


Q ss_pred             eEEeccCC
Q 013726          325 VRVLPSKT  332 (437)
Q Consensus       325 L~V~~s~~  332 (437)
                      |.|.+++.
T Consensus        87 i~V~~Aks   94 (95)
T 2lkz_A           87 IGVDFAKS   94 (95)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEccC
Confidence            99999863

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.60  E-value=3.1e-15  Score=119.97  Aligned_cols=79  Identities=25%  Similarity=0.373  Sum_probs=72.5

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      .+...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|+++++..++|+.|.|.+
T Consensus         7 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~v~~   86 (87)
T 3s7r_A            7 NEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRLDGRVIDPKK   86 (87)
T ss_dssp             CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEECCEEEEEEe
Confidence            3557789999999999999999999999999999999988754  58999999999999999999888999999999986


Q ss_pred             c
Q 013726          330 S  330 (437)
Q Consensus       330 s  330 (437)
                      +
T Consensus        87 A   87 (87)
T 3s7r_A           87 A   87 (87)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.60  E-value=4.5e-15  Score=125.44  Aligned_cols=80  Identities=19%  Similarity=0.409  Sum_probs=73.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|.+
T Consensus        22 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  101 (115)
T 2cpz_A           22 GPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL  101 (115)
T ss_dssp             CSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            345689999999999999999999999999999999988754  58999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus       102 a~~  104 (115)
T 2cpz_A          102 KRS  104 (115)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            864

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

Probab=99.60  E-value=3.3e-15  Score=121.45  Aligned_cols=79  Identities=25%  Similarity=0.269  Sum_probs=73.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|+. |+|..++|++|.|.+
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (95)
T 2cqc_A           12 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG   91 (95)
T ss_dssp             CCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            445689999999999999999999999999999999988764  58999999999999999999 999999999999998


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus        92 a~   93 (95)
T 2cqc_A           92 PS   93 (95)
T ss_dssp             CS
T ss_pred             cC
Confidence            76

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

Probab=99.60  E-value=2.6e-15  Score=123.06  Aligned_cols=79  Identities=27%  Similarity=0.439  Sum_probs=73.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC-----CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN-----SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~-----~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ..++|||+|||+++|+++|+++|++||.|..|++..++.     .++|||||+|.+.++|.+|++ |+|..++|+.|.|.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   83 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   83 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            568999999999999999999999999999999998765     358999999999999999999 99999999999999


Q ss_pred             ccCCC
Q 013726          329 PSKTA  333 (437)
Q Consensus       329 ~s~~~  333 (437)
                      +++..
T Consensus        84 ~a~~~   88 (98)
T 2cpf_A           84 ISERA   88 (98)
T ss_dssp             CSSCS
T ss_pred             EccCC
Confidence            98643

>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=99.60  E-value=2.9e-15  Score=122.96  Aligned_cols=77  Identities=21%  Similarity=0.238  Sum_probs=72.9

Q ss_pred             CCcEEEEecCCccchHHHHH----HHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~----~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ..++|||+|||+++++++|+    ++|++||.|.+|+++.++.+ +|||||+|.+.++|.+|++ |||..++|+.|.|.+
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~-rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   86 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSL   86 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC-CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            55789999999999999999    99999999999999988877 8999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        87 a~~   89 (96)
T 2dgx_A           87 ATG   89 (96)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            863

>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=99.60  E-value=3.8e-15  Score=118.06  Aligned_cols=76  Identities=21%  Similarity=0.373  Sum_probs=71.3

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +.+|||+|||+++++++|+++|++||.|.+++++.++.+  ++|||||+|.+.++|.+|+. |+|..++|++|.|.+++
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            368999999999999999999999999999999988654  48999999999999999999 99999999999999986

>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=99.60  E-value=2.3e-15  Score=122.56  Aligned_cols=79  Identities=32%  Similarity=0.487  Sum_probs=73.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+.+++++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|++ |++..++|+.|.|.++
T Consensus        13 ~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (95)
T 2ywk_A           13 EEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGP   92 (95)
T ss_dssp             TTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEc
Confidence            445689999999999999999999999999999999988753 48999999999999999999 9999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        93 ~   93 (95)
T 2ywk_A           93 S   93 (95)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.60  E-value=8e-16  Score=124.75  Aligned_cols=76  Identities=17%  Similarity=0.283  Sum_probs=67.9

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCC--CeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCG--QVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G--~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .+|||+|||+++|+++|+++|++||  .|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..++|+.|.|.++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            5899999999999999999999999  9999999998754  58999999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        82 ~   82 (90)
T 3p5t_L           82 K   82 (90)
T ss_dssp             -
T ss_pred             C
Confidence            4

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

Probab=99.60  E-value=3.5e-15  Score=123.52  Aligned_cols=80  Identities=24%  Similarity=0.309  Sum_probs=74.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|+. |+|..++|+.|.|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            456799999999999999999999999999999999988654  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        92 a~~   94 (103)
T 2cq0_A           92 AKP   94 (103)
T ss_dssp             SSC
T ss_pred             CCC
Confidence            864

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

Probab=99.60  E-value=2.6e-15  Score=121.96  Aligned_cols=79  Identities=25%  Similarity=0.323  Sum_probs=72.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++++++|+++|++||.|..|++..++.+  ++|||||+|.+.++|.+|++ |++..++|++|.|.+
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   92 (94)
T 2e5h_A           13 APSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASI   92 (94)
T ss_dssp             CCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEe
Confidence            346689999999999999999999999999999999988754  58999999999999999998 999999999999998


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus        93 ak   94 (94)
T 2e5h_A           93 AI   94 (94)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>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=99.60  E-value=4.6e-15  Score=121.79  Aligned_cols=80  Identities=25%  Similarity=0.305  Sum_probs=73.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   85 (99)
T 1whw_A            6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            46789999999999999999999999999999999988744  58999999999999999997 9999999999999998


Q ss_pred             CCC
Q 013726          331 KTA  333 (437)
Q Consensus       331 ~~~  333 (437)
                      ...
T Consensus        86 ~~~   88 (99)
T 1whw_A           86 TIK   88 (99)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            643

>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=99.59  E-value=2.1e-15  Score=121.12  Aligned_cols=78  Identities=37%  Similarity=0.608  Sum_probs=72.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      +.++|||+|||+++|+++|+++|++||.|.++++..++.+  ++|||||+|.+.++|.+|+.|+|..++|+.|.|.+++.
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDESLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTTCEETTEECEEEETTT
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCCCEECCcEEEEEEccC
Confidence            4589999999999999999999999999999999988644  69999999999999999999999999999999999864

>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=99.59  E-value=7e-15  Score=123.08  Aligned_cols=79  Identities=22%  Similarity=0.326  Sum_probs=72.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|++..+. .++|||||+|.+.++|.+|++ |++..++|+.|.|.+++
T Consensus        19 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~-~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           19 GNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR-GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             CCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS-SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            4467899999999999999999999999999999996653 368999999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        98 ~   98 (109)
T 1x4a_A           98 S   98 (109)
T ss_dssp             C
T ss_pred             c
Confidence            4

>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=99.59  E-value=4e-15  Score=119.01  Aligned_cols=77  Identities=25%  Similarity=0.419  Sum_probs=71.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||.++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            5689999999999999999999999999999999988644  58999999999999999999 99999999999999975

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

Probab=99.59  E-value=6.1e-15  Score=120.00  Aligned_cols=78  Identities=29%  Similarity=0.437  Sum_probs=73.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||.++|+++|+++|++||.|..|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|++|.|.++.
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   83 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVT   83 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESS
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            5689999999999999999999999999999999988754  68999999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        84 ~   84 (95)
T 2dnz_A           84 E   84 (95)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.59  E-value=6e-15  Score=121.26  Aligned_cols=80  Identities=23%  Similarity=0.277  Sum_probs=74.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||.++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++|++..++|+.|.|.++
T Consensus         7 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A            7 GSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             CSSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            346689999999999999999999999999999999988754  589999999999999999999999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        87 ~~   88 (99)
T 2dgs_A           87 EP   88 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            63

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

Probab=99.59  E-value=3.8e-15  Score=120.52  Aligned_cols=79  Identities=19%  Similarity=0.214  Sum_probs=73.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||+++|+++|+++|++||.|..|++..+...++|||||+|.+.++|.+|++ |++..++|+.|.|.+++.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   85 (92)
T 2dgv_A            6 SGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN   85 (92)
T ss_dssp             SSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            3568999999999999999999999999999999998655579999999999999999999 999999999999999864

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

Probab=99.59  E-value=1.7e-15  Score=126.77  Aligned_cols=79  Identities=16%  Similarity=0.252  Sum_probs=73.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|+++.++.. ++|||||+|.+.++|.+|+.+++..++|+.|.|.++.
T Consensus         8 ~~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A            8 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKD   87 (103)
T ss_dssp             CSGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEEHH
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEch
Confidence            445689999999999999999999999999999999987753 6999999999999999999999999999999999864

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

Probab=99.59  E-value=2e-15  Score=127.07  Aligned_cols=79  Identities=22%  Similarity=0.317  Sum_probs=74.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||.++|+++|+++|++||.|.+|++..++..++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            44678999999999999999999999999999999998877789999999999999999999 99999999999999976

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

Probab=99.58  E-value=2.7e-15  Score=124.20  Aligned_cols=80  Identities=25%  Similarity=0.316  Sum_probs=74.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   89 (103)
T 2dnm_A           10 VDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQV   89 (103)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            446789999999999999999999999999999999988754  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        90 a~~   92 (103)
T 2dnm_A           90 ARY   92 (103)
T ss_dssp             CSS
T ss_pred             CCc
Confidence            874

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

Probab=99.58  E-value=6.4e-15  Score=124.92  Aligned_cols=79  Identities=22%  Similarity=0.411  Sum_probs=72.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..++|+.|+|.+
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~  116 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQL  116 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEe
Confidence            456789999999999999999999999999999999988654  58999999999999999999 999999999999987


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus       117 ak  118 (118)
T 2khc_A          117 KK  118 (118)
T ss_dssp             C-
T ss_pred             cC
Confidence            63

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

Probab=99.58  E-value=7.2e-15  Score=121.00  Aligned_cols=79  Identities=20%  Similarity=0.351  Sum_probs=73.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   93 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS   93 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            456789999999999999999999999999999999988732 58999999999999999998 9999999999999998


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        94 ~   94 (100)
T 2do4_A           94 N   94 (100)
T ss_dssp             C
T ss_pred             C
Confidence            6

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

Probab=99.58  E-value=4.8e-15  Score=122.73  Aligned_cols=80  Identities=20%  Similarity=0.394  Sum_probs=74.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|++..+...++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            45678999999999999999999999999999999998844468999999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        92 ~   92 (103)
T 2d9p_A           92 R   92 (103)
T ss_dssp             S
T ss_pred             c
Confidence            4

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

Probab=99.58  E-value=5.8e-15  Score=122.75  Aligned_cols=80  Identities=20%  Similarity=0.293  Sum_probs=73.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeC-CC--CCceEEEEEEcCHHHHHHHHH-h-cCeEeeeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGD-PN--SVLRFAFIEFTDEEGARAALN-L-AGTMLGFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d-~~--~s~GfaFVeF~~~e~A~~Al~-l-ng~~l~Gr~L~V  327 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.+ +.  .++|||||+|.+.++|.+|+. | ++..+.|+.|.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v   91 (107)
T 2cph_A           12 KQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   91 (107)
T ss_dssp             SSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEE
Confidence            456789999999999999999999999999999999888 33  368999999999999999999 9 999999999999


Q ss_pred             eccCC
Q 013726          328 LPSKT  332 (437)
Q Consensus       328 ~~s~~  332 (437)
                      .+++.
T Consensus        92 ~~a~~   96 (107)
T 2cph_A           92 EWADS   96 (107)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            99864

>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=99.58  E-value=8e-15  Score=121.65  Aligned_cols=80  Identities=25%  Similarity=0.379  Sum_probs=73.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeee---eeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGF---YPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~G---r~L~V  327 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|++..++.. ++|||||+|.+.++|.+|++ |+|..+.|   +.|.|
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V   91 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVV   91 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEE
Confidence            345789999999999999999999999999999999988743 48999999999999999999 99999988   99999


Q ss_pred             eccCC
Q 013726          328 LPSKT  332 (437)
Q Consensus       328 ~~s~~  332 (437)
                      .+++.
T Consensus        92 ~~a~~   96 (105)
T 2dnh_A           92 KFADT   96 (105)
T ss_dssp             EESCS
T ss_pred             EECcc
Confidence            99864

>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=99.58  E-value=5.7e-15  Score=122.56  Aligned_cols=80  Identities=31%  Similarity=0.417  Sum_probs=74.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|.+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           12 RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            446789999999999999999999999999999999988744  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus        92 a~~   94 (105)
T 1x5u_A           92 ASA   94 (105)
T ss_dssp             TTT
T ss_pred             CCC
Confidence            864

>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=99.58  E-value=6.8e-15  Score=120.40  Aligned_cols=77  Identities=34%  Similarity=0.473  Sum_probs=72.1

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      .++|||+|||.++++++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   81 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSSN   81 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSC
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcCC
Confidence            579999999999999999999999999999999988754  58999999999999999998 999999999999999863

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

Probab=99.58  E-value=3.4e-15  Score=123.69  Aligned_cols=77  Identities=21%  Similarity=0.298  Sum_probs=72.4

Q ss_pred             CCcEEEEecCCc------cchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee-ee
Q 013726          255 IRRTVYVSDIDQ------QVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF-YP  324 (437)
Q Consensus       255 ~~rtLfVgNLp~------~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G-r~  324 (437)
                      ..++|||+|||+      ++++++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..++| +.
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~   84 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHR   84 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCB
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeE
Confidence            458999999999      9999999999999999999999998865  58999999999999999998 99999999 99


Q ss_pred             eEEeccC
Q 013726          325 VRVLPSK  331 (437)
Q Consensus       325 L~V~~s~  331 (437)
                      |.|.++.
T Consensus        85 l~V~~a~   91 (100)
T 3ns6_A           85 LFLYTMK   91 (100)
T ss_dssp             CEEEESH
T ss_pred             EEEEECc
Confidence            9999874

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

Probab=99.57  E-value=6.3e-15  Score=120.16  Aligned_cols=78  Identities=23%  Similarity=0.449  Sum_probs=72.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEE-EEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~v-ri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..++|||+|||+++|+++|+++|++||.|..| +++.++.+  ++|||||+|.+.++|.+|+. |+|..++|+.|.|.++
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            56899999999999999999999999999999 99887544  58999999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        84 ~~   85 (96)
T 1x5t_A           84 FK   85 (96)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

>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=99.57  E-value=4.3e-15  Score=125.41  Aligned_cols=79  Identities=30%  Similarity=0.439  Sum_probs=73.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|+.||.|..|+++.++.+  ++|||||+|.+.++|.+|+.|+|..++|+.|.|.++
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a  101 (114)
T 2cq4_A           22 ERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             HHHHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEH
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCCCEeCCeEEEEEec
Confidence            445689999999999999999999999999999999988764  689999999999999999999999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus       102 ~  102 (114)
T 2cq4_A          102 Q  102 (114)
T ss_dssp             H
T ss_pred             C
Confidence            5

>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=99.57  E-value=9.4e-15  Score=122.29  Aligned_cols=80  Identities=23%  Similarity=0.312  Sum_probs=74.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hc------CeEeeee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LA------GTMLGFY  323 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-ln------g~~l~Gr  323 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|+. |+      +..++|+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~   91 (111)
T 1x4h_A           12 VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGR   91 (111)
T ss_dssp             CCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCE
Confidence            446789999999999999999999999999999999988764  58999999999999999999 99      9999999


Q ss_pred             eeEEeccCC
Q 013726          324 PVRVLPSKT  332 (437)
Q Consensus       324 ~L~V~~s~~  332 (437)
                      .|.|.++..
T Consensus        92 ~l~v~~a~~  100 (111)
T 1x4h_A           92 QLKVDLAVT  100 (111)
T ss_dssp             EEEEECCCC
T ss_pred             EEEEEECCC
Confidence            999999863

>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=99.57  E-value=7.1e-15  Score=122.37  Aligned_cols=79  Identities=20%  Similarity=0.258  Sum_probs=72.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+.+|+++|+++|+.||.|.+|+++.++.. ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus        26 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  105 (107)
T 3ulh_A           26 VETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLV  105 (107)
T ss_dssp             CCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            356789999999999999999999999999999999988743 48999999999999999999 9999999999999986


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus       106 ~  106 (107)
T 3ulh_A          106 T  106 (107)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.57  E-value=5.4e-15  Score=122.07  Aligned_cols=80  Identities=30%  Similarity=0.414  Sum_probs=73.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|.+
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL   88 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEe
Confidence            346789999999999999999999999999999999888654  68999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        89 a~~   91 (102)
T 2cqb_A           89 AKP   91 (102)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            864

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

Probab=99.57  E-value=6.4e-15  Score=122.46  Aligned_cols=79  Identities=20%  Similarity=0.324  Sum_probs=73.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||.++|+++|+++|+.||.|.+|++..++.+  ++|||||+|.+.++|.+|+. |+|..++|+.|.|.++
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  100 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC  100 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEee
Confidence            45689999999999999999999999999999999988765  48999999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       101 ~~  102 (106)
T 1p27_B          101 FV  102 (106)
T ss_dssp             EE
T ss_pred             cC
Confidence            63

>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=99.57  E-value=6.6e-15  Score=117.82  Aligned_cols=77  Identities=16%  Similarity=0.278  Sum_probs=71.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC---CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS---VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~---s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..++|||+|||.++|+++|+++|++||.|.+|++..++.+   ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            4589999999999999999999999999999999888753   58999999999999999999 9999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        83 ~   83 (88)
T 4a8x_A           83 L   83 (88)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.57  E-value=6.6e-15  Score=124.06  Aligned_cols=76  Identities=24%  Similarity=0.298  Sum_probs=69.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hc--CeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LA--GTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-ln--g~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|+++.+    +|||||+|.+.++|.+|++ |+  +..+.|++|.|.+
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~   88 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF   88 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEE
Confidence            446789999999999999999999999999999999876    5899999999999999999 76  4789999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        89 A~~   91 (105)
T 1sjq_A           89 SNH   91 (105)
T ss_dssp             CSS
T ss_pred             cCC
Confidence            864

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

Probab=99.56  E-value=7.6e-15  Score=120.76  Aligned_cols=78  Identities=23%  Similarity=0.345  Sum_probs=72.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeE--------EEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD--------CRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLG  321 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~--------vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~  321 (437)
                      +...++|||+|||.++|+++|+++|++||.|..        +++..++.+  ++|||||+|.+.++|.+|++ |+|..++
T Consensus        10 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~~~   89 (99)
T 2la6_A           10 HSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFS   89 (99)
T ss_dssp             CCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCBSS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeC
Confidence            345689999999999999999999999999999        999988754  58999999999999999999 9999999


Q ss_pred             eeeeEEecc
Q 013726          322 FYPVRVLPS  330 (437)
Q Consensus       322 Gr~L~V~~s  330 (437)
                      |+.|.|.++
T Consensus        90 g~~l~V~~A   98 (99)
T 2la6_A           90 GNPIKVSFA   98 (99)
T ss_dssp             SSBCEEEEC
T ss_pred             CcEEEEEec
Confidence            999999886

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

Probab=99.56  E-value=1.3e-14  Score=122.70  Aligned_cols=81  Identities=15%  Similarity=0.259  Sum_probs=73.9

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .+...++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ +++ .+.|+.|.|.
T Consensus        13 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~   91 (116)
T 2cqd_A           13 KDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVN   91 (116)
T ss_dssp             CSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEE
Confidence            3557799999999999999999999999999999999988754  68999999999999999999 888 8999999999


Q ss_pred             ccCCC
Q 013726          329 PSKTA  333 (437)
Q Consensus       329 ~s~~~  333 (437)
                      ++...
T Consensus        92 ~a~~~   96 (116)
T 2cqd_A           92 LAYLG   96 (116)
T ss_dssp             ESTTT
T ss_pred             EcccC
Confidence            98643

>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=99.56  E-value=9.5e-15  Score=122.88  Aligned_cols=79  Identities=27%  Similarity=0.405  Sum_probs=73.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus        23 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  102 (108)
T 2jrs_A           23 SAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGH  102 (108)
T ss_dssp             CSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            446689999999999999999999999999999999988764  58999999999999999999 999999999999999


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus       103 a~  104 (108)
T 2jrs_A          103 VT  104 (108)
T ss_dssp             SC
T ss_pred             cc
Confidence            75

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

Probab=99.56  E-value=5.7e-15  Score=121.90  Aligned_cols=80  Identities=19%  Similarity=0.345  Sum_probs=73.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|.+
T Consensus         9 ~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   88 (102)
T 1x5s_A            9 ASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   88 (102)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            346689999999999999999999999999999999987654  58999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        89 a~~   91 (102)
T 1x5s_A           89 AGK   91 (102)
T ss_dssp             EEC
T ss_pred             CCC
Confidence            864

>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=99.56  E-value=1.3e-14  Score=123.62  Aligned_cols=80  Identities=23%  Similarity=0.361  Sum_probs=73.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||.++|+++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            45689999999999999999999999999999999988732 58999999999999999999 99999999999999986


Q ss_pred             CC
Q 013726          332 TA  333 (437)
Q Consensus       332 ~~  333 (437)
                      ..
T Consensus        85 ~~   86 (116)
T 2fy1_A           85 KP   86 (116)
T ss_dssp             CS
T ss_pred             CC
Confidence            43

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

Probab=99.56  E-value=9.9e-15  Score=119.79  Aligned_cols=79  Identities=18%  Similarity=0.311  Sum_probs=73.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCee-EEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeee----e
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVV-DCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYP----V  325 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~-~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~----L  325 (437)
                      ...++|||+|||+++|+++|+++|++||.|. +|+++.++.+  ++|||||+|.+.++|.+|++ |||..+.|+.    |
T Consensus         7 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l   86 (99)
T 2div_A            7 GMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRF   86 (99)
T ss_dssp             SSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEEC
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeE
Confidence            3568999999999999999999999999999 9999988754  58999999999999999999 9999999999    9


Q ss_pred             EEeccCC
Q 013726          326 RVLPSKT  332 (437)
Q Consensus       326 ~V~~s~~  332 (437)
                      +|.+++.
T Consensus        87 ~v~~a~~   93 (99)
T 2div_A           87 KLNYATY   93 (99)
T ss_dssp             CEEETTC
T ss_pred             EEeecCC
Confidence            9998863

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

Probab=99.56  E-value=4.7e-15  Score=117.72  Aligned_cols=73  Identities=16%  Similarity=0.234  Sum_probs=66.3

Q ss_pred             CcEEEEecCCccc------hHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeee-eeEE
Q 013726          256 RRTVYVSDIDQQV------TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFY-PVRV  327 (437)
Q Consensus       256 ~rtLfVgNLp~~~------tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr-~L~V  327 (437)
                      .++|||+|||..+      |+++|+++|++||.|.+|++..+...++|||||+|.+.++|.+|++ |||..++|+ +|+|
T Consensus         1 ~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A            1 DSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CCEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             CCEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            3789999999999      8899999999999999999885444579999999999999999999 999999999 8876


Q ss_pred             e
Q 013726          328 L  328 (437)
Q Consensus       328 ~  328 (437)
                      .
T Consensus        81 ~   81 (81)
T 2krb_A           81 N   81 (81)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.56  E-value=7.5e-15  Score=122.04  Aligned_cols=80  Identities=20%  Similarity=0.327  Sum_probs=73.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEe---eeeeeE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTML---GFYPVR  326 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l---~Gr~L~  326 (437)
                      +...++|||+|||.++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |++..+   .|+.|.
T Consensus        10 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           10 DHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            456789999999999999999999999999999999988754  68999999999999999999 999987   899999


Q ss_pred             EeccCC
Q 013726          327 VLPSKT  332 (437)
Q Consensus       327 V~~s~~  332 (437)
                      |.++..
T Consensus        90 v~~a~~   95 (106)
T 2dgp_A           90 VKPADS   95 (106)
T ss_dssp             EEECCC
T ss_pred             EEECCc
Confidence            999864

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

Probab=99.56  E-value=2.3e-14  Score=120.66  Aligned_cols=81  Identities=25%  Similarity=0.322  Sum_probs=74.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++|+++|+++|++||.|.+|+++.++.. ++|||||+|.+.++|.+|++ |++..++|+.|.|.++
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   91 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMD   91 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEc
Confidence            345689999999999999999999999999999999988753 48999999999999999999 9999999999999998


Q ss_pred             CCC
Q 013726          331 KTA  333 (437)
Q Consensus       331 ~~~  333 (437)
                      ...
T Consensus        92 ~~~   94 (114)
T 2do0_A           92 ERA   94 (114)
T ss_dssp             SCC
T ss_pred             ccC
Confidence            643

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.55  E-value=6.4e-15  Score=124.22  Aligned_cols=79  Identities=14%  Similarity=0.258  Sum_probs=72.9

Q ss_pred             cCCcEEEEecCCccchHHHHH---HHHhcCCCeeEEEEeeCCC-----CCceEEEEEEcCHHHHHHHHH-hcCeEeeeee
Q 013726          254 IIRRTVYVSDIDQQVTEEQLA---ALFVGCGQVVDCRICGDPN-----SVLRFAFIEFTDEEGARAALN-LAGTMLGFYP  324 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~---~~F~~~G~I~~vri~~d~~-----~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~  324 (437)
                      ...++|||+|||+++++++|+   ++|++||.|..|++..++.     .++|||||+|.+.++|.+|++ |||..++|+.
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~   92 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRT   92 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCEE
Confidence            456899999999999999999   9999999999999988775     357999999999999999999 9999999999


Q ss_pred             eEEeccCC
Q 013726          325 VRVLPSKT  332 (437)
Q Consensus       325 L~V~~s~~  332 (437)
                      |.|.++..
T Consensus        93 l~V~~a~~  100 (111)
T 2cpi_A           93 LKASLGTT  100 (111)
T ss_dssp             EEEESCCC
T ss_pred             EEEEeccc
Confidence            99999864

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

Probab=99.55  E-value=1.1e-14  Score=122.50  Aligned_cols=81  Identities=25%  Similarity=0.339  Sum_probs=73.9

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCee--------EEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV--------DCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTML  320 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~--------~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l  320 (437)
                      .+...++|||+|||+++|+++|+++|++||.|.        .|++..++.+  ++|||||+|.+.++|.+|++ |+|..+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   90 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDF   90 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEE
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCcc
Confidence            345679999999999999999999999999999        6999888654  58999999999999999999 999999


Q ss_pred             eeeeeEEeccCC
Q 013726          321 GFYPVRVLPSKT  332 (437)
Q Consensus       321 ~Gr~L~V~~s~~  332 (437)
                      .|+.|.|.+++.
T Consensus        91 ~g~~l~V~~a~~  102 (113)
T 2cpe_A           91 QGSKLKVSLARK  102 (113)
T ss_dssp             TTEECEEECSSC
T ss_pred             CCCEEEEEECCC
Confidence            999999999864

>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=3.1e-15  Score=139.84  Aligned_cols=79  Identities=22%  Similarity=0.436  Sum_probs=74.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+.+|+++|+++|+.||.|.+|+++.+..+++|||||+|.+.++|.+|++ |||..|+|++|.|.++.
T Consensus       100 ~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          100 KSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             HHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            34567899999999999999999999999999999999887789999999999999999999 99999999999999875

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

Probab=99.55  E-value=3.6e-15  Score=119.02  Aligned_cols=78  Identities=15%  Similarity=0.264  Sum_probs=71.7

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..++|+.|++.++
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            35689999999999999999999999999999999988654  58999999999999999999 9999999999998875


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        83 ~   83 (85)
T 1x4e_A           83 S   83 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.55  E-value=1.5e-14  Score=123.69  Aligned_cols=82  Identities=33%  Similarity=0.548  Sum_probs=74.9

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEe
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL  328 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~  328 (437)
                      ..+...++|||+|||.++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|+.|+|..++|+.|.|.
T Consensus        31 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~  110 (124)
T 2jwn_A           31 KKEIDKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVL  110 (124)
T ss_dssp             HHHHHHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEE
T ss_pred             cccCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            34456789999999999999999999999999999999988644  6999999999999999999999999999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      +++.
T Consensus       111 ~a~~  114 (124)
T 2jwn_A          111 PKRT  114 (124)
T ss_dssp             ESSC
T ss_pred             ECCC
Confidence            9864

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

Probab=99.55  E-value=4.1e-15  Score=115.92  Aligned_cols=73  Identities=18%  Similarity=0.239  Sum_probs=68.2

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +|||+|||+++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|+++++..++|++|.|.++
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEECCEEEEEEeC
Confidence            4899999999999999999999999999999888743  689999999999999999999999999999999864

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

Probab=99.55  E-value=2.2e-14  Score=118.80  Aligned_cols=79  Identities=22%  Similarity=0.392  Sum_probs=72.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++|+++|+++|++|| |..|+++.++.+  ++|||||+|.+.++|.+|+.|++..++|+.|.|.++
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   90 (103)
T 2dng_A           12 TEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIA   90 (103)
T ss_dssp             SSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEEC
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEe
Confidence            34578999999999999999999999997 999999998764  589999999999999999999999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        91 ~~   92 (103)
T 2dng_A           91 EG   92 (103)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

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

Probab=99.55  E-value=4.5e-14  Score=123.06  Aligned_cols=82  Identities=24%  Similarity=0.340  Sum_probs=75.5

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .+...++|||+|||.++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.
T Consensus        38 ~~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  117 (139)
T 1u6f_A           38 EPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA  117 (139)
T ss_dssp             CTTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            3456789999999999999999999999999999999988765  48999999999999999999 99999999999999


Q ss_pred             ccCCC
Q 013726          329 PSKTA  333 (437)
Q Consensus       329 ~s~~~  333 (437)
                      +++..
T Consensus       118 ~a~~~  122 (139)
T 1u6f_A          118 LAASG  122 (139)
T ss_dssp             ESSCC
T ss_pred             ECCCC
Confidence            98643

>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=99.55  E-value=1e-14  Score=122.13  Aligned_cols=80  Identities=18%  Similarity=0.272  Sum_probs=73.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||.++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|+. |+|..++|+.|.|.+
T Consensus        23 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  102 (110)
T 1oo0_B           23 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDW  102 (110)
T ss_dssp             BTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            345689999999999999999999999999999999888654  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus       103 a~~  105 (110)
T 1oo0_B          103 CFV  105 (110)
T ss_dssp             SEE
T ss_pred             ccc
Confidence            863

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

Probab=99.55  E-value=9.7e-15  Score=118.93  Aligned_cols=72  Identities=17%  Similarity=0.144  Sum_probs=67.4

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      .+..|||+||++.+|+++|+++|.+||+|.++++..    ++|||||+|.+.++|.+|++ ||+..++|++|.|..+
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL----NQGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            356799999999999999999999999999999965    57999999999999999999 9999999999999876

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

Probab=99.54  E-value=1.4e-14  Score=120.24  Aligned_cols=80  Identities=25%  Similarity=0.361  Sum_probs=74.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|+..++..++|+.|.|.++
T Consensus        13 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~~~~~g~~l~V~~a   92 (105)
T 2dh8_A           13 ADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRPHTLDGRNIDPKPC   92 (105)
T ss_dssp             SSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCSEEETTEEEBCCCS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEc
Confidence            456799999999999999999999999999999999998754  589999999999999999999999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        93 ~~   94 (105)
T 2dh8_A           93 TP   94 (105)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

>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=99.54  E-value=5.8e-15  Score=131.03  Aligned_cols=79  Identities=11%  Similarity=0.248  Sum_probs=72.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++|+++|+++|++||.|.++++..++.+  ++|||||+|.+.++|.+|++++|..++|++|.|.++
T Consensus        84 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~i~V~~a  163 (167)
T 2cjk_A           84 QDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKFIDFKDRKIEIKRA  163 (167)
T ss_dssp             HHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHHCSEECSSSSCEEEEEC
T ss_pred             ccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHhCCCEEeCCeEEEEeec
Confidence            345679999999999999999999999999999999988643  699999999999999999999999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus       164 ~  164 (167)
T 2cjk_A          164 E  164 (167)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.54  E-value=9.7e-15  Score=126.94  Aligned_cols=80  Identities=28%  Similarity=0.257  Sum_probs=74.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|++|.|.+
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~  122 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDF  122 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            456789999999999999999999999999999999988754  68999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus       123 a~~  125 (129)
T 2kxn_B          123 SIT  125 (129)
T ss_dssp             CSS
T ss_pred             ecC
Confidence            863

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

Probab=99.54  E-value=9.7e-15  Score=121.90  Aligned_cols=79  Identities=16%  Similarity=0.204  Sum_probs=71.6

Q ss_pred             ccCCcEEEEecCCccc------hHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeee-e
Q 013726          253 EIIRRTVYVSDIDQQV------TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFY-P  324 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~------tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr-~  324 (437)
                      +...++|||+|||+.+      |+++|+++|++||.|.+|++......++|||||+|.+.++|.+|+. |||..++|+ +
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~   91 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHT   91 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCE
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCce
Confidence            3456899999999999      8899999999999999999985444579999999999999999999 999999998 9


Q ss_pred             eEEeccC
Q 013726          325 VRVLPSK  331 (437)
Q Consensus       325 L~V~~s~  331 (437)
                      |.|.++.
T Consensus        92 l~V~~a~   98 (105)
T 2nlw_A           92 FRVNLFT   98 (105)
T ss_dssp             EEEECSC
T ss_pred             EEEEEcc
Confidence            9999875

>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=99.54  E-value=2e-14  Score=119.26  Aligned_cols=78  Identities=26%  Similarity=0.410  Sum_probs=72.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC---CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS---VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~---s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|+.|| |..|+++.++.+   ++|||||+|.+.++|.+|+.|++..++|+.|.|.++
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           13 SPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEc
Confidence            4568999999999999999999999999 999999988753   589999999999999999999999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        92 ~~   93 (104)
T 1wi8_A           92 DQ   93 (104)
T ss_dssp             CC
T ss_pred             cC
Confidence            63

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

Probab=99.54  E-value=1.9e-14  Score=129.24  Aligned_cols=78  Identities=24%  Similarity=0.330  Sum_probs=71.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCC--CeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCG--QVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G--~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ...++|||+|||+++|+++|+++|+.||  .|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |||..++|+.|.|.
T Consensus        53 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~  132 (156)
T 3n9u_C           53 NRRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             ---CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            3568999999999999999999999999  9999999998765  58999999999999999999 99999999999999


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      ++.
T Consensus       133 ~a~  135 (156)
T 3n9u_C          133 PAT  135 (156)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            874

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

Probab=99.53  E-value=1.6e-14  Score=119.58  Aligned_cols=80  Identities=25%  Similarity=0.384  Sum_probs=73.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhc-CCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeE-eeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVG-CGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTM-LGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~-~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~-l~Gr~L~V~  328 (437)
                      ....++|||+|||+++|+++|+++|++ ||.|.+|+++.++.. ++|||||+|.+.++|.+|++ |++.. ++|+.|.|.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~   85 (104)
T 2dhg_A            6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLS   85 (104)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEE
Confidence            345689999999999999999999999 999999999988733 58999999999999999999 99999 999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      ++..
T Consensus        86 ~a~~   89 (104)
T 2dhg_A           86 VAIP   89 (104)
T ss_dssp             BCCC
T ss_pred             EccC
Confidence            9864

>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=99.53  E-value=6.9e-15  Score=121.67  Aligned_cols=78  Identities=32%  Similarity=0.448  Sum_probs=72.7

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|..|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   85 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeC
Confidence            35589999999999999999999999999999999988754  48999999999999999998 9999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        86 ~   86 (104)
T 1p1t_A           86 A   86 (104)
T ss_dssp             T
T ss_pred             C
Confidence            5

>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=99.53  E-value=4e-14  Score=118.59  Aligned_cols=78  Identities=23%  Similarity=0.366  Sum_probs=72.3

Q ss_pred             hhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       251 ~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ..+...++|||+|||.++|+++|+++|++||.|..|++..+    +|||||+|.+.++|.+|+. |+|..++|+.|.|.+
T Consensus        20 ~~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   95 (109)
T 1x4g_A           20 QSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW   95 (109)
T ss_dssp             HSCSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEe
Confidence            34566789999999999999999999999999999999876    5899999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        96 a~~   98 (109)
T 1x4g_A           96 GKE   98 (109)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            864

>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=99.53  E-value=3.1e-14  Score=118.92  Aligned_cols=75  Identities=24%  Similarity=0.282  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h--cCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L--AGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l--ng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.+    +|||||+|.+.++|.+|++ |  ++..+.|++|.|.++
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a   88 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG----KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYS   88 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEc
Confidence            45689999999999999999999999999999999865    5899999999999999998 6  578899999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        89 ~~   90 (101)
T 2cq1_A           89 NH   90 (101)
T ss_dssp             SC
T ss_pred             Cc
Confidence            64

>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=99.53  E-value=5.4e-14  Score=116.33  Aligned_cols=79  Identities=18%  Similarity=0.205  Sum_probs=72.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|+. ++..++|+.|.|.++
T Consensus        12 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           12 VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             CCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECC
T ss_pred             cCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH-cCCeeCCeEEEEEec
Confidence            456789999999999999999999999999999999988754  58999999999999999999 578999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        91 ~~   92 (103)
T 2cqg_A           91 NS   92 (103)
T ss_dssp             CT
T ss_pred             CC
Confidence            64

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.53  E-value=1.8e-14  Score=114.75  Aligned_cols=75  Identities=20%  Similarity=0.292  Sum_probs=69.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h-cCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L-AGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l-ng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||.++|+++|+++|++||.|.+|++..+    +|||||+|.+.++|.+|++ | +|..++|++|.|.++
T Consensus         9 ~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~----kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A            9 DKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR----QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             CSSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG----GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC----CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            446689999999999999999999999999999999864    5899999999999999999 8 999999999999986


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        85 k   85 (85)
T 2ytc_A           85 R   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.53  E-value=2.9e-14  Score=119.95  Aligned_cols=80  Identities=21%  Similarity=0.320  Sum_probs=70.0

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      .+...++|||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|++..+..++|+.|.|.+
T Consensus        21 ~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~  100 (109)
T 2rs2_A           21 MGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKV  100 (109)
T ss_dssp             -----CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEE
Confidence            3456789999999999999999999999999999999988754  68999999999999999999556999999999999


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      +.
T Consensus       101 a~  102 (109)
T 2rs2_A          101 AF  102 (109)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

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

Probab=99.53  E-value=1.8e-14  Score=127.09  Aligned_cols=78  Identities=21%  Similarity=0.331  Sum_probs=72.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||..+|+++|+++|++||.|.++++..++.+  ++|||||+|.+.++|.+|+. |+|..++|++|.|.++
T Consensus        85 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a  164 (166)
T 3md3_A           85 DDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA  164 (166)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEec
Confidence            45689999999999999999999999999999999988654  58999999999999999999 9999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus       165 ~  165 (166)
T 3md3_A          165 A  165 (166)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.53  E-value=2.2e-14  Score=118.33  Aligned_cols=75  Identities=24%  Similarity=0.247  Sum_probs=69.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||.++|+++|+++|++||.|.+|++..    ++|||||+|.+.++|.+|+. |+|..++|+.|.|.+++
T Consensus        24 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           24 PPRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP----EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             CSSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             CCCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            34568999999999999999999999999999999973    46899999999999999998 99999999999999875

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

Probab=99.53  E-value=4e-14  Score=114.37  Aligned_cols=73  Identities=23%  Similarity=0.422  Sum_probs=68.7

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||.++|+++|+++|++||.|..|++.      +|||||+|.+.++|.+|++ |++..++|+.|.|.+++.
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A            6 SGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN   79 (90)
T ss_dssp             SCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCC
Confidence            466899999999999999999999999999999997      4799999999999999998 999999999999999864

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

Probab=99.52  E-value=3.5e-14  Score=120.11  Aligned_cols=80  Identities=21%  Similarity=0.332  Sum_probs=73.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|+.||.|..|+++.++.+  ++|||||+|.+.++|.+|++.++..++|+.|.|.++
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a  103 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRA  103 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECC
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCCcEECCEEEEEEEC
Confidence            345689999999999999999999999999999999988754  589999999999999999999999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       104 ~~  105 (116)
T 1x4b_A          104 VA  105 (116)
T ss_dssp             SS
T ss_pred             CC
Confidence            63

>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=99.52  E-value=1.4e-14  Score=122.78  Aligned_cols=79  Identities=18%  Similarity=0.158  Sum_probs=73.0

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCe-eEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQV-VDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I-~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|+.||.| ..|+++.++.. ++|||||+|.+.++|.+|+++++..|+|+.|.|.++
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~v~~a   91 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVV   91 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCCeEEEEEEC
Confidence            4467899999999999999999999999999 89999988743 699999999999999999999999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        92 ~   92 (114)
T 2cpy_A           92 T   92 (114)
T ss_dssp             C
T ss_pred             C
Confidence            5

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

Probab=99.52  E-value=1.3e-14  Score=127.05  Aligned_cols=80  Identities=24%  Similarity=0.335  Sum_probs=74.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus        44 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  123 (135)
T 2lea_A           44 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM  123 (135)
T ss_dssp             GGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            456789999999999999999999999999999999887643  69999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus       124 a~~  126 (135)
T 2lea_A          124 ARY  126 (135)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            864

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.52  E-value=1.3e-14  Score=118.09  Aligned_cols=77  Identities=16%  Similarity=0.166  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|..++++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|..+.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            4589999999999999999999999999998888876654  58999999999999999999 99999999999999874

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.52  E-value=1.7e-14  Score=123.25  Aligned_cols=79  Identities=16%  Similarity=0.189  Sum_probs=72.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCC---eeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQ---VVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~---I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~  328 (437)
                      ....++|||+|||+++|+++|+++|+.||.   |..|+++.++.. ++|||||+|.+.++|.+|+++++..|+|+.|.|.
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~   93 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMGHRYIEVF   93 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEETTEEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEE
Confidence            346789999999999999999999999999   899999988764 5999999999999999999999999999999998


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      ++.
T Consensus        94 ~a~   96 (118)
T 2db1_A           94 KSH   96 (118)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            874

>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=99.51  E-value=5.8e-14  Score=115.00  Aligned_cols=75  Identities=23%  Similarity=0.262  Sum_probs=69.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee--eeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG--FYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~--Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|++..+    +|||||+|.+.++|.+|++ |++..+.  |+.|.|.++
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a   90 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEEC
Confidence            35689999999999999999999999999999999765    5899999999999999999 9999999  999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        91 ~~   92 (97)
T 1why_A           91 KS   92 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            63

>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=99.51  E-value=1e-13  Score=116.05  Aligned_cols=73  Identities=21%  Similarity=0.196  Sum_probs=69.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee-----eeeEEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF-----YPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G-----r~L~V~  328 (437)
                      ..++|||+|||+++|+++|+++|++||.|..|+++.+     |||||+|.+.++|.+|++ ||+..+.|     +.|.|.
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~   88 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   88 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEE
Confidence            5689999999999999999999999999999999876     799999999999999999 99999999     999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      ++..
T Consensus        89 ~a~~   92 (108)
T 1x4c_A           89 VDGP   92 (108)
T ss_dssp             ESSC
T ss_pred             eCCC
Confidence            9864

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

Probab=99.51  E-value=7e-14  Score=119.78  Aligned_cols=81  Identities=20%  Similarity=0.242  Sum_probs=74.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++++++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus        32 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  111 (124)
T 2kt5_A           32 VETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  111 (124)
T ss_dssp             CSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEe
Confidence            345689999999999999999999999999999999988733 58999999999999999999 9999999999999998


Q ss_pred             CCC
Q 013726          331 KTA  333 (437)
Q Consensus       331 ~~~  333 (437)
                      ...
T Consensus       112 ~~~  114 (124)
T 2kt5_A          112 ASQ  114 (124)
T ss_dssp             CCT
T ss_pred             CCC
Confidence            643

>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=99.51  E-value=2e-14  Score=117.72  Aligned_cols=78  Identities=15%  Similarity=0.164  Sum_probs=71.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|..+.++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           13 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            35689999999999999999999999999988887776654  58999999999999999998 9999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        93 ~   93 (98)
T 2cqp_A           93 S   93 (98)
T ss_dssp             S
T ss_pred             C
Confidence            5

>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=99.51  E-value=3.4e-14  Score=122.28  Aligned_cols=75  Identities=24%  Similarity=0.305  Sum_probs=68.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hc--CeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LA--GTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-ln--g~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.+    +|||||+|.+.++|.+|++ |+  +..+.|++|.|.++
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a  104 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFS  104 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEc
Confidence            45689999999999999999999999999999999876    5899999999999999999 87  46899999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus       105 ~~  106 (119)
T 2ad9_A          105 NH  106 (119)
T ss_dssp             SS
T ss_pred             cC
Confidence            64

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.51  E-value=3.1e-14  Score=116.77  Aligned_cols=76  Identities=25%  Similarity=0.367  Sum_probs=68.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+++|+++|+++|++||.|. ++++.+  .++|||||+|.+.++|.+|++ |||..++|+.|.|.+++
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ--GPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALAR   92 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE--TTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECC
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC--CCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            34568999999999999999999999999997 666654  457999999999999999998 99999999999999986

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

Probab=99.51  E-value=1e-14  Score=114.00  Aligned_cols=73  Identities=23%  Similarity=0.394  Sum_probs=67.9

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ++|||+|||+++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|++ ++ ..++|++|.|.++
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            47999999999999999999999999999999988754  68999999999999999999 77 9999999999875

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

Probab=99.51  E-value=5.3e-14  Score=113.79  Aligned_cols=79  Identities=22%  Similarity=0.316  Sum_probs=72.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|+.| .|..|+++.+... ++|||||+|.+.++|.+|+.|+|..++|+.|.|.++.
T Consensus         7 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A            7 GTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALKCNREYMGGRYIEVFREK   85 (91)
T ss_dssp             CCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHHSCSEEETTEEEEEEEES
T ss_pred             CCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHHhCCceeCCcEEEEEECC
Confidence            3466899999999999999999999999 9999999988433 5899999999999999999999999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        86 ~   86 (91)
T 2dgw_A           86 S   86 (91)
T ss_dssp             S
T ss_pred             c
Confidence            3

>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=99.51  E-value=6.3e-14  Score=124.76  Aligned_cols=80  Identities=25%  Similarity=0.283  Sum_probs=74.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|+++.++.+  ++|||||+|.+.++|.+|++ |++..|+|+.|.|.+
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  115 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW  115 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            456789999999999999999999999999999999998765  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus       116 a~~  118 (156)
T 1h2v_Z          116 DAG  118 (156)
T ss_dssp             ESC
T ss_pred             CCC
Confidence            864

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

Probab=99.51  E-value=5.2e-14  Score=122.25  Aligned_cols=78  Identities=29%  Similarity=0.411  Sum_probs=71.5

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++||.|..+++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            346789999999999999999999999999999999888654  58999999999999999998 999999999999986


Q ss_pred             c
Q 013726          330 S  330 (437)
Q Consensus       330 s  330 (437)
                      +
T Consensus       140 A  140 (140)
T 2ku7_A          140 A  140 (140)
T ss_dssp             -
T ss_pred             C
Confidence            4

>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=99.51  E-value=2.7e-14  Score=122.46  Aligned_cols=80  Identities=20%  Similarity=0.321  Sum_probs=73.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|+.||.|..|.++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus        19 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   98 (126)
T 3ex7_B           19 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   98 (126)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            345689999999999999999999999999999999988644  58999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus        99 a~~  101 (126)
T 3ex7_B           99 CFV  101 (126)
T ss_dssp             SEE
T ss_pred             ecC
Confidence            864

>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=99.51  E-value=4.1e-14  Score=117.32  Aligned_cols=76  Identities=20%  Similarity=0.329  Sum_probs=64.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||+++|+++|+++|++| |+|.+|++++|  +|.++|||||+|.+.++|.+|+...+...++..  .|.||
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~-G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~A   96 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSI-GEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA   96 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            45799999999999999999999995 99999999987  578999999999999999999976655444433  35565


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      +
T Consensus        97 k   97 (99)
T 4fxv_A           97 R   97 (99)
T ss_dssp             C
T ss_pred             e
Confidence            3

>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=99.50  E-value=7.1e-14  Score=117.72  Aligned_cols=80  Identities=21%  Similarity=0.338  Sum_probs=71.3

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEe--------e
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTML--------G  321 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l--------~  321 (437)
                      .+...++|||+|||+++|+++|+++|+.||.|.+|+++.++.. ++|||||+|.+.++|.+|++ |||..+        .
T Consensus        21 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~  100 (114)
T 1x5o_A           21 QEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAP  100 (114)
T ss_dssp             CCCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCC
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCC
Confidence            3456789999999999999999999999999999999988733 48999999999999999999 999999        4


Q ss_pred             eeeeEEeccC
Q 013726          322 FYPVRVLPSK  331 (437)
Q Consensus       322 Gr~L~V~~s~  331 (437)
                      +++|.|.++.
T Consensus       101 ~~~l~v~~a~  110 (114)
T 1x5o_A          101 TEPLLCKFSG  110 (114)
T ss_dssp             SSCBEEEECC
T ss_pred             CCceeEEccC
Confidence            6678887765

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

Probab=99.50  E-value=6.9e-14  Score=129.16  Aligned_cols=82  Identities=21%  Similarity=0.398  Sum_probs=75.2

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      .....++|||+|||.++|+++|+++|+.||.|..|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.
T Consensus       121 ~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~V~  200 (216)
T 2qfj_A          121 EARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLRVG  200 (216)
T ss_dssp             HHTTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCEEE
T ss_pred             ccCCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEEEE
Confidence            3456789999999999999999999999999999999988654  58999999999999999999 99999999999999


Q ss_pred             ccCCC
Q 013726          329 PSKTA  333 (437)
Q Consensus       329 ~s~~~  333 (437)
                      ++...
T Consensus       201 ~a~~~  205 (216)
T 2qfj_A          201 KAVTP  205 (216)
T ss_dssp             ECSSC
T ss_pred             EecCC
Confidence            98754

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.50  E-value=2.6e-14  Score=121.49  Aligned_cols=76  Identities=14%  Similarity=0.068  Sum_probs=69.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|++|| .|..+++..+  .++|||||+|.+.++|.+|++ |||..++|+.|.|.++.
T Consensus        26 ~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~~--~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~  103 (111)
T 2jvr_A           26 AKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNTR--DFDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDD  103 (111)
T ss_dssp             CCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSSC--SSSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEcC--CCCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            3557999999999999999999999999 8999988543  367999999999999999998 99999999999999875

>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=99.50  E-value=3.4e-14  Score=116.86  Aligned_cols=76  Identities=25%  Similarity=0.266  Sum_probs=70.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+.+|+++|+++|++||.|..|++..+    +|||||+|.+.++|.+|++ |+|..++|++|.|.+++
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~----kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpj_A           12 FTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   87 (99)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC----CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcC
Confidence            346689999999999999999999999999999999855    5899999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        88 ~   88 (99)
T 2cpj_A           88 H   88 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.50  E-value=4.9e-14  Score=117.68  Aligned_cols=76  Identities=24%  Similarity=0.211  Sum_probs=68.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeE--eeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTM--LGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~--l~Gr~L~V~~  329 (437)
                      ...+++|||+|||+++|+++|+++|++||.|.+|+++++    +|||||+|.+.++|.+|++ |++..  +.|++|.|.+
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~----kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~   93 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK----KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNY   93 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEe
Confidence            346789999999999999999999999999999999753    5899999999999999999 88765  7899999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        94 S~~   96 (100)
T 3r27_A           94 STS   96 (100)
T ss_dssp             CSC
T ss_pred             ccc
Confidence            863

>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=99.50  E-value=3e-14  Score=119.35  Aligned_cols=75  Identities=29%  Similarity=0.301  Sum_probs=68.3

Q ss_pred             cCCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcC--eEeeeeeeEEec
Q 013726          254 IIRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG--TMLGFYPVRVLP  329 (437)
Q Consensus       254 ~~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng--~~l~Gr~L~V~~  329 (437)
                      ...++|||+|||+ ++|+++|+++|++||.|.+|+++.++    |||||+|.+.++|.+|++ |++  ..+.|++|.|.+
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k----g~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~   88 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI----NEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHL   88 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS----SCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC----CEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEE
Confidence            3578999999999 99999999999999999999998764    799999999999999999 875  469999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        89 a~~   91 (102)
T 1x4d_A           89 SQK   91 (102)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            863

>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=99.50  E-value=3.3e-14  Score=120.12  Aligned_cols=76  Identities=14%  Similarity=0.132  Sum_probs=69.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||+++|+++|+++|++||.|..|++..    ++|||||+|.+.++|.+|+. |||..++|+.|.|.++..
T Consensus         8 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   83 (111)
T 1whx_A            8 RSKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEET
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            3468999999999999999999999999999999864    45899999999999999999 999999999999999865


Q ss_pred             C
Q 013726          333 A  333 (437)
Q Consensus       333 ~  333 (437)
                      .
T Consensus        84 ~   84 (111)
T 1whx_A           84 G   84 (111)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.50  E-value=7.6e-15  Score=118.40  Aligned_cols=75  Identities=27%  Similarity=0.425  Sum_probs=69.2

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ++|||+|||.++++++|+++|++||.|.+|++..++.+  ++|||||+|.+.+ |.+|+. |+|..++|+.|.|.++..
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANP   79 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC--
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCC
Confidence            68999999999999999999999999999999988754  6999999999999 999999 999999999999999864

>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=99.50  E-value=1.4e-14  Score=124.49  Aligned_cols=79  Identities=19%  Similarity=0.206  Sum_probs=69.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+++|+++|+++|+.||.|..+.++.+..+  ++|||||+|.+.++|.+||.|++..|+|+.|.|.++
T Consensus        22 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           22 HEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEEC
Confidence            345689999999999999999999999999988555544433  589999999999999999999999999999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus       102 ~  102 (124)
T 1wel_A          102 T  102 (124)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.50  E-value=2.1e-14  Score=119.68  Aligned_cols=78  Identities=21%  Similarity=0.200  Sum_probs=70.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||+++|+++|+++|+.||. .+|+++.++.. ++|||||+|.+.++|.+||++++..|+|+.|.|..+..
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~-~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~~~~   91 (102)
T 1wez_A           13 TTGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNST   91 (102)
T ss_dssp             SSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCc-eEEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCcEEEEEECCC
Confidence            45689999999999999999999999995 49999988743 59999999999999999999999999999999998753

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

Probab=99.50  E-value=1e-13  Score=112.41  Aligned_cols=74  Identities=26%  Similarity=0.368  Sum_probs=68.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+++|+++|+++|++||.|..|++.+      +||||+|.+.++|.+|++ |+|..+.|+.|.|.+++
T Consensus         7 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   80 (92)
T 2dgt_A            7 GKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK------DYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST   80 (92)
T ss_dssp             CCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS------SEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC------CEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            44678999999999999999999999999999999973      499999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        81 ~   81 (92)
T 2dgt_A           81 S   81 (92)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.49  E-value=1.5e-14  Score=119.61  Aligned_cols=78  Identities=26%  Similarity=0.412  Sum_probs=69.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC---CCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP---NSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~---~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|+.|| |.+|++..++   ..++|||||+|.+.++|.+|+.|+|..++|+.|.|.+
T Consensus        16 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~l~V~~   94 (100)
T 2j76_E           16 KSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDV   94 (100)
T ss_dssp             ----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEe
Confidence            34668999999999999999999999999 9999999886   2369999999999999999999999999999999998


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus        95 a~   96 (100)
T 2j76_E           95 AD   96 (100)
T ss_dssp             CC
T ss_pred             cc
Confidence            75

>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=99.49  E-value=4.8e-14  Score=118.31  Aligned_cols=75  Identities=17%  Similarity=0.164  Sum_probs=67.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcC--eEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG--TMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng--~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.+    +|||||+|.+.++|.+|++ |++  ..++|++|.|.++
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a   88 (104)
T 1wex_A           13 SVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYS   88 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEc
Confidence            35689999999999999999999999999999999764    5899999999999999998 865  4599999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        89 ~~   90 (104)
T 1wex_A           89 TS   90 (104)
T ss_dssp             SS
T ss_pred             cC
Confidence            64

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

Probab=99.49  E-value=5.9e-14  Score=118.09  Aligned_cols=75  Identities=28%  Similarity=0.462  Sum_probs=69.7

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      .+...++|||+|||+++|+++|+++|++||.|..|++.      +|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus        27 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (108)
T 2jvo_A           27 GELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYS  100 (108)
T ss_dssp             -CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESC
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            34567899999999999999999999999999999998      5899999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus       101 ~~  102 (108)
T 2jvo_A          101 KL  102 (108)
T ss_dssp             SC
T ss_pred             cC
Confidence            63

>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=99.49  E-value=5.6e-14  Score=124.95  Aligned_cols=79  Identities=24%  Similarity=0.347  Sum_probs=73.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|+.||.|.+|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|++|.|.++
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a  147 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA  147 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            45689999999999999999999999999999999988644  69999999999999999998 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus       148 ~~  149 (158)
T 2kn4_A          148 RY  149 (158)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=99.49  E-value=3.8e-14  Score=118.10  Aligned_cols=78  Identities=19%  Similarity=0.221  Sum_probs=70.7

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeE-EEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD-CRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~-vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|+.||.|.. |+++.+... ++|||||+|.+.++|.+|+..++..++|+.|.|.++.
T Consensus        13 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr~i~v~~~~   92 (104)
T 1wg5_A           13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhCCcEEEEEECC
Confidence            45689999999999999999999999999987 888777432 5899999999999999999999999999999998875

>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=99.49  E-value=2.2e-14  Score=126.16  Aligned_cols=79  Identities=15%  Similarity=0.170  Sum_probs=72.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCC---eeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQ---VVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~---I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~  328 (437)
                      ....++|||+|||+++|+++|+++|+.||.   |.+|+++.++.. ++|||||+|.+.++|.+|+++++..++|+.|.|.
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~~~g~~l~gr~i~V~  120 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALKKDRESMGHRYIEVF  120 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHTTTEEESSSSEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCEECCEEEEEE
Confidence            346689999999999999999999999999   899999988764 5999999999999999999999999999999999


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      ++.
T Consensus       121 ~a~  123 (136)
T 2hgl_A          121 KSH  123 (136)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            864

>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=99.49  E-value=5.8e-14  Score=117.18  Aligned_cols=79  Identities=16%  Similarity=0.181  Sum_probs=71.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCC-eeEEEEe-eCCCC--CceEEEEEEcCHHHHHHHHH-hc--CeEeeeeeeEE
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQ-VVDCRIC-GDPNS--VLRFAFIEFTDEEGARAALN-LA--GTMLGFYPVRV  327 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~-I~~vri~-~d~~~--s~GfaFVeF~~~e~A~~Al~-ln--g~~l~Gr~L~V  327 (437)
                      ..++|||+|||+++|+++|+++|++||. |.+|.++ .++.+  ++|||||+|.+.++|.+|++ |+  +..++|+.|.|
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V   86 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAV   86 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEE
Confidence            5689999999999999999999999998 9999998 66653  69999999999999999999 96  58999999999


Q ss_pred             eccCCC
Q 013726          328 LPSKTA  333 (437)
Q Consensus       328 ~~s~~~  333 (437)
                      .+++..
T Consensus        87 ~~a~~~   92 (109)
T 2dis_A           87 DWAEPE   92 (109)
T ss_dssp             EESCSS
T ss_pred             EEcCCC
Confidence            998643

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

Probab=99.49  E-value=1.2e-13  Score=112.54  Aligned_cols=74  Identities=30%  Similarity=0.402  Sum_probs=67.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|  +.++.+++ ||||+|.+.++|.+|+.|+|..++|+.|.|.++.
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~-~afV~f~~~~~a~~ai~l~g~~~~g~~l~V~~a~   80 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGV-FAIVEMGDVGAREAVLSQSQHSLGGHRLRVRPRE   80 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCC-EEEEEESSHHHHHHHHTCSCCEETTEECCCBCSC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCc-EEEEEECCHHHHHHHHhcCCeEECCEEEEEEECC
Confidence            45799999999999999999999999999987  45555445 9999999999999999999999999999999875

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

Probab=99.49  E-value=7e-14  Score=112.96  Aligned_cols=74  Identities=24%  Similarity=0.435  Sum_probs=68.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|..|++.+      +||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   79 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK------DYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELST   79 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS------SCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC------CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECC
Confidence            44678999999999999999999999999999999973      499999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        80 ~   80 (90)
T 2dnp_A           80 K   80 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

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

Probab=99.49  E-value=1.7e-14  Score=125.19  Aligned_cols=79  Identities=18%  Similarity=0.227  Sum_probs=72.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeE--EEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCe----Eeeee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD--CRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGT----MLGFY  323 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~--vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~----~l~Gr  323 (437)
                      +...++|||+|||+++|+++|+++|++||.|..  |+++.|+.+  ++|||||+|.+. +|.+|+. |+|.    .++|+
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr   98 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGK   98 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCE
Confidence            356789999999999999999999999999977  999998854  599999999999 9999999 9999    99999


Q ss_pred             eeEEeccCC
Q 013726          324 PVRVLPSKT  332 (437)
Q Consensus       324 ~L~V~~s~~  332 (437)
                      .|.|.+++.
T Consensus        99 ~l~V~~a~~  107 (131)
T 2m2b_A           99 TINVEFAKG  107 (131)
T ss_dssp             CCCCEECCC
T ss_pred             EEEEEECCC
Confidence            999999864

>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=99.49  E-value=9.6e-14  Score=114.37  Aligned_cols=73  Identities=19%  Similarity=0.326  Sum_probs=68.3

Q ss_pred             ccCCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+ ++++++|+++|++||.|.+|++.      +|||||+|.+.++|.+|+. |+|..++|+.|.|.++
T Consensus        19 ~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~------~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (97)
T 2xnq_A           19 SHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK------NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVS   92 (97)
T ss_dssp             CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC------SSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEEC
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            34678999999998 99999999999999999999983      5899999999999999999 9999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        93 ~   93 (97)
T 2xnq_A           93 S   93 (97)
T ss_dssp             C
T ss_pred             C
Confidence            6

>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=99.49  E-value=5.7e-14  Score=119.20  Aligned_cols=75  Identities=17%  Similarity=0.283  Sum_probs=64.4

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+|||+++|+++|+++|++| |.|.+|+|+++.+.++|||||+|.+.++|++|+...+...++..  .+.|+.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~-G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a~   81 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAF-GNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   81 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEESS
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhcc-CCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            4789999999999999999999995 99999999999888999999999999999999977665554443  355554

>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=99.49  E-value=1e-14  Score=113.56  Aligned_cols=73  Identities=21%  Similarity=0.376  Sum_probs=67.7

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +|||+|||+++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|+++++..++|+.|.|.++
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEC
Confidence            5899999999999999999999999999999888754  589999999999999999999999999999998763

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.48  E-value=6.8e-14  Score=118.44  Aligned_cols=75  Identities=17%  Similarity=0.158  Sum_probs=69.7

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      .++|||+|||+++|+++|+++|+.| .|.+|+++.++.. ++|||||+|.+.++|.+|+.+++..|+|+.|.|..+.
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~~a~   91 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQRYVEVSPAT   91 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECCeEEEEEECC
Confidence            4799999999999999999999999 8999999988754 6999999999999999999999999999999998764

>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=3.1e-14  Score=126.85  Aligned_cols=77  Identities=25%  Similarity=0.437  Sum_probs=69.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEee---eeeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLG---FYPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~---Gr~L~V~  328 (437)
                      ...++|||+|||+++|+++|+++|++||.|.++++..++.. ++|||||+|.+.++|.+|++ |||..+.   |++|.|.
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~  172 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVK  172 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEE
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEE
Confidence            35689999999999999999999999999999999988654 58999999999999999998 9998776   4999998


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      ++
T Consensus       173 ~a  174 (175)
T 3nmr_A          173 FA  174 (175)
T ss_dssp             EC
T ss_pred             ec
Confidence            76

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

Probab=99.48  E-value=9.3e-14  Score=116.20  Aligned_cols=78  Identities=15%  Similarity=0.235  Sum_probs=65.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC-chhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN-PSIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~-~~i~~~~~  429 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.+|+|+++ .+.++|||||+|.+.++|.+|+......+.+. ..|.|+.+
T Consensus        10 ~~~~lfV~~Lp~~~te~~L~~~F~~~-G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~~~~~~~~gr~l~V~~~~~   88 (103)
T 1s79_A           10 KNRSVYIKGFPTDATLDDIKEWLEDK-GQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD   88 (103)
T ss_dssp             GGGCEEEECCCTTCCHHHHHHHHHTS-SCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHTSSCCCCTTTTCEEEEHHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhc-CCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEchH
Confidence            45899999999999999999999995 99999999988 57799999999999999999998544333333 35777766


Q ss_pred             h
Q 013726          430 F  430 (437)
Q Consensus       430 ~  430 (437)
                      +
T Consensus        89 ~   89 (103)
T 1s79_A           89 Y   89 (103)
T ss_dssp             H
T ss_pred             H
Confidence            4

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

Probab=99.48  E-value=2.6e-13  Score=111.56  Aligned_cols=74  Identities=26%  Similarity=0.395  Sum_probs=68.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcC--CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGC--GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~--G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|++|  |.|..|++.      +|||||+|.+.++|.+|+. |+|..++|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   85 (99)
T 2cpd_A           12 MSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL   85 (99)
T ss_dssp             SSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             cCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            3456899999999999999999999999  999999875      4799999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        86 a~~   88 (99)
T 2cpd_A           86 AKP   88 (99)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            864

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.48  E-value=1.1e-13  Score=114.14  Aligned_cols=77  Identities=25%  Similarity=0.299  Sum_probs=68.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC-CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN-SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~-~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +...++|||+|||+++|+++|+++|++||.|   +++.+.. .++|||||+|.+.++|.+|+. |++..+.|+.|.|.++
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           12 SGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             SCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            4567999999999999999999999999987   4555532 358999999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        89 ~~   90 (101)
T 2fc9_A           89 GP   90 (101)
T ss_dssp             SS
T ss_pred             CC
Confidence            64

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.47  E-value=2.2e-14  Score=127.82  Aligned_cols=76  Identities=18%  Similarity=0.329  Sum_probs=71.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..++|||+|||..+|+++|+++|++||.|..+++..++.+  ++|||||+|.+.++|.+|++ |+|..++|++|.|.++
T Consensus        93 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~A  171 (172)
T 2g4b_A           93 GAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA  171 (172)
T ss_dssp             TTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEEeC
Confidence            4689999999999999999999999999999999988644  58999999999999999999 9999999999999986

>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=99.47  E-value=1.8e-13  Score=113.45  Aligned_cols=74  Identities=24%  Similarity=0.406  Sum_probs=68.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||+++|+++|+++|++||.|..|++.      +|||||+|.+.++|.+|++ |++..+.|+.|.|.+++.
T Consensus         9 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~------~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A            9 AKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL------KDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC------SSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE------CCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCC
Confidence            356899999999999999999999999999999986      3599999999999999999 999999999999999864


Q ss_pred             C
Q 013726          333 A  333 (437)
Q Consensus       333 ~  333 (437)
                      .
T Consensus        83 ~   83 (103)
T 2dgu_A           83 P   83 (103)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.47  E-value=8.6e-14  Score=126.62  Aligned_cols=78  Identities=19%  Similarity=0.268  Sum_probs=71.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|+.||.|..|++..++.+  ++|||||+|.+.++|.+|+..++..++|+.|.|.++.
T Consensus       102 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~~~~~~~G~~i~v~~a~  181 (196)
T 1l3k_A          102 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKAL  181 (196)
T ss_dssp             -CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEECC
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHhCCcEECCEEEEEEecC
Confidence            45689999999999999999999999999999999988644  5999999999999999999978999999999999975

>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=99.47  E-value=2e-14  Score=120.36  Aligned_cols=79  Identities=16%  Similarity=0.099  Sum_probs=72.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCC---eeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQ---VVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~---I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~  328 (437)
                      ....++|||+|||+++|+++|+++|+.||.   |..|+++.++.. ++|||||+|.+.++|.+|+.+++..++|+.|.|.
T Consensus         8 ~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr~i~V~   87 (107)
T 2lmi_A            8 VDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMGQRYVEVY   87 (107)
T ss_dssp             CSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCSSSSCCCCE
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCcceeCCeEEEEE
Confidence            346789999999999999999999999988   899999888763 6999999999999999999999999999999998


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      ++.
T Consensus        88 ~a~   90 (107)
T 2lmi_A           88 EIN   90 (107)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            874

>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=99.46  E-value=2.6e-14  Score=126.65  Aligned_cols=77  Identities=25%  Similarity=0.408  Sum_probs=70.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~  328 (437)
                      ...++|||+|||..+|+++|+++|++||.|..+++..++.+  ++|||||+|.+.++|.+|++ |+|..+.|  ++|.|.
T Consensus        87 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V~  166 (168)
T 1b7f_A           87 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVR  166 (168)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEEE
Confidence            45689999999999999999999999999999999988744  58999999999999999999 99999977  999998


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      ++
T Consensus       167 ~A  168 (168)
T 1b7f_A          167 LA  168 (168)
T ss_dssp             EC
T ss_pred             eC
Confidence            64

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

Probab=99.46  E-value=8.8e-14  Score=113.96  Aligned_cols=74  Identities=19%  Similarity=0.291  Sum_probs=68.0

Q ss_pred             ccCCcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+ .+|+++|+++|++||.|.+|++.      +|||||+|.+.++|.+|++ |+|..+.|+.|.|.++
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   80 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS   80 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEc
Confidence            34678999999998 99999999999999999999994      5899999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        81 ~~   82 (96)
T 2kvi_A           81 SS   82 (96)
T ss_dssp             EC
T ss_pred             Cc
Confidence            64

>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=99.46  E-value=5.4e-14  Score=114.81  Aligned_cols=78  Identities=23%  Similarity=0.412  Sum_probs=69.8

Q ss_pred             ccCCcEEEEecCCccchHHHHH----HHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~----~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ....++|||+|||.++++++|+    ++|++||.|..|++... ..++|||||+|.+.++|.+|++ |+|..++|+.|.|
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   83 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   83 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEcC-CCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEE
Confidence            3466899999999999999999    99999999999998632 2247899999999999999999 9999999999999


Q ss_pred             eccC
Q 013726          328 LPSK  331 (437)
Q Consensus       328 ~~s~  331 (437)
                      .+++
T Consensus        84 ~~a~   87 (97)
T 1nu4_A           84 QYAK   87 (97)
T ss_dssp             EECS
T ss_pred             EEcc
Confidence            9986

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

Probab=99.46  E-value=7.3e-14  Score=113.92  Aligned_cols=76  Identities=20%  Similarity=0.261  Sum_probs=67.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|..+   .....++|||||+|.+.++|.+|+. |+|..++|+.|.|.++.
T Consensus        13 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   89 (96)
T 1fjc_A           13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe---CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            3456899999999999999999999999988776   2333468999999999999999999 99999999999999975

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

Probab=99.45  E-value=4.8e-14  Score=114.93  Aligned_cols=76  Identities=17%  Similarity=0.265  Sum_probs=62.9

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhc-Cceec-c-Cchhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHT-EFYIL-H-NPSIAW  426 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~-~~~~~-~-~~~i~~  426 (437)
                      +++|||+|||+++|+++|+++|++| | +|.+|+|++|  ++.++|||||+|.+.++|.+|+... +.+.+ + ...|.|
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~-G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~   79 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSH-GVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHY   79 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHH-TCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEEC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHh-CCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEE
Confidence            3799999999999999999999996 9 8999999987  5789999999999999999998754 44322 2 224667


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      |.+
T Consensus        80 a~~   82 (91)
T 2lxi_A           80 SDP   82 (91)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            654

>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=99.45  E-value=9.4e-14  Score=122.85  Aligned_cols=76  Identities=28%  Similarity=0.341  Sum_probs=71.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+++|+++|+++|++||.|.+|++..+   ++|||||+|.+.++|.+|+. |+|..++|++|.|.+++
T Consensus        70 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A           70 CPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN---PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             STTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS---SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC---CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            446789999999999999999999999999999999877   46999999999999999999 99999999999999975

>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=99.45  E-value=1.6e-13  Score=114.99  Aligned_cols=72  Identities=22%  Similarity=0.475  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||++ +|+++|+++|++||.|..|++      ++|||||+|.+.++|.+|++ |++..++|+.|.|.+++.
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~~   99 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE   99 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESCC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            4589999999999 999999999999999999999      35899999999999999998 999999999999999863

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

Probab=99.45  E-value=1.2e-13  Score=120.06  Aligned_cols=76  Identities=24%  Similarity=0.319  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCccchHHHHH----HHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLA----ALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~----~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ..++|||+|||+.+++++|+    ++|++||.|.+|.+..+ ..++|||||+|.+.++|.+|+. |||..+.|++|.|.+
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~~-~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~  106 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLS-DDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF  106 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECCC-CSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEeccC-CCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEE
Confidence            46799999999999999876    69999999999988643 3468999999999999999998 999999999999999


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus       107 a~  108 (127)
T 2a3j_A          107 SE  108 (127)
T ss_dssp             CC
T ss_pred             cc
Confidence            86

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

Probab=99.45  E-value=9.2e-14  Score=126.61  Aligned_cols=80  Identities=18%  Similarity=0.306  Sum_probs=73.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||..+|+++|+++|++||.|..|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus       111 ~~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  190 (198)
T 2yh0_A          111 PDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR  190 (198)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            356789999999999999999999999999999999988644  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus       191 a~~  193 (198)
T 2yh0_A          191 ASV  193 (198)
T ss_dssp             SCC
T ss_pred             CCC
Confidence            863

>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=99.45  E-value=2.2e-13  Score=114.75  Aligned_cols=77  Identities=25%  Similarity=0.314  Sum_probs=68.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCe----eEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I----~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ...++|||+|||+++|+++|+++|+.||.|    ..+++.  ...++|||||+|.+.++|.+|++ |+|..++|+.|.|.
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~  100 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMM--TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIE  100 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEE--CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcC--CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            456899999999999999999999999998    555555  33468999999999999999999 99999999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      ++..
T Consensus       101 ~a~~  104 (115)
T 2cpx_A          101 FGKN  104 (115)
T ss_dssp             ECCC
T ss_pred             EccC
Confidence            9864

>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=99.45  E-value=2.4e-13  Score=122.42  Aligned_cols=79  Identities=18%  Similarity=0.275  Sum_probs=72.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+.+|+++|+++|++||.|..|.++.++.+  ++|||||+|.+.++|.+|+. |+|..|.|+.|.|.++
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  149 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  149 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            45678999999999999999999999999999999988755  48999999999999999999 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       150 ~~  151 (165)
T 1rk8_A          150 FV  151 (165)
T ss_dssp             EE
T ss_pred             cC
Confidence            64

>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=99.44  E-value=1.3e-13  Score=111.20  Aligned_cols=73  Identities=16%  Similarity=0.168  Sum_probs=67.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||+++++++|+++|++| .|.+|++.    .++|||||+|.+.++|.+|++ |+|..++|++|.|.++..
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   77 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEe----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCC
Confidence            45889999999999999999999999 99999884    457999999999999999999 999999999999999754

>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=99.44  E-value=3.4e-14  Score=125.42  Aligned_cols=77  Identities=26%  Similarity=0.371  Sum_probs=69.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeee--eEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYP--VRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~--L~V~  328 (437)
                      ...++|||+|||..+++++|+++|++||.|..+++..++.+  ++|||||+|.+.++|.+|++ |+|..+.|+.  |.|.
T Consensus        86 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~i~v~  165 (167)
T 1fxl_A           86 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVK  165 (167)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCccceEEE
Confidence            45688999999999999999999999999999999988744  48999999999999999999 9999999975  7776


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      ++
T Consensus       166 ~A  167 (167)
T 1fxl_A          166 FA  167 (167)
T ss_dssp             EC
T ss_pred             eC
Confidence            53

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

Probab=99.44  E-value=2.6e-13  Score=114.74  Aligned_cols=70  Identities=13%  Similarity=0.116  Sum_probs=61.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      +.++|||+|||+++|+++|+++|++| |.|.+|+|++|  +++++|||||+|.+.++|++|+...+...+...
T Consensus         5 p~~~lfV~nL~~~~te~~L~~~F~~~-G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr   76 (110)
T 3s8s_A            5 PLKEVTFARLNDNVRETFLKDMCRKY-GEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGN   76 (110)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTT-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhc-CCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCe
Confidence            45799999999999999999999995 99999999988  578999999999999999999987666544443

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

Probab=99.44  E-value=7.1e-13  Score=108.58  Aligned_cols=74  Identities=23%  Similarity=0.302  Sum_probs=67.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+||  ++|+++|+++|++||.|.+|++.    .++|||||+|.+.++|.+|+. |+|..++|+.|.|.++.
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~   85 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   85 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCS
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            345689999996  89999999999999999999984    346899999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        86 ~   86 (97)
T 1x5p_A           86 K   86 (97)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.44  E-value=8.2e-14  Score=121.07  Aligned_cols=78  Identities=23%  Similarity=0.323  Sum_probs=69.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCee--EEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV--DCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~--~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|+.| .|.  +|+++.|+.. ++|||||+|.+.++|.+|+++++..|+|+.|.|.+
T Consensus        39 ~~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR~I~V~~  117 (126)
T 2hgm_A           39 SANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHRYIEVFK  117 (126)
T ss_dssp             SSSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTBCCCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCEEEEEEE
Confidence            3456889999999999999999999999 676  8999887764 69999999999999999999888999999999987


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      +.
T Consensus       118 a~  119 (126)
T 2hgm_A          118 SS  119 (126)
T ss_dssp             EC
T ss_pred             CC
Confidence            64

>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=99.43  E-value=1.3e-13  Score=111.96  Aligned_cols=74  Identities=22%  Similarity=0.260  Sum_probs=66.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCC-eeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcC-eEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQ-VVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAG-TMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~-I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng-~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||. |..+.+.     ++|||||+|.+.++|.+|++ ||| ..++|+.|.|.++
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A            6 SGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   80 (93)
T ss_dssp             CCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEc
Confidence            35689999999999999999999999999 6666663     35899999999999999999 999 9999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus        81 ~~   82 (93)
T 2cqh_A           81 VS   82 (93)
T ss_dssp             CC
T ss_pred             cC
Confidence            64

>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=99.43  E-value=2e-13  Score=108.96  Aligned_cols=71  Identities=27%  Similarity=0.461  Sum_probs=66.2

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcC----C-------CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGC----G-------QVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFY  323 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~----G-------~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr  323 (437)
                      ..++|||+|||+++|+++|+++|++|    |       .|.++++..+    +|||||+|.+.++|.+|+.|+|..++|+
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~----kg~afV~f~~~~~a~~A~~l~g~~~~g~   80 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD----KNFAFLEFRSVDETTQAMAFDGIIFQGQ   80 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS----SSEEEEEESSHHHHHHHGGGTTCEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC----CcEEEEEcCCHHHHHHHHhcCCCEECCe
Confidence            46899999999999999999999999    8       8999999765    5899999999999999999999999999


Q ss_pred             eeEEec
Q 013726          324 PVRVLP  329 (437)
Q Consensus       324 ~L~V~~  329 (437)
                      .|.|..
T Consensus        81 ~l~V~r   86 (87)
T 2hzc_A           81 SLKIRR   86 (87)
T ss_dssp             ECEEEC
T ss_pred             EEEEeC
Confidence            999974

>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=99.43  E-value=1.6e-13  Score=130.61  Aligned_cols=77  Identities=17%  Similarity=0.276  Sum_probs=71.4

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCC--CeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCG--QVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G--~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ..++|||+|||+++|+++|+++|++||  .|.+|+|+.|+.+  ++|||||+|.+.++|.+||+ ||+..|+|+.|.|.+
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~  146 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTP  146 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEE
Confidence            567999999999999999999999999  9999999999755  58999999999999999999 999999999999998


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      ++
T Consensus       147 a~  148 (229)
T 3q2s_C          147 VN  148 (229)
T ss_dssp             CC
T ss_pred             CC
Confidence            75

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

Probab=99.43  E-value=3.5e-14  Score=117.23  Aligned_cols=64  Identities=20%  Similarity=0.256  Sum_probs=56.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc--eEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE--VYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~--I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      ..+||||+|||+++|+++|+++|++| |.  |.+|++++|  ++.++|||||+|.+.++|.+|+...+.
T Consensus         8 ~m~tlfV~nL~~~~tee~L~~~F~~~-G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng   75 (95)
T 2lkz_A            8 HMDTIILRNIAPHTVVDSIMTALSPY-ASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQS   75 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHSTTT-CCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHS
T ss_pred             ccCEEEEeCCCCcCCHHHHHHHHHhh-CCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcC
Confidence            44799999999999999999999995 95  678999988  578999999999999999888876544

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

Probab=99.43  E-value=7.3e-14  Score=115.34  Aligned_cols=78  Identities=19%  Similarity=0.388  Sum_probs=71.3

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|+. ++..++|+.|.|.++.
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~-~~~~~~g~~l~v~~a~   84 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE-SQINFHGKKLKLGPAI   84 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT-CCCEETTEECEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh-CCCeECCEEEEEEECC
Confidence            345689999999999999999999999999999999998732 58999999999999999999 9999999999998875

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

Probab=99.43  E-value=1.3e-13  Score=120.53  Aligned_cols=115  Identities=12%  Similarity=0.083  Sum_probs=65.4

Q ss_pred             EEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhh
Q 013726          298 FAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFES  376 (437)
Q Consensus       298 faFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~  376 (437)
                      ++|++|.+...+..|+. ++|....|+. ......           +   .......++|||+|||.++|+++|+++|++
T Consensus         6 ~~~~~~~~~~~~~~a~~~~~g~~~~g~~-~~~~~~-----------~---~~~~~~~~~l~V~nLp~~~te~~L~~~F~~   70 (135)
T 2lea_A            6 HHHHHSSGLVPRGSHMASMTGGQQMGRG-SMSYGR-----------P---PPDVEGMTSLKVDNLTYRTSPDTLRRVFEK   70 (135)
T ss_dssp             ------------------------------CCSCC-----------S---CSSGGGCCCEEEECCCSSCHHHHHHHHHGG
T ss_pred             cccccccCCCchhhhhhhccCCCCCCCC-CCCcCC-----------C---CCCCCCCCEEEEeCCCCCCCHHHHHHHHHh
Confidence            67888888899999998 8877666553 111111           0   011234589999999999999999999999


Q ss_pred             cCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          377 VCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       377 f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      | |.|..|+++.+  .+.++|||||+|.+.++|.+|+...+...+...  .|.|+.
T Consensus        71 ~-G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  125 (135)
T 2lea_A           71 Y-GRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  125 (135)
T ss_dssp             G-SCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECC
T ss_pred             c-CCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            5 99999999987  577999999999999999999986554433332  455554

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

Probab=99.43  E-value=1.9e-13  Score=111.42  Aligned_cols=76  Identities=24%  Similarity=0.383  Sum_probs=69.0

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEE-EeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCR-ICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vr-i~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|+ ++.++.+  |.|||+|.+.++|.+|+. |+|..++|+.|.|.++..
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~--~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~   91 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSET--AVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIPD   91 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSS--EEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECCC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCC--CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCc
Confidence            468899999999999999999999999999995 7777653  449999999999999999 999999999999999863

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.43  E-value=1.6e-13  Score=118.65  Aligned_cols=79  Identities=22%  Similarity=0.191  Sum_probs=70.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCe----eEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQV----VDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV  327 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I----~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V  327 (437)
                      ....++|||+|||+++|+++|+++|++||.|    ..|+++.++.. ++|||||+|.+.++|.+|++.++..|+|+.|.|
T Consensus        20 ~~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~gR~i~V   99 (123)
T 2dha_A           20 KENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGKRYIEL   99 (123)
T ss_dssp             CCSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSSCEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCCeEEEE
Confidence            3567899999999999999999999999975    68999887543 589999999999999999999999999999999


Q ss_pred             eccC
Q 013726          328 LPSK  331 (437)
Q Consensus       328 ~~s~  331 (437)
                      ..+.
T Consensus       100 ~~a~  103 (123)
T 2dha_A          100 FRST  103 (123)
T ss_dssp             EEEC
T ss_pred             EECC
Confidence            8764

>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=99.43  E-value=2.8e-13  Score=108.45  Aligned_cols=67  Identities=18%  Similarity=0.257  Sum_probs=59.9

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ...++|||+|||+++|+++|+++|++| |.|.+|+++.+  ++.++|||||+|.+.++|.+|+...+..+
T Consensus         9 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~   77 (87)
T 3s7r_A            9 EDAGKMFVGGLSWDTSKKDLKDYFTKF-GEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKEHRL   77 (87)
T ss_dssp             SCTTEEEEECCCTTCCHHHHHHHHTTT-SCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCCCEE
Confidence            345899999999999999999999995 99999999987  57799999999999999999998765543

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.42  E-value=4.8e-13  Score=110.27  Aligned_cols=77  Identities=27%  Similarity=0.373  Sum_probs=68.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ....++|||+|||+++|+++|+++|+.|+   .|+++.++.+  ++|||||+|.+.++|.+|++ |++..++|+.|.|.+
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   88 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGSV---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDW   88 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTCS---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCCe---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            45678999999999999999999999774   5777776644  58999999999999999999 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        89 a~~   91 (102)
T 2fc8_A           89 AKP   91 (102)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            864

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

Probab=99.14  E-value=1.4e-14  Score=122.76  Aligned_cols=80  Identities=23%  Similarity=0.338  Sum_probs=73.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeE--------EEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD--------CRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLG  321 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~--------vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~  321 (437)
                      ....++|||+|||.++|+++|+++|++||.|..        |++..++.+  ++|||||+|.+.++|.+|++ |+|..++
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            456789999999999999999999999999998        888887654  58999999999999999999 9999999


Q ss_pred             eeeeEEeccCC
Q 013726          322 FYPVRVLPSKT  332 (437)
Q Consensus       322 Gr~L~V~~s~~  332 (437)
                      |+.|.|.+++.
T Consensus        84 g~~l~V~~a~~   94 (116)
T 2lcw_A           84 GNPIKVSFATR   94 (116)
Confidence            99999999863

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

Probab=99.42  E-value=3.7e-13  Score=106.67  Aligned_cols=67  Identities=12%  Similarity=0.149  Sum_probs=60.3

Q ss_pred             cEEEEEcCCccC------CHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKV------TQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~v------teedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++|||+|||..+      |+++|+++|++| |.|.++++++++|+++|||||+|.+.++|.+|+...+...+..
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~-G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g   74 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKF-GKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDK   74 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTT-CCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSS
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhc-CCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCC
Confidence            699999999999      789999999995 9999999997788999999999999999999998777655544

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

Probab=99.42  E-value=4e-14  Score=116.71  Aligned_cols=77  Identities=14%  Similarity=0.204  Sum_probs=68.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC--CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN--SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~--~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|++||.|.. .++.+..  .++|||||+|.+.++|.+|++|+|..+.|+.|.|.+++
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a~   93 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   93 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGCCBTTBCCEEECCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCCcEECCcEEEEEEcC
Confidence            35689999999999999999999999998877 4444433  36899999999999999999999999999999999986

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.41  E-value=5.2e-14  Score=124.29  Aligned_cols=79  Identities=20%  Similarity=0.199  Sum_probs=70.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ....++|||+|||+++|+++|+++|++|| |.+|+++.++.. ++|||||+|.+.++|.+||++++..++|+.|.|..+.
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR~i~V~~a~  121 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHRYIELFLNS  121 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSSSCCCCCEECC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEECCEEEEEEECC
Confidence            44668999999999999999999999999 679999888753 6999999999999999999999999999999998875


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus       122 ~  122 (139)
T 2hgn_A          122 T  122 (139)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.41  E-value=5.4e-13  Score=122.10  Aligned_cols=79  Identities=20%  Similarity=0.257  Sum_probs=73.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+.+++++|+++|++||.|..|.+..++.. ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++.
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~  165 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  165 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            45689999999999999999999999999999999988732 58999999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus       166 ~  166 (177)
T 2f3j_A          166 S  166 (177)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.41  E-value=1.8e-12  Score=118.74  Aligned_cols=76  Identities=32%  Similarity=0.317  Sum_probs=70.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee-eeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG-FYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~-Gr~L~V~~s  330 (437)
                      ...++|||+|||..+|+++|+++|+.|| .|.+|++..+.   +|||||+|.+.++|.+|+. |+|..++ |+.|.|.++
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  194 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD---RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS  194 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTT---SSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCEEEE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCC---CcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEEEee
Confidence            3578999999999999999999999999 99999997643   5899999999999999999 9999999 999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus       195 ~~  196 (198)
T 1qm9_A          195 KS  196 (198)
T ss_dssp             CC
T ss_pred             cc
Confidence            63

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.41  E-value=2.2e-13  Score=116.05  Aligned_cols=76  Identities=18%  Similarity=0.182  Sum_probs=67.9

Q ss_pred             ccCCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hc--CeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LA--GTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-ln--g~~l~Gr~L~V~  328 (437)
                      ....++|||+|||++ +|+++|+++|++||.|.+|++.+.    +|||||+|.+.++|.+|++ |+  +..+.|++|.|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~   97 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM----KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   97 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT----TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            345789999999998 999999999999999999999743    5899999999999999998 75  466999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      +++.
T Consensus        98 ~a~~  101 (112)
T 1x4f_A           98 LSEK  101 (112)
T ss_dssp             EECS
T ss_pred             ECcc
Confidence            9863

>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=99.41  E-value=7e-13  Score=107.62  Aligned_cols=73  Identities=27%  Similarity=0.411  Sum_probs=61.6

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeE--eeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTM--LGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~--l~Gr~L~V~~s  330 (437)
                      +....+|||+|||+++|+++|+++|++||.|.+|+++.+   ++|||||+|.+.++|.+   +++..  +.|+.|.|.++
T Consensus         8 ~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~---srGfaFV~F~~~~~A~~---~~~~~~~~~g~~v~v~~a   81 (89)
T 3d2w_A            8 HHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP---FRAFAFVTFADDKVAQS---LCGEDLIIKGISVHISNA   81 (89)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS---CCSEEEEEESCHHHHHH---HTTCEEEETTEEEEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC---CCCEEEEEECCHHHHHH---HcCCCcccCCEEEEEEEc
Confidence            456789999999999999999999999999999999875   67999999999999984   44544  45889999887


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        82 ~   82 (89)
T 3d2w_A           82 E   82 (89)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.40  E-value=2.4e-13  Score=119.26  Aligned_cols=78  Identities=23%  Similarity=0.270  Sum_probs=68.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEE--------EEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeee
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC--------RICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYP  324 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~v--------ri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~  324 (437)
                      ...++|||+|||+++|+++|+++|+.||.|..|        ++.. ...++|||||+|.+.++|.+|+. |||..+.|+.
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~-~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~  121 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMK-EGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKP  121 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEE-ETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEecc-CCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcE
Confidence            356899999999999999999999999998764        3322 23468999999999999999999 9999999999


Q ss_pred             eEEeccCC
Q 013726          325 VRVLPSKT  332 (437)
Q Consensus       325 L~V~~s~~  332 (437)
                      |.|.+++.
T Consensus       122 l~V~~a~~  129 (143)
T 3egn_A          122 MVVQFARS  129 (143)
T ss_dssp             CEEEECCC
T ss_pred             EEEEECCC
Confidence            99999864

>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=99.40  E-value=5.2e-13  Score=120.23  Aligned_cols=127  Identities=13%  Similarity=0.086  Sum_probs=64.3

Q ss_pred             EEEcCHHHHHHHHH-hcCeEee--eeeeEEeccCCCCCCCCCCC---CC---CChhhhcccccEEEEEcCCccCCHHHHH
Q 013726          301 IEFTDEEGARAALN-LAGTMLG--FYPVRVLPSKTAIAPVNPTF---LP---RTEDEREMCARTIYCTNIDKKVTQADVK  371 (437)
Q Consensus       301 VeF~~~e~A~~Al~-lng~~l~--Gr~L~V~~s~~~~~~~~~~~---~p---r~~~~~~~~~~tL~V~NLp~~vteedLr  371 (437)
                      .+|.+.++|..|+. +++....  |+.+....+.......-...   .+   ..........++|||+|||..+|+++|+
T Consensus        11 ee~e~~~d~e~~~~~~~~~~~~~kgr~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~L~   90 (165)
T 1rk8_A           11 EEFEVDEDGDQGIVRLKEKAKHRKGRGFGSDSNTREAIHSYERVRNEDDDELEPGPQRSVEGWILFVTSIHEEAQEDEIQ   90 (165)
T ss_dssp             -------------------------------------------------------CCCCC-CEEEEEESCCTTCCHHHHH
T ss_pred             hhhhccccccccchhhccccccccCCCCCCCccccccccCccccccCCCCCCCCCCCCCCCCCEEEEeCCCCCCCHHHHH
Confidence            68899999999988 8876654  55555544321110000000   00   0001113346799999999999999999


Q ss_pred             HHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          372 LFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       372 elF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ++|++| |.|..|.|+.+  ++.++|||||+|.+.++|.+|+...+...+...  .|.|+.
T Consensus        91 ~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  150 (165)
T 1rk8_A           91 EKFCDY-GEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWCF  150 (165)
T ss_dssp             HHHGGG-SCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEESE
T ss_pred             HHhhcC-CCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            999995 99999999987  677999999999999999999986555433332  355553

>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=99.40  E-value=2.9e-13  Score=114.95  Aligned_cols=72  Identities=21%  Similarity=0.211  Sum_probs=65.0

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeee-----eEEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYP-----VRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~-----L~V~  328 (437)
                      ..++|||+|||+++|+++|+++|++||.|..|.++.+     |||||+|.+.++|.+|++ |||..|+|+.     |.|.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~v~   89 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVK   89 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCEEE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-----CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEEec
Confidence            4578999999999999999999999999999999866     899999999999999999 9999999998     6666


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      ...
T Consensus        90 ~~~   92 (115)
T 3beg_B           90 VDG   92 (115)
T ss_dssp             ECC
T ss_pred             cCC
Confidence            544

>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=99.40  E-value=4.3e-13  Score=110.88  Aligned_cols=78  Identities=18%  Similarity=0.203  Sum_probs=64.9

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+++.+  ++.++|||||+|.+.++|.+|+...+.+..+...+.|+.
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~~~~g~~l~v~~a~   91 (103)
T 2cqg_A           13 QKTSDLIVLGLPWKTTEQDLKEYFSTF-GEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCDCKLPN   91 (103)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGG-SCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSCEEETTEEEEEECCC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhc-CCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHHcCCeeCCeEEEEEecC
Confidence            345899999999999999999999995 99999999987  578999999999999999999986443333333566654


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        92 ~   92 (103)
T 2cqg_A           92 S   92 (103)
T ss_dssp             T
T ss_pred             C
Confidence            3

>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=99.39  E-value=9.3e-13  Score=109.07  Aligned_cols=78  Identities=15%  Similarity=0.202  Sum_probs=64.9

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCcee-c----cCchh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYI-L----HNPSI  424 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~-~----~~~~i  424 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+|+++ .+.++|||||+|.+.++|.+|+...+... .    +...+
T Consensus        13 ~~~~~l~v~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V   91 (105)
T 2dnh_A           13 GRDRKLFVGMLNKQQSEEDVLRLFQPF-GVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVV   91 (105)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHTTT-SCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEE
Confidence            456899999999999999999999995 99999999988 67799999999999999999987555432 2    23356


Q ss_pred             hhhhh
Q 013726          425 AWLEE  429 (437)
Q Consensus       425 ~~~~~  429 (437)
                      .||..
T Consensus        92 ~~a~~   96 (105)
T 2dnh_A           92 KFADT   96 (105)
T ss_dssp             EESCS
T ss_pred             EECcc
Confidence            66653

>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=99.39  E-value=1.1e-12  Score=136.36  Aligned_cols=79  Identities=22%  Similarity=0.256  Sum_probs=73.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+.+|+++|.++|+.||.|..|.|+.++.+  ++|||||+|.+.++|.+||. |||..|+|+.|.|.++
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a  179 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVE  179 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            45589999999999999999999999999999999988654  58999999999999999998 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       180 ~~  181 (437)
T 3pgw_S          180 RG  181 (437)
T ss_pred             CC
Confidence            64

>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=99.39  E-value=1.1e-12  Score=104.74  Aligned_cols=76  Identities=16%  Similarity=0.251  Sum_probs=62.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+++++++  .+.++|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus         5 ~~~~l~v~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (87)
T 3bs9_A            5 SHFHVFVGDLSPEITTAAIAAAFAPF-GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   83 (87)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhc-CCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEec
Confidence            35799999999999999999999995 99999999987  677999999999999999999986554433332  35554


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        84 ~   84 (87)
T 3bs9_A           84 T   84 (87)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.39  E-value=1.1e-12  Score=103.73  Aligned_cols=74  Identities=14%  Similarity=0.178  Sum_probs=62.0

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .+|||+|||.++|+++|+++|++| |.|.+++++++  .+.++|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDF-PSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTS-TTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            689999999999999999999995 99999999987  577999999999999999999886554433332  355554

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

Probab=99.39  E-value=8.5e-13  Score=109.07  Aligned_cols=79  Identities=14%  Similarity=0.217  Sum_probs=65.5

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ....++|||+|||.++|+++|+++|++| |.|..|+++.+.+.++|||||+|.+.++|.+|+...+...++..  .+.|+
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2d9p_A           12 RYQVVNLYVKNLDDGIDDERLRKAFSPF-GTITSAKVMMEGGRSKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALA   90 (103)
T ss_dssp             CSSCCCEEEECCCTTCCHHHHHHTTTTT-SCEEEEEEEECSSSEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEcCCCCcCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            3456899999999999999999999995 99999999998778999999999999999999986554433332  35555


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        91 ~~   92 (103)
T 2d9p_A           91 QR   92 (103)
T ss_dssp             SS
T ss_pred             cc
Confidence            43

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

Probab=99.39  E-value=1e-12  Score=106.06  Aligned_cols=77  Identities=16%  Similarity=0.047  Sum_probs=64.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC--chhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN--PSIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~--~~i~~~~~  429 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..+++.++.+.++|||||+|.+.++|.+|+...+...+..  ..+.|+..
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~f~~~-G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~~   85 (92)
T 2dgv_A            7 GACQIFVRNLPFDFTWKMLKDKFNEC-GHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDRN   85 (92)
T ss_dssp             SCCEEEECSCCTTCCHHHHHHHHHTT-SCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcCC
Confidence            45899999999999999999999995 9999999999888899999999999999999988655433322  24555543

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

Probab=99.38  E-value=1.3e-12  Score=106.14  Aligned_cols=77  Identities=16%  Similarity=0.263  Sum_probs=64.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...++..  .|.|+
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A            4 GSSGLYVGSLHFNITEDMLRGIFEPF-GKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTT-SCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc-CCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            45899999999999999999999995 99999999988  577999999999999999999885554433332  45665


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      .+
T Consensus        83 ~~   84 (95)
T 2dnz_A           83 TE   84 (95)
T ss_dssp             SC
T ss_pred             cc
Confidence            43

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

Probab=99.38  E-value=3.4e-13  Score=107.47  Aligned_cols=68  Identities=13%  Similarity=0.184  Sum_probs=59.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..++|||+|||.++++++|+++|++| |.|.+++++.+  .+.++|||||+|.+.++|.+|+...+...++
T Consensus         4 ~~~~l~v~nlp~~~t~~~l~~~f~~~-G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~   73 (85)
T 1x4e_A            4 GSSGLYIRGLQPGTTDQDLVKLCQPY-GKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQ   73 (85)
T ss_dssp             CCCEEEEESCCTTCCHHHHHTTSTTT-SCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcCCeEe
Confidence            45899999999999999999999995 99999999987  5779999999999999999998866554333

>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=99.38  E-value=5.1e-13  Score=114.07  Aligned_cols=74  Identities=16%  Similarity=0.232  Sum_probs=67.2

Q ss_pred             cCCcEEEE--ecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe-----eeeee
Q 013726          254 IIRRTVYV--SDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML-----GFYPV  325 (437)
Q Consensus       254 ~~~rtLfV--gNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l-----~Gr~L  325 (437)
                      ...++|||  +||++++|+++|+++|++||.|.+|.+..    ++|||||+|.+.++|.+|++ |||..+     .|++|
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~----~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l   98 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITL   98 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT----TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEEC
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEE
Confidence            45688999  67999999999999999999999998864    36899999999999999999 999998     79999


Q ss_pred             EEeccC
Q 013726          326 RVLPSK  331 (437)
Q Consensus       326 ~V~~s~  331 (437)
                      .|.++.
T Consensus        99 ~v~~a~  104 (114)
T 2cq2_A           99 YLNFVE  104 (114)
T ss_dssp             EEEEES
T ss_pred             EEEecc
Confidence            999875

>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=99.38  E-value=2e-12  Score=122.01  Aligned_cols=76  Identities=32%  Similarity=0.308  Sum_probs=69.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCC-CeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee-eeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCG-QVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG-FYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G-~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~-Gr~L~V~~s  330 (437)
                      ...++|||+|||..+|+++|+++|++|| .|..|++..+   ++|||||+|.+.++|.+|++ |+|..++ |+.|.|.++
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~---~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v~~a  225 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK---DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS  225 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS---STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEEC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC---CCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEEEEe
Confidence            4578999999999999999999999999 9999999654   25899999999999999999 9999999 999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      +.
T Consensus       226 ~~  227 (229)
T 2adc_A          226 KS  227 (229)
T ss_dssp             SS
T ss_pred             cC
Confidence            64

>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=99.38  E-value=1.6e-12  Score=107.46  Aligned_cols=78  Identities=12%  Similarity=0.181  Sum_probs=64.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+|+.+.+.++|||||+|.+.++|.+|+...+...+...  .+.|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           13 STPKRLHVSNIPFRFRDPDLRQMFGQF-GKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGT-SCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            356899999999999999999999995 99999999999767999999999999999999986554333332  355554


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        92 ~   92 (103)
T 2cq3_A           92 A   92 (103)
T ss_dssp             S
T ss_pred             c
Confidence            3

>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=99.38  E-value=1.3e-12  Score=107.12  Aligned_cols=76  Identities=13%  Similarity=0.238  Sum_probs=64.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...++..  .+.|+
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   85 (99)
T 1whw_A            7 GSGRLFVRNLSYTSSEEDLEKLFSAY-GPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            45899999999999999999999995 99999999988  567999999999999999999977666544443  34454


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        86 ~   86 (99)
T 1whw_A           86 T   86 (99)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.38  E-value=1.3e-12  Score=106.15  Aligned_cols=75  Identities=16%  Similarity=0.179  Sum_probs=62.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||..+++++|+++|++| |.|.+|+++++ .+.++|||||+|.+.++|.+|+...+...++..  .+.|+
T Consensus        15 ~~~~l~v~nlp~~~~~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (95)
T 2ywk_A           15 ADRTVFVGNLEARVREEILYELFLQA-GPLTKVTICKDREGKPKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGP   92 (95)
T ss_dssp             GGGEEEEECCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTSCEEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc-CCEEEEEEEECCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEc
Confidence            45899999999999999999999995 99999999987 567999999999999999999986554433332  34444

>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=99.38  E-value=8.8e-13  Score=104.78  Aligned_cols=69  Identities=17%  Similarity=0.266  Sum_probs=59.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++++++|+++|++| |.|..+.++++  .+.++|||||+|.+.++|.+|+...+...++.
T Consensus         6 ~~~~l~V~nl~~~~~~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   76 (85)
T 3mdf_A            6 TKRVLYVGGLAEEVDDKVLHAAFIPF-GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG   76 (85)
T ss_dssp             CSSEEEEECCCTTCCHHHHHHHHGGG-SCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcc-CCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            45899999999999999999999995 99999999887  56699999999999999999986655544433

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

Probab=99.37  E-value=1.4e-12  Score=105.79  Aligned_cols=76  Identities=16%  Similarity=0.090  Sum_probs=63.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.++.+  .+.++|||||+|.+.++|.+|+...+...+...  .+.|
T Consensus        13 ~~~~~l~v~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (95)
T 2cqc_A           13 DPNCCLGVFGLSLYTTERDLREVFSKY-GPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSG   91 (95)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTT-SCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc-CCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            456899999999999999999999995 99999999987  467999999999999999999987665444333  3444


Q ss_pred             h
Q 013726          427 L  427 (437)
Q Consensus       427 ~  427 (437)
                      +
T Consensus        92 a   92 (95)
T 2cqc_A           92 P   92 (95)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.37  E-value=6.1e-13  Score=110.92  Aligned_cols=78  Identities=12%  Similarity=0.164  Sum_probs=66.8

Q ss_pred             cccEEEEEcCCccC------CHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC---c
Q 013726          352 CARTIYCTNIDKKV------TQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN---P  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~v------teedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~---~  422 (437)
                      ..++|||+|||..+      |+++|+++|++| |.|.+|.+++.+|.++|||||+|.+.++|.+|+...++..++.   .
T Consensus        14 ~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~-G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l   92 (105)
T 2nlw_A           14 IDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKF-GKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTF   92 (105)
T ss_dssp             CCSEEEEESCCCCCTTTTTHHHHHHHHHHGGG-SCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEE
T ss_pred             CCCEEEEeCCCcchhhhhHHHHHHHHHHHhcC-CCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceE
Confidence            45899999999999      789999999995 9999999997788999999999999999999999776654443   2


Q ss_pred             hhhhhhhh
Q 013726          423 SIAWLEEF  430 (437)
Q Consensus       423 ~i~~~~~~  430 (437)
                      .+.||.++
T Consensus        93 ~V~~a~~~  100 (105)
T 2nlw_A           93 RVNLFTDF  100 (105)
T ss_dssp             EEECSCCC
T ss_pred             EEEEcchH
Confidence            57777654

>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=99.37  E-value=1.4e-12  Score=107.84  Aligned_cols=78  Identities=17%  Similarity=0.297  Sum_probs=65.3

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||..+|+++|+++|++| |.|.+|+++++.+.++|||||+|.+.++|.+|+...+...+...  .|.|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2cqi_A           13 GQPRTLYVGNLSRDVTEVLILQLFSQI-GPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   91 (103)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHH-SCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHhc-CCEeEEEEEecCCCCCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECC
Confidence            345899999999999999999999996 99999999999777899999999999999999986555443333  355654


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        92 ~   92 (103)
T 2cqi_A           92 T   92 (103)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.37  E-value=2.1e-12  Score=112.77  Aligned_cols=74  Identities=23%  Similarity=0.251  Sum_probs=67.5

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceE-EEEEEcCHHHHHHHHH-hcCeEeee--eeeEEeccCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF-AFIEFTDEEGARAALN-LAGTMLGF--YPVRVLPSKT  332 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~Gf-aFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~s~~  332 (437)
                      -.|||+||++.+|+++|+++|++||.|.+|++..+.   +|| |||+|.+.++|.+|++ |||..+.|  +.|+|.+++.
T Consensus        29 L~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~---~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~  105 (130)
T 3zzy_A           29 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN---NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  105 (130)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET---TEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSC
T ss_pred             EEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC---CCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCC
Confidence            468899999999999999999999999999987643   577 9999999999999999 99999988  8999999874


Q ss_pred             C
Q 013726          333 A  333 (437)
Q Consensus       333 ~  333 (437)
                      .
T Consensus       106 ~  106 (130)
T 3zzy_A          106 T  106 (130)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=99.37  E-value=1.1e-12  Score=110.74  Aligned_cols=77  Identities=16%  Similarity=0.190  Sum_probs=66.1

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+|+++  ++.++|||||+|.+.++|++|+...+..+...+ .|.|+
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~g~~l~V~~a   93 (116)
T 2cqd_A           15 TTFTKIFVGGLPYHTTDASLRKYFEGF-GDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLA   93 (116)
T ss_dssp             CSSSEEEEECCCSSCCHHHHHHHHHTT-SCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCCcCCCEEEEEEEc
Confidence            456899999999999999999999995 99999999987  577999999999999999999988777544443 46666


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        94 ~   94 (116)
T 2cqd_A           94 Y   94 (116)
T ss_dssp             T
T ss_pred             c
Confidence            4

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

Probab=99.37  E-value=5e-13  Score=103.95  Aligned_cols=64  Identities=23%  Similarity=0.240  Sum_probs=56.5

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      +|||+|||.++|+++|+++|++| |.|..++++.+  .+.++|||||+|.+.++|++|+......+.
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~~~   66 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQF-GKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEIN   66 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTT-SCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSCCCSS
T ss_pred             CEEEecCCCCCCHHHHHHHHHhc-CCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCCCEEC
Confidence            58999999999999999999995 99999999987  577999999999999999999885444333

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

Probab=99.37  E-value=2.4e-12  Score=111.48  Aligned_cols=71  Identities=17%  Similarity=0.143  Sum_probs=64.6

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceE-EEEEEcCHHHHHHHHH-hcCeEeee--eeeEEeccCC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF-AFIEFTDEEGARAALN-LAGTMLGF--YPVRVLPSKT  332 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~Gf-aFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~s~~  332 (437)
                      .|||+||++.+|+++|+++|++||.|.+|++...    .|| |||+|.+.++|.+|++ |||..|.|  +.|+|.+++.
T Consensus        27 ~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~~----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~  101 (124)
T 2e5i_A           27 LLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFKR----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARP  101 (124)
T ss_dssp             EEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEES----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSC
T ss_pred             EEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecC
Confidence            4789999999999999999999999999999653    286 9999999999999999 99999987  6899999864

>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=99.37  E-value=5.3e-13  Score=107.96  Aligned_cols=67  Identities=19%  Similarity=0.220  Sum_probs=56.8

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCC--ceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCG--EVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G--~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .+|||+|||+++|+++|+++|++| |  .|.+++++.+  +|.++|||||+|.+.++|.+|+...+...++.
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~-G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~g   72 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSL-GVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHG   72 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTT-TCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSS
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHh-CCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            589999999999999999999995 9  9999999987  67899999999999999999987666544433

>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=99.36  E-value=6.9e-13  Score=110.05  Aligned_cols=78  Identities=17%  Similarity=0.199  Sum_probs=64.7

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCcee-----ccCch
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYI-----LHNPS  423 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~-----~~~~~  423 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+++++  ++.++|||||+|.+.++|.+|+...+...     .+...
T Consensus        11 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~   89 (106)
T 2dgp_A           11 HDAIKLFIGQIPRNLDEKDLKPLFEEF-GKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQ   89 (106)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHHHH-SCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEE
Confidence            345899999999999999999999996 99999999987  57799999999999999999987655532     23335


Q ss_pred             hhhhhh
Q 013726          424 IAWLEE  429 (437)
Q Consensus       424 i~~~~~  429 (437)
                      +.|+..
T Consensus        90 v~~a~~   95 (106)
T 2dgp_A           90 VKPADS   95 (106)
T ss_dssp             EEECCC
T ss_pred             EEECCc
Confidence            666654

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

Probab=99.36  E-value=1.9e-12  Score=106.18  Aligned_cols=77  Identities=13%  Similarity=0.216  Sum_probs=63.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+......+.+.+ .+.|+.
T Consensus         9 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~~~~~g~~l~V~~a~   87 (99)
T 2dgs_A            9 KSNKIFVGGIPHNCGETELREYFKKF-GVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHFHDIMGKKVEVKRAE   87 (99)
T ss_dssp             SCCEEEEESCCSSCCHHHHHHHHSSS-SCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCCCBSSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            45899999999999999999999995 99999999987  567999999999999999999984433333332 355554


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        88 ~   88 (99)
T 2dgs_A           88 P   88 (99)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.36  E-value=1.8e-12  Score=106.52  Aligned_cols=77  Identities=14%  Similarity=0.246  Sum_probs=64.0

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+++.+ .+.++|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus        15 ~~~~~l~v~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   93 (100)
T 2do4_A           15 LEKHKLFISGLPFSCTKEELEEICKAH-GTVKDLRLVTNRAGKPKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS   93 (100)
T ss_dssp             CCCSCEEEESCCTTCCHHHHHHHHTTT-SCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCeEEEEEEECCCCCEEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            345899999999999999999999995 99999999988 577999999999999999999976555444332  34554


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        94 ~   94 (100)
T 2do4_A           94 N   94 (100)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.36  E-value=1.4e-12  Score=106.51  Aligned_cols=75  Identities=23%  Similarity=0.300  Sum_probs=62.4

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      +++|||+|||.++++++|+++|++| |.|.+|++..+  .+.++|||||+|.+.++|.+|+...+...+...  .+.|+.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNV-GPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhc-CCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            4799999999999999999999995 99999999988  577999999999999999999976555433332  344543

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

Probab=99.36  E-value=1.5e-12  Score=107.49  Aligned_cols=77  Identities=19%  Similarity=0.305  Sum_probs=64.7

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.++++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           13 DDNATIRVTNLSEDTRETDLQELFRPF-GSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTT-CCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC-CCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            356899999999999999999999995 99999999987  678999999999999999999986665444333  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus        92 a~   93 (103)
T 2cq0_A           92 AK   93 (103)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

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

Probab=99.36  E-value=2.1e-12  Score=106.76  Aligned_cols=76  Identities=12%  Similarity=0.112  Sum_probs=64.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhh-cCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCcee-c--cCchhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFES-VCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYI-L--HNPSIAW  426 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~-f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~-~--~~~~i~~  426 (437)
                      ..++|||+|||.++|+++|+++|++ | |.|.+|+|+++ .+.++|||||+|.+.++|.+|+...+... +  +...|.|
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~~-G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~   86 (104)
T 2dhg_A            8 PEYSLFVGDLTPDVDDGMLYEFFVKVY-PSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSV   86 (104)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHHC-TTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCB
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHhC-CCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEE
Confidence            4589999999999999999999999 7 99999999988 67799999999999999999998666533 2  2224666


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus        87 a~   88 (104)
T 2dhg_A           87 AI   88 (104)
T ss_dssp             CC
T ss_pred             cc
Confidence            64

>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=99.36  E-value=2.1e-12  Score=103.44  Aligned_cols=75  Identities=24%  Similarity=0.345  Sum_probs=62.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+++++.+  ++.++|||||+|.+.++|++|+ ..+...++..  .+.|+
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a   82 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGC-GSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPK   82 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGG-CCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEET
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhC-CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEc
Confidence            35899999999999999999999995 99999999987  6779999999999999999999 5444433332  35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        83 ~   83 (89)
T 3ucg_A           83 R   83 (89)
T ss_dssp             T
T ss_pred             c
Confidence            4

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

Probab=99.36  E-value=8.3e-13  Score=111.16  Aligned_cols=72  Identities=21%  Similarity=0.156  Sum_probs=58.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC---cee-ccCchhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE---FYI-LHNPSIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~---~~~-~~~~~i~~~  427 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.+|+|+++    +|||||+|++.++|.+|+...+   ..+ .....+.||
T Consensus        15 ~~~~LfV~nLp~~vte~dL~~lF~~f-G~V~~v~i~~~----kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A   89 (105)
T 1sjq_A           15 PSRVIHIRKLPIDVTEGEVISLGLPF-GKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFS   89 (105)
T ss_dssp             CCCEEEECSCCTTSCHHHHHHHHHHH-CCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEc
Confidence            45899999999999999999999996 99999999986    6799999999999999987432   222 223246666


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        90 ~   90 (105)
T 1sjq_A           90 N   90 (105)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.36  E-value=2.6e-12  Score=108.27  Aligned_cols=77  Identities=17%  Similarity=0.260  Sum_probs=64.4

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..|+|+++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   91 (115)
T 2dgo_A           13 SNHFHVFVGDLSPEITTEDIKAAFAPF-GRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNW   91 (115)
T ss_dssp             TTCEEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            356899999999999999999999995 99999999987  677999999999999999999976555433332  4566


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus        92 a~   93 (115)
T 2dgo_A           92 AT   93 (115)
T ss_dssp             SS
T ss_pred             cc
Confidence            54

>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=99.36  E-value=8.2e-13  Score=106.16  Aligned_cols=73  Identities=23%  Similarity=0.333  Sum_probs=63.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|+++.+   ++|||||+|.+.++|++|+.. ...+.|+.|.|.++.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~---~~g~afV~f~~~~~a~~~~~~-~~~~~g~~l~v~~a~   76 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCGE-DLIIKGISVHISNAE   76 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTTC-EEEETTEEEEEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC---CCCEEEEEECCHHHHHHHhcC-CceeCCEEEEEEecC
Confidence            4689999999999999999999999999999999865   579999999999999865432 345688999999875

>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=99.36  E-value=2.9e-12  Score=118.81  Aligned_cols=120  Identities=15%  Similarity=0.164  Sum_probs=86.6

Q ss_pred             CHHHHHHHHH-h--cCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCce
Q 013726          305 DEEGARAALN-L--AGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEV  381 (437)
Q Consensus       305 ~~e~A~~Al~-l--ng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I  381 (437)
                      +.+.+..|++ .  ....+.+....|.....   .+.+.  ...........++|||+|||+++|+++|+++|++| |.|
T Consensus        63 d~~~I~~Al~~S~~~~lev~ed~~~vrR~~~---~p~p~--~~~~~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~-G~v  136 (193)
T 2voo_A           63 DFNVIVEALSKSKAELMEISEDKTKIRRSPS---KPLPE--VTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDK-GQV  136 (193)
T ss_dssp             CHHHHHHHHHTCSSCCEEECTTSSEEEECTT---SCCCC--CCHHHHHHHHHTEEEEECCCTTCCHHHHHHHHTTS-CCE
T ss_pred             CHHHHHHHHhhcccceEEEecccceEEeccc---CCCcc--cchhhhhccccCEEEecCCCCcCCHHHHHHHHhcC-CCE
Confidence            5677888888 5  55566666666655421   01111  00111123356899999999999999999999995 999


Q ss_pred             EEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhhhh
Q 013726          382 YRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLEEF  430 (437)
Q Consensus       382 ~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~~~  430 (437)
                      .+|+++++ .+.++|||||+|.+.++|.+|+...+..+.+.+ .|.|+.++
T Consensus       137 ~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~~~y  187 (193)
T 2voo_A          137 LNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDDY  187 (193)
T ss_dssp             EEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEETTTC
T ss_pred             EEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEhHHH
Confidence            99999988 667999999999999999999987665444443 46666654

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

Probab=99.36  E-value=1.7e-12  Score=107.65  Aligned_cols=78  Identities=19%  Similarity=0.315  Sum_probs=64.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhc-Cceec-c-Cchh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHT-EFYIL-H-NPSI  424 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~-~~~~~-~-~~~i  424 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..|+++++   .+.++|||||+|.+.++|.+|+... +...+ + ...+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v   91 (107)
T 2cph_A           13 QTTSKILVRNIPFQANQREIRELFSTF-GELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVL   91 (107)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHcc-CCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccCCeECCCEEEE
Confidence            356899999999999999999999995 99999999987   6779999999999999999998865 33322 2 2246


Q ss_pred             hhhhh
Q 013726          425 AWLEE  429 (437)
Q Consensus       425 ~~~~~  429 (437)
                      .|+..
T Consensus        92 ~~a~~   96 (107)
T 2cph_A           92 EWADS   96 (107)
T ss_dssp             EECCC
T ss_pred             EeCCC
Confidence            66643

>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=99.35  E-value=1.2e-12  Score=121.38  Aligned_cols=81  Identities=16%  Similarity=0.250  Sum_probs=72.3

Q ss_pred             hccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       252 ~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .+...++|||+|||+++|+++|+++|++||.|.+|+++.+..+ ++|||||+|.+.++|.+|+.+.+..++|++|.|.++
T Consensus       105 ~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~~~~~~Gr~l~V~~~  184 (193)
T 2voo_A          105 NDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFK  184 (193)
T ss_dssp             HHHHHTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCTTCEETTEECEEEET
T ss_pred             hccccCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhCCCeECCEEEEEEEh
Confidence            3445689999999999999999999999999999999987654 589999999999999999995556999999999987


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus       185 ~~  186 (193)
T 2voo_A          185 DD  186 (193)
T ss_dssp             TT
T ss_pred             HH
Confidence            53

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

Probab=99.35  E-value=1.7e-12  Score=106.33  Aligned_cols=68  Identities=13%  Similarity=0.234  Sum_probs=60.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceE-EEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVY-RLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~-~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..++|||+|||.++|+++|+++|++| |.|. +|+++++  ++.++|||||+|.+.++|++|+...+...+.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~   78 (99)
T 2div_A            8 MAASLWMGDLEPYMDENFISRAFATM-GETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLP   78 (99)
T ss_dssp             SSSEEEECSCCTTCCHHHHHHHHHHT-TCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEES
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHh-CCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccC
Confidence            45899999999999999999999995 9999 9999987  5779999999999999999999876654443

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

Probab=99.35  E-value=7.2e-13  Score=109.61  Aligned_cols=77  Identities=13%  Similarity=0.108  Sum_probs=64.8

Q ss_pred             cccEEEEEcCCc------cCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc---
Q 013726          352 CARTIYCTNIDK------KVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH---  420 (437)
Q Consensus       352 ~~~tL~V~NLp~------~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~---  420 (437)
                      ..++|||+|||.      ++++++|+++|++| |.|.+|+|+++  +++++|||||+|.+.++|.+|+...+...+.   
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~-G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r   83 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKA-GKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKH   83 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTT-SCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSC
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhc-CCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCe
Confidence            358999999999      99999999999995 99999999988  4789999999999999999998765554433   


Q ss_pred             Cchhhhhhh
Q 013726          421 NPSIAWLEE  429 (437)
Q Consensus       421 ~~~i~~~~~  429 (437)
                      ...+.||.+
T Consensus        84 ~l~V~~a~~   92 (100)
T 3ns6_A           84 RLFLYTMKD   92 (100)
T ss_dssp             BCEEEESHH
T ss_pred             EEEEEECch
Confidence            235666654

>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=99.35  E-value=1.8e-12  Score=107.38  Aligned_cols=79  Identities=18%  Similarity=0.183  Sum_probs=65.5

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC--chhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN--PSIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~--~~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+++.+  .+.++|||||+|.+.++|.+|+...+...+..  ..+.|
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   91 (105)
T 1x5u_A           13 NQDATVYVGGLDEKVSEPLLWELFLQA-GPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNK   91 (105)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEE
Confidence            345899999999999999999999995 99999999987  57799999999999999999998655433332  24666


Q ss_pred             hhhh
Q 013726          427 LEEF  430 (437)
Q Consensus       427 ~~~~  430 (437)
                      +..-
T Consensus        92 a~~~   95 (105)
T 1x5u_A           92 ASAH   95 (105)
T ss_dssp             TTTT
T ss_pred             CCCC
Confidence            6543

>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=99.35  E-value=1.8e-12  Score=108.30  Aligned_cols=64  Identities=16%  Similarity=0.273  Sum_probs=58.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+|+++  .+.++|||||+|.+.++|.+|+...+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~   78 (111)
T 1x4h_A           13 TEGKTVFIRNLSFDSEEEALGEVLQQF-GDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAAS   78 (111)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhc
Confidence            346899999999999999999999995 99999999988  56799999999999999999998765

>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=99.35  E-value=7e-12  Score=121.13  Aligned_cols=76  Identities=21%  Similarity=0.310  Sum_probs=70.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee-eeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG-FYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~-Gr~L~V~~s  330 (437)
                      ....++|||+|||..+|+++|+++|++||.|.+|++..++   +|||||+|.+.++|.+|++ |||..++ |+.|+|.++
T Consensus       204 ~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a  280 (282)
T 3pgw_A          204 NPPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR---HDIAFVEFDNEVQAGAARDALQGFKITQNNAMKISFA  280 (282)
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC---CcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEEEEe
Confidence            3456899999999999999999999999999999998665   4899999999999999999 9999999 999999987


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus       281 k  281 (282)
T 3pgw_A          281 K  281 (282)
T ss_pred             c
Confidence            5

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

Probab=99.35  E-value=1.2e-12  Score=106.49  Aligned_cols=77  Identities=18%  Similarity=0.257  Sum_probs=64.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEE-EEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRL-RLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v-~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..+ +++++  .+.++|||||+|.+.++|.+|+...+...++..  .+.|
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   82 (96)
T 1x5t_A            4 GSSGIFIGNLDPEIDEKLLYDTFSAF-GVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   82 (96)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTT-SCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            45899999999999999999999995 999999 99987  677999999999999999999986665444333  3555


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      +..
T Consensus        83 a~~   85 (96)
T 1x5t_A           83 AFK   85 (96)
T ss_dssp             SCC
T ss_pred             ecc
Confidence            543

>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=99.35  E-value=1.4e-12  Score=118.06  Aligned_cols=75  Identities=21%  Similarity=0.181  Sum_probs=68.0

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEeccCCC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLPSKTA  333 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~s~~~  333 (437)
                      .+|||+||++.+|+++|+++|++||.|.+|++..+.  ++|||||+|.+.++|.+|++ |||..|.|  +.|+|.+++..
T Consensus        47 l~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~--~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~  124 (164)
T 1sjr_A           47 LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLT  124 (164)
T ss_dssp             EEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS--SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSS
T ss_pred             EEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC--CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCC
Confidence            569999999999999999999999999999986543  46899999999999999999 99999965  99999998743

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

Probab=99.35  E-value=2.9e-12  Score=106.21  Aligned_cols=77  Identities=17%  Similarity=0.186  Sum_probs=63.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC--chhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN--PSIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~--~~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|.+|.++.+  ++.++|||||+|.+.++|.+|+...+...+..  ..+.|
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   99 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEY-GEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   99 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcc-CCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEe
Confidence            345899999999999999999999995 99999999987  57799999999999999999988544433222  24555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      |.
T Consensus       100 a~  101 (106)
T 1p27_B          100 CF  101 (106)
T ss_dssp             SE
T ss_pred             ec
Confidence            54

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

Probab=99.35  E-value=1.7e-12  Score=106.86  Aligned_cols=77  Identities=9%  Similarity=0.178  Sum_probs=63.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|+
T Consensus        11 ~~~~l~v~nLp~~~t~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   89 (102)
T 1x5s_A           11 DEGKLFVGGLSFDTNEQSLEQVFSKY-GQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   89 (102)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHH-SCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc-CCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            45899999999999999999999996 99999999987  567999999999999999999866554333322  45565


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        90 ~~   91 (102)
T 1x5s_A           90 GK   91 (102)
T ss_dssp             EC
T ss_pred             CC
Confidence            43

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

Probab=99.34  E-value=1.9e-12  Score=104.84  Aligned_cols=69  Identities=20%  Similarity=0.301  Sum_probs=60.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++++++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...+..
T Consensus        15 ~~~~l~V~nlp~~~t~~~l~~~f~~~-G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g   85 (94)
T 2e5h_A           15 SKSTVYVSNLPFSLTNNDLYRIFSKY-GKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINNKQLFG   85 (94)
T ss_dssp             CTTSEEEESCCTTSCHHHHHHHTTTT-SCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTTEEETT
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc-CCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCCCeeCC
Confidence            45899999999999999999999995 99999999987  46799999999999999999997766654444

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

Probab=99.34  E-value=1.8e-12  Score=105.94  Aligned_cols=76  Identities=14%  Similarity=0.166  Sum_probs=63.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC---C--CcceEEEEEeCCHHHHHHHHhhcCceeccCc--hh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY---H--HSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SI  424 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~---g--~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i  424 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|++..+.   |  .++|||||+|.+.++|.+|+...+...+...  .+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V   82 (98)
T 2cpf_A            4 GSSGLFIKNLNFSTTEETLKGVFSKV-GAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEV   82 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEE
Confidence            45899999999999999999999995 999999999873   3  6899999999999999999987655444333  35


Q ss_pred             hhhh
Q 013726          425 AWLE  428 (437)
Q Consensus       425 ~~~~  428 (437)
                      .|+.
T Consensus        83 ~~a~   86 (98)
T 2cpf_A           83 RISE   86 (98)
T ss_dssp             ECSS
T ss_pred             EEcc
Confidence            5554

>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=99.34  E-value=2.3e-12  Score=107.16  Aligned_cols=69  Identities=19%  Similarity=0.159  Sum_probs=59.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE-EEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR-LRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~-v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.. |+|+.+ +++++|||||+|.+.++|.+|+......+.+.
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~v~~~v~i~~~~~g~~~G~afV~F~~~~~a~~A~~~~~~~~~gr   84 (104)
T 1wg5_A           14 NDGFVRLRGLPFGCSKEEIVQFFSGL-EIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHR   84 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTC-CEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCcceeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCcchhCCc
Confidence            45899999999999999999999995 99987 888887 67899999999999999999998844444333

>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=99.34  E-value=2.8e-12  Score=106.51  Aligned_cols=70  Identities=19%  Similarity=0.156  Sum_probs=61.5

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ...++|||+|||..+|+++|+++|++| |.|.+|.++.+ .+.++|||||+|.+.++|.+|+...+...++.
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 ETGGKLLVSNLDFGVSDADIQELFAEF-GTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDG   97 (107)
T ss_dssp             CCSEEEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEeCC
Confidence            356899999999999999999999995 99999999988 67799999999999999999998655544443

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

Probab=99.34  E-value=3.9e-12  Score=107.65  Aligned_cols=71  Identities=14%  Similarity=0.155  Sum_probs=62.0

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ....++|||+|||.++|+++|+++|++| |.|.+|+++++  .+.++|||||+|.+.++|.+|+...+...++.
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g  109 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPF-GNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNGFQVGT  109 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTS-CEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCCCEETT
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCCCEECC
Confidence            3456899999999999999999999995 99999999987  56799999999999999999998766554444

>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=99.34  E-value=3.5e-13  Score=139.99  Aligned_cols=78  Identities=13%  Similarity=0.217  Sum_probs=65.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||+.+|+++|.++|++| |.|..|.|+.+  ++.++|||||+|.+.++|.+|+..++...+...  .|.|
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~-G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~  178 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVY-GPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDV  178 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHc-CCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            345899999999999999999999995 99999999987  677999999999999999999977665444433  4666


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      +..
T Consensus       179 a~~  181 (437)
T 3pgw_S          179 ERG  181 (437)
T ss_pred             eCC
Confidence            653

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

Probab=99.33  E-value=1.4e-12  Score=109.65  Aligned_cols=77  Identities=14%  Similarity=0.220  Sum_probs=62.3

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAW  426 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~  426 (437)
                      ....++|||+|||.++|+++|+++|++| |.|.+|+++++  +|.++|||||+|.+.++|.+|+...+..+.+.. .+.|
T Consensus        22 ~~~~~~lfV~nLp~~~te~~L~~~F~~~-G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~g~~l~V~~  100 (109)
T 2rs2_A           22 GSSGCKMFIGGLSWQTTQEGLREYFGQF-GEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKV  100 (109)
T ss_dssp             ----CCEEEESCCTTCCHHHHHHHHTTT-SCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSCEEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcc-CCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCCCcCCCEEEEEEE
Confidence            3456899999999999999999999995 99999999988  478999999999999999999988764443332 2444


Q ss_pred             h
Q 013726          427 L  427 (437)
Q Consensus       427 ~  427 (437)
                      +
T Consensus       101 a  101 (109)
T 2rs2_A          101 A  101 (109)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.33  E-value=1.3e-12  Score=109.66  Aligned_cols=70  Identities=13%  Similarity=0.209  Sum_probs=61.6

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ....++|||+|||.++|+++|+++|++| |.|.+|++.++.+.++|||||+|.+.++|.+|+...+...++
T Consensus        26 ~~~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~   95 (109)
T 2err_A           26 KSQPKRLHVSNIPFRFRDPDLRQMFGQF-GKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVE   95 (109)
T ss_dssp             TTCCCEEEEESCCTTCCHHHHHHHGGGT-CCCSCEEECCBTTBCTTEEEEECCCSHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHhc-CCEEEEEEEECCCCCceEEEEEECCHHHHHHHHHHcCCCEEC
Confidence            4456899999999999999999999995 999999999997779999999999999999999865554333

>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=99.33  E-value=5.7e-13  Score=103.51  Aligned_cols=64  Identities=14%  Similarity=0.266  Sum_probs=57.0

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      +|||+|||.++|+++|+++|++| |.|..+.++++  ++.++|||||+|.+.++|.+|+...+..+.
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~~~~   66 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGF-GEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVG   66 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHH-SCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSSCCBT
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCCCeEC
Confidence            58999999999999999999996 99999999987  467999999999999999999987544433

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

Probab=99.33  E-value=1e-12  Score=102.49  Aligned_cols=63  Identities=17%  Similarity=0.313  Sum_probs=57.6

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      ++|||+|||.++|+++|+++|++| |.|..++++++  .+.++|||||+|.+.++|.+|+...+..
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~-G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~~~   65 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQF-GEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHE   65 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTT-SCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCCCc
Confidence            479999999999999999999995 99999999987  4779999999999999999999887733

>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=99.33  E-value=3.8e-12  Score=106.86  Aligned_cols=78  Identities=15%  Similarity=0.254  Sum_probs=63.8

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        24 ~~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  102 (108)
T 2jrs_A           24 AGPMRLYVGSLHFNITEDMLRGIFEPF-GRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGH  102 (108)
T ss_dssp             SSCEEEEEECCCSSCCHHHHHHHHTTT-SCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            456899999999999999999999995 99999999987  567999999999999999999875554333322  3555


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      +.+
T Consensus       103 a~~  105 (108)
T 2jrs_A          103 VTE  105 (108)
T ss_dssp             SCS
T ss_pred             ccc
Confidence            543

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

Probab=99.33  E-value=3.7e-12  Score=107.59  Aligned_cols=77  Identities=12%  Similarity=0.178  Sum_probs=63.8

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ....++|||+|||.++|+++|+++|++| |.|..|+|+.+  .+.++|||||+|.+.++|.+|+.. +...++..  .|.
T Consensus        24 ~~~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~  101 (116)
T 1x4b_A           24 KEQFRKLFIGGLSFETTEESLRNYYEQW-GKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPK  101 (116)
T ss_dssp             HHHHTEEEEECCTTCCCHHHHHHHHTSS-CCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEE
Confidence            3346899999999999999999999995 99999999987  477999999999999999999988 44333332  355


Q ss_pred             hhh
Q 013726          426 WLE  428 (437)
Q Consensus       426 ~~~  428 (437)
                      |+.
T Consensus       102 ~a~  104 (116)
T 1x4b_A          102 RAV  104 (116)
T ss_dssp             CCS
T ss_pred             ECC
Confidence            554

>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=99.33  E-value=2.8e-12  Score=108.12  Aligned_cols=77  Identities=10%  Similarity=0.174  Sum_probs=64.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+|+++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~  101 (115)
T 2cpz_A           23 PEGANLFIYHLPQEFGDQDLLQMFMPF-GNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQL  101 (115)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGG-SCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            345899999999999999999999995 99999999987  577999999999999999999976555443333  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus       102 a~  103 (115)
T 2cpz_A          102 KR  103 (115)
T ss_dssp             CC
T ss_pred             cC
Confidence            54

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

Probab=99.33  E-value=1.4e-12  Score=110.36  Aligned_cols=73  Identities=18%  Similarity=0.238  Sum_probs=61.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC-----CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN-----SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~-----~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ...++|||+|||+++|+++|+++|++||.|. +.++.++.     .++|||||+|.+.++|.+|++ |+  .++|+.+.+
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~~~   82 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL--EEDGKLYLC   82 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE--EETTEEEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh--hcCCcEEEe
Confidence            3568999999999999999999999999999 88877654     358999999999999999998 73  355655555


Q ss_pred             ec
Q 013726          328 LP  329 (437)
Q Consensus       328 ~~  329 (437)
                      ..
T Consensus        83 ~~   84 (114)
T 2dnl_A           83 VS   84 (114)
T ss_dssp             EC
T ss_pred             cc
Confidence            43

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

Probab=99.33  E-value=1.7e-12  Score=107.28  Aligned_cols=76  Identities=14%  Similarity=0.114  Sum_probs=63.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|.++.+  ++.++|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2dnm_A           12 GMITLKVDNLTYRTSPDSLRRVFEKY-GRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVA   90 (103)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHTTT-SCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEEC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEC
Confidence            45899999999999999999999995 99999999987  477999999999999999999885544333332  45555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        91 ~   91 (103)
T 2dnm_A           91 R   91 (103)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.33  E-value=3.4e-12  Score=104.78  Aligned_cols=66  Identities=18%  Similarity=0.153  Sum_probs=58.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE--------EEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR--------LRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--------v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..        ++++.+  .+.++|||||+|.+.++|++|+...+...
T Consensus        12 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g~~   87 (99)
T 2la6_A           12 DNNTIFVQGLGENVTIESVADYFKQI-GIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKE   87 (99)
T ss_dssp             CCSEEEEECCCSSCCHHHHHHHHTTT-SCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTTCB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCCCE
Confidence            45899999999999999999999995 99999        999887  57899999999999999999987555443

>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=99.33  E-value=4.2e-12  Score=106.80  Aligned_cols=68  Identities=15%  Similarity=0.253  Sum_probs=60.8

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ...++|||+|||.++|+++|+++|++| |.|.+|+|+++ .+.++|||||+|.+.++|.+|+...+...+
T Consensus        23 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~   91 (114)
T 1x5o_A           23 QDPTNLYISNLPLSMDEQELENMLKPF-GQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFI   91 (114)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTT-SCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEECCCCCcceEEEEEECCHHHHHHHHHHhCCCEE
Confidence            356899999999999999999999995 99999999988 677999999999999999999986666544

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

Probab=99.32  E-value=3.4e-12  Score=107.23  Aligned_cols=76  Identities=25%  Similarity=0.261  Sum_probs=63.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+|+.+ .+.++|||||+|.+.++|.+|+...+...+...  .|.|+.
T Consensus        14 ~~~~l~V~nlp~~~~~~~l~~~f~~~-G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           14 LGSTVFVANLDYKVGWKKLKEVFSMA-GVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             CCSCEEEESCCTTCCHHHHHHHHTTT-SCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            45899999999999999999999995 99999999987 677999999999999999999886555433332  355543

>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=99.32  E-value=3.5e-12  Score=108.46  Aligned_cols=77  Identities=14%  Similarity=0.218  Sum_probs=64.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|.++.+ .+.++|||||+|.+.++|++|+...+...+...  .|.|+.
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A            6 HPGKLFIGGLNRETNEKMLKAVFGKH-GPISEVLLIKDRTSKSRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             SCCEEEEECCTTTCCHHHHHHHHHTS-SCCSEEEEECSTTTTCCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            45899999999999999999999995 99999999998 677999999999999999999986555433332  466665


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        85 ~   85 (116)
T 2fy1_A           85 K   85 (116)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.32  E-value=2e-12  Score=107.13  Aligned_cols=76  Identities=18%  Similarity=0.206  Sum_probs=63.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+.. +...+...  .|.|
T Consensus        14 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~   91 (105)
T 2dh8_A           14 DEIGKLFVGGLDWSTTQETLRSYFSQY-GEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKP   91 (105)
T ss_dssp             SSSSEECCBSCCTTCCHHHHHHHHHTT-SCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            345899999999999999999999995 99999999987  567999999999999999999988 54444333  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus        92 a~   93 (105)
T 2dh8_A           92 CT   93 (105)
T ss_dssp             SC
T ss_pred             cc
Confidence            43

>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=99.32  E-value=1.1e-12  Score=106.34  Aligned_cols=58  Identities=19%  Similarity=0.267  Sum_probs=52.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.+|+|+++   ++|||||+|.+.++|.++...
T Consensus        10 ~~~~l~V~~Lp~~~te~~L~~~F~~~-G~i~~v~i~~~---srGfaFV~F~~~~~A~~~~~~   67 (89)
T 3d2w_A           10 HGSKVFVGRCTEDMTAEELQQFFCQY-GEVVDVFIPKP---FRAFAFVTFADDKVAQSLCGE   67 (89)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHTTT-SCEEEEECCSS---CCSEEEEEESCHHHHHHHTTC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcc-CCEEEEEEeeC---CCCEEEEEECCHHHHHHHcCC
Confidence            45899999999999999999999995 99999999985   789999999999999876543

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.32  E-value=2.8e-12  Score=105.53  Aligned_cols=69  Identities=17%  Similarity=0.201  Sum_probs=61.8

Q ss_pred             cEEEEecCCccchHHH----HHHHHhcC-CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQ----LAALFVGC-GQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~----L~~~F~~~-G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ++|||+|||+.+++++    |+++|++| |.|.+|.        .|+|||.|.+.++|.+|++ |+|..+.|++|+|.++
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~Vt--------gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A   81 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSIT--------GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFT   81 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEECC--------TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESS
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEEe--------cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEec
Confidence            4499999999999988    55899999 5999881        2999999999999999999 9999999999999998


Q ss_pred             CCC
Q 013726          331 KTA  333 (437)
Q Consensus       331 ~~~  333 (437)
                      +..
T Consensus        82 ~~~   84 (96)
T 2diu_A           82 PKN   84 (96)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            743

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

Probab=99.32  E-value=1.5e-12  Score=107.30  Aligned_cols=77  Identities=16%  Similarity=0.241  Sum_probs=64.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus        11 ~~~~l~V~nLp~~~t~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   89 (102)
T 2cqb_A           11 TKRVLYVGGLAEEVDDKVLHAAFIPF-GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   89 (102)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTT-SCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhhcc-CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeC
Confidence            45899999999999999999999995 99999999887  567999999999999999999976555444333  35555


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        90 ~~   91 (102)
T 2cqb_A           90 KP   91 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>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=99.32  E-value=4.1e-12  Score=106.18  Aligned_cols=77  Identities=16%  Similarity=0.170  Sum_probs=63.7

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..|.++.+  .+.++|||||+|.+.++|.+|+...+...+...  .+.|
T Consensus        24 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  102 (110)
T 1oo0_B           24 VEGWILFVTSIHEEAQEDEIQEKFCDY-GEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDW  102 (110)
T ss_dssp             TTBEEEEEESCCTTCCHHHHHHHHGGG-SCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            346899999999999999999999995 99999999887  577999999999999999999986555433332  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus       103 a~  104 (110)
T 1oo0_B          103 CF  104 (110)
T ss_dssp             SE
T ss_pred             cc
Confidence            54

>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=99.32  E-value=1.8e-12  Score=109.58  Aligned_cols=69  Identities=19%  Similarity=0.058  Sum_probs=60.0

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCce-EEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEV-YRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I-~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ...++|||+|||+++|+++|+++|++| |.| ..|+|+++ ++.++|||||+|.+.++|.+|+......+.+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-g~v~~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~g   83 (114)
T 2cpy_A           13 SAKVCAHITNIPFSITKMDVLQFLEGI-PVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNG   83 (114)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTS-CCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETT
T ss_pred             CCccEEEEeCcCCcCCHHHHHHHHHhC-CCcCCeEEEEECCCCCcceEEEEEECCHHHHHHHHHhCCCccCC
Confidence            345899999999999999999999995 999 89999988 6779999999999999999999884433333

>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=99.31  E-value=2.1e-12  Score=103.08  Aligned_cols=69  Identities=16%  Similarity=0.211  Sum_probs=59.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC--CC-cceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY--HH-STRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~--g~-srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.++.++.+.  +. ++|||||+|.+.++|.+|+...+...+..
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g   74 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTY-GKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDG   74 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC-CCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECC
Confidence            35799999999999999999999995 999999999874  33 89999999999999999998655544433

>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=99.31  E-value=2.9e-12  Score=106.61  Aligned_cols=68  Identities=16%  Similarity=0.181  Sum_probs=57.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||+++|++||+++|++| |.+ .|+|+++ +++++|||||+|.+.++|++|+......+.+.
T Consensus        14 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~~-~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~gr   82 (102)
T 1wez_A           14 TGHCVHMRGLPYRATENDIYNFFSPL-NPM-RVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHR   82 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSC-CCS-EEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHc-Cce-EEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeECCc
Confidence            45899999999999999999999995 954 9999887 67899999999999999999997644444333

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

Probab=99.31  E-value=5.6e-12  Score=104.22  Aligned_cols=77  Identities=18%  Similarity=0.223  Sum_probs=62.0

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      ...++|||+|||.++|+++|+++|++| | |..|+++++  ++.++|||||+|.+.++|.+|+......+...+ .|.|+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-g-i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   90 (103)
T 2dng_A           13 EPPYTAYVGNLPFNTVQGDIDAIFKDL-S-IRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDGALLGDRSLRVDIA   90 (103)
T ss_dssp             SSCEEEEEESCCTTCCHHHHHHHTTTS-C-EEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTTCEETTEECEEEEC
T ss_pred             CCCeEEEEeCCCCCCCHHHHHHHHHhC-C-ceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCCCeECCeEEEEEEe
Confidence            345899999999999999999999996 8 999999988  477999999999999999999944333333332 35555


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        91 ~~   92 (103)
T 2dng_A           91 EG   92 (103)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

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

Probab=99.31  E-value=4.5e-12  Score=113.70  Aligned_cols=75  Identities=15%  Similarity=0.103  Sum_probs=63.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCC--ceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCG--EVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G--~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ..++|||+|||+++|+++|+++|++| |  .|..|+|+.|  +|.++|||||+|.+.++|.+|+...+...+...  .|.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~-G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~  132 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSI-GVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVR  132 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHT-TCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHH-CCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEE
Confidence            35799999999999999999999995 9  9999999988  678999999999999999999998666544443  344


Q ss_pred             hh
Q 013726          426 WL  427 (437)
Q Consensus       426 ~~  427 (437)
                      ||
T Consensus       133 ~a  134 (156)
T 3n9u_C          133 PA  134 (156)
T ss_dssp             EC
T ss_pred             Ec
Confidence            44

>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=99.31  E-value=4.2e-12  Score=106.87  Aligned_cols=75  Identities=25%  Similarity=0.409  Sum_probs=62.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|+|+.+  ++.++|||||+|.+.++|.+|+ ..+...+...  .|.|+
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a  101 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAV-GKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTT-SCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC-CCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEec
Confidence            45899999999999999999999995 99999999987  4679999999999999999999 5444333332  35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus       102 ~  102 (114)
T 2cq4_A          102 Q  102 (114)
T ss_dssp             H
T ss_pred             C
Confidence            4

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

Probab=99.30  E-value=6.8e-12  Score=109.15  Aligned_cols=79  Identities=16%  Similarity=0.255  Sum_probs=65.9

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ....++|||+|||.++|+++|+++|++| |.|.+|+++++  ++.++|||||+|.+.++|.+|+...+...+...  .|.
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  117 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERY-GPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVA  117 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHH-SCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            3456899999999999999999999996 99999999987  467999999999999999999987666544443  355


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      |+..
T Consensus       118 ~a~~  121 (139)
T 1u6f_A          118 LAAS  121 (139)
T ss_dssp             ESSC
T ss_pred             ECCC
Confidence            6554

>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=99.30  E-value=3.4e-12  Score=105.31  Aligned_cols=76  Identities=18%  Similarity=0.224  Sum_probs=63.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||..+++++|+++|++| |.|..++++.+  .+.++|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus         7 ~~~~l~V~nlp~~~~~~~l~~~f~~~-G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   85 (104)
T 1p1t_A            7 SLRSVFVGNIPYEATEEQLKDIFSEV-GPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTT-SCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CccEEEEeCCCCcCCHHHHHHHHHhc-CCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeC
Confidence            35899999999999999999999995 99999999987  577999999999999999999976555433322  35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        86 ~   86 (104)
T 1p1t_A           86 A   86 (104)
T ss_dssp             T
T ss_pred             C
Confidence            4

>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=99.30  E-value=5.4e-12  Score=103.32  Aligned_cols=78  Identities=14%  Similarity=0.127  Sum_probs=65.2

Q ss_pred             cccEEEEEcCCccCCHHHHH----HHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          352 CARTIYCTNIDKKVTQADVK----LFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLr----elF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ..++|||+|||.++++++|+    ++|++| |.|.+|+++.+... +|||||+|.+.++|++|+...+...++..  .+.
T Consensus         8 ~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~-G~v~~v~i~~~~~~-rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~   85 (96)
T 2dgx_A            8 NGADVQVSNIDYRLSRKELQQLLQEAFARH-GKVKSVELSPHTDY-QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVS   85 (96)
T ss_dssp             SCEEEEEESCCTTSCHHHHHHHHHHHHHHH-SCEEEEEECSCCST-TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhcccc-CcEEEEEEEeCCCC-CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEE
Confidence            34799999999999999999    999996 99999999988555 99999999999999999987776554443  466


Q ss_pred             hhhhhc
Q 013726          426 WLEEFS  431 (437)
Q Consensus       426 ~~~~~s  431 (437)
                      ||..-+
T Consensus        86 ~a~~~~   91 (96)
T 2dgx_A           86 LATGAS   91 (96)
T ss_dssp             ECCCSS
T ss_pred             EcCCCC
Confidence            665433

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

Probab=99.30  E-value=5.6e-12  Score=107.58  Aligned_cols=78  Identities=23%  Similarity=0.328  Sum_probs=63.4

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAW  426 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~  426 (437)
                      ....++|||+|||.++|+++|+++|++| |.|..|+++++  .+.++|||||+|.+.++|.+|+......+.+.+ .|.|
T Consensus        33 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~  111 (124)
T 2jwn_A           33 EIDKRSVYVGNVDYGSTAQDLEAHFSSC-GSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDETVFRGRTIKVLP  111 (124)
T ss_dssp             HHHHTEEEEEEECTTCCHHHHHHHHHTT-SCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCCCeECCeEEEEEE
Confidence            4456899999999999999999999995 99999999987  677999999999999999999943333333332 3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus       112 a~  113 (124)
T 2jwn_A          112 KR  113 (124)
T ss_dssp             SS
T ss_pred             CC
Confidence            54

>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=99.29  E-value=5.4e-12  Score=104.51  Aligned_cols=75  Identities=16%  Similarity=0.193  Sum_probs=60.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC---CCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY---HHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~---g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| | |..|+|+++.   +.++|||||+|.+.++|++|+......+...+ .|.|+
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           14 PPYTAFLGNLPYDVTEESIKEFFRGL-N-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTS-C-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHC-C-ceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCCCEeCCcEEEEEEc
Confidence            45899999999999999999999995 9 9999999883   78999999999999999999944333333322 35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        92 ~   92 (104)
T 1wi8_A           92 D   92 (104)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.29  E-value=1.1e-11  Score=104.02  Aligned_cols=79  Identities=22%  Similarity=0.201  Sum_probs=69.4

Q ss_pred             ccCCcEEEEecCCc-----cchHHHHHHHHhcCCCeeEEEEeeCCC---CCceEEEEEEcCHHHHHHHHH-hcCeEeeee
Q 013726          253 EIIRRTVYVSDIDQ-----QVTEEQLAALFVGCGQVVDCRICGDPN---SVLRFAFIEFTDEEGARAALN-LAGTMLGFY  323 (437)
Q Consensus       253 ~~~~rtLfVgNLp~-----~~tee~L~~~F~~~G~I~~vri~~d~~---~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr  323 (437)
                      ...+++|+|+|+..     +-++++|++.|++||.|.+|+++.++.   .++|||||+|.+.++|.+|+. |||..++|+
T Consensus         5 ~~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr   84 (105)
T 2pe8_A            5 KCPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGR   84 (105)
T ss_dssp             GSCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTE
T ss_pred             CCCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCc
Confidence            34678999999963     237899999999999999999998764   369999999999999999999 999999999


Q ss_pred             eeEEeccC
Q 013726          324 PVRVLPSK  331 (437)
Q Consensus       324 ~L~V~~s~  331 (437)
                      .|.|.++.
T Consensus        85 ~i~v~~a~   92 (105)
T 2pe8_A           85 VVKACFYN   92 (105)
T ss_dssp             ECEEEECC
T ss_pred             EEEEEEcC
Confidence            99999874

>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=99.29  E-value=2.1e-12  Score=104.89  Aligned_cols=69  Identities=16%  Similarity=0.028  Sum_probs=58.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..+.++.+  .+.++|||||+|.+.++|.+|+...+...+..
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   84 (95)
T 2ek1_A           14 GPTVIKVQNMPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGS   84 (95)
T ss_dssp             -CEEEEEECCCTTCCHHHHHHHTTTS-CBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECC
Confidence            35899999999999999999999995 99998877775  56799999999999999999998655544433

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

Probab=99.29  E-value=4.6e-12  Score=110.13  Aligned_cols=75  Identities=19%  Similarity=0.304  Sum_probs=66.4

Q ss_pred             cEEEEecC----CccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcC----HHH----HHHHHH---hcCeE
Q 013726          257 RTVYVSDI----DQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTD----EEG----ARAALN---LAGTM  319 (437)
Q Consensus       257 rtLfVgNL----p~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~----~e~----A~~Al~---lng~~  319 (437)
                      ..|||+||    |+.+++++|+++|++||+|.+|.++.|+.+  ++|||||+|.+    +++    |.+|+.   ++|..
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~   82 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCF   82 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCe
Confidence            68999999    999999999999999999999999999987  59999999996    333    777765   69999


Q ss_pred             eeeeeeEEeccC
Q 013726          320 LGFYPVRVLPSK  331 (437)
Q Consensus       320 l~Gr~L~V~~s~  331 (437)
                      ++|+.|+|..-+
T Consensus        83 I~Gr~irV~ln~   94 (136)
T 2j8a_A           83 IMGFKFEVILNK   94 (136)
T ss_dssp             ETTEEEEEEECC
T ss_pred             ecCcEEEEEECc
Confidence            999999999754

>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=99.29  E-value=2.1e-12  Score=107.73  Aligned_cols=58  Identities=21%  Similarity=0.221  Sum_probs=52.9

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      .++++|||+|||.++|+++|+++|++| |.|.+|.++++    +|||||+|.+.++|.+|+..
T Consensus        13 ~p~~~l~V~nLp~~~te~~L~~~F~~f-G~v~~v~i~~~----kg~aFVef~~~~~A~~Ai~~   70 (101)
T 2cq1_A           13 APSRVLHIRKLPGEVTETEVIALGLPF-GKVTNILMLKG----KNQAFLELATEEAAITMVNY   70 (101)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTT-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEECC----CCEEEEEECCHHHHHHHHHH
Confidence            356899999999999999999999995 99999999875    67999999999999988874

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.29  E-value=2.1e-12  Score=111.06  Aligned_cols=73  Identities=21%  Similarity=0.147  Sum_probs=59.4

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc----eeccCchhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF----YILHNPSIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~----~~~~~~~i~~  426 (437)
                      .++++|||+|||+++|+++|+++|++| |.|.+|+|+++    +|||||+|++.++|.+|+...+.    +......|.|
T Consensus        29 ~ps~~LfVgNLp~~vte~dL~~lF~~f-G~V~~v~i~~~----kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~  103 (119)
T 2ad9_A           29 VPSRVIHIRKLPIDVTEGEVISLGLPF-GKVTNLLMLKG----KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF  103 (119)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTT-SCCCEEEEEGG----GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEeCC----CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEE
Confidence            356899999999999999999999995 99999999976    67999999999999988875432    2233334666


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus       104 a~  105 (119)
T 2ad9_A          104 SN  105 (119)
T ss_dssp             CS
T ss_pred             cc
Confidence            54

>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=99.29  E-value=5.5e-12  Score=109.46  Aligned_cols=78  Identities=15%  Similarity=0.101  Sum_probs=64.0

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ....++|||+|||.++|+++|+++|++| |.|..|+++++  ++.++|||||+|.+.++|++|+...+...+...  .|.
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~-G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~  121 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKY-GPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRVD  121 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTT-SCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEES
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3456899999999999999999999995 99999999987  567999999999999999999886554333322  355


Q ss_pred             hhh
Q 013726          426 WLE  428 (437)
Q Consensus       426 ~~~  428 (437)
                      |+.
T Consensus       122 ~a~  124 (129)
T 2kxn_B          122 FSI  124 (129)
T ss_dssp             CCS
T ss_pred             Eec
Confidence            553

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

Probab=99.29  E-value=7.7e-12  Score=100.94  Aligned_cols=67  Identities=15%  Similarity=0.150  Sum_probs=59.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++|+++|+++|++ | .|..|+++++ .|.++|||||+|.+.++|++|+. .+...++.
T Consensus         9 ~~~~l~v~nLp~~~t~~~l~~~F~~-~-~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~-~~g~~~~g   76 (91)
T 2dgw_A            9 TCHTVKLRGAPFNVTEKNVMEFLAP-L-KPVAIRIVRNAHGNKTGYIFVDFSNEEEVKQALK-CNREYMGG   76 (91)
T ss_dssp             CCCEEEEECCCSSCCHHHHHHHHTT-S-CCSEEEEEECTTSCEEEEEEEECSSHHHHHHHHH-SCSEEETT
T ss_pred             CccEEEEECCCCCCCHHHHHHHHhh-C-CceEEEEEECCCCCCceEEEEEECCHHHHHHHHH-hCCceeCC
Confidence            4589999999999999999999999 5 8999999988 67799999999999999999999 66544443

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=99.29  E-value=4.2e-12  Score=108.28  Aligned_cols=67  Identities=12%  Similarity=0.017  Sum_probs=58.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc---eEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE---VYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~---I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ..++|||+|||+++|+++|+++|++| |.   |..|+|+++ .++++|||||+|.+.++|++|+......+.
T Consensus        16 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~   86 (118)
T 2db1_A           16 EGYVVKLRGLPWSCSIEDVQNFLSDC-TIHDGVAGVHFIYTREGRQSGEAFVELESEDDVKLALKKDRESMG   86 (118)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTS-CBTTGGGGEEEEECSSSCEEEEEEEEBSSHHHHHHHGGGTTEEET
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHc-CCccCceeEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeEC
Confidence            45899999999999999999999995 99   899999987 678999999999999999999995444333

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.28  E-value=3.5e-12  Score=106.92  Aligned_cols=73  Identities=14%  Similarity=0.147  Sum_probs=59.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC--c--eeccCchhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE--F--YILHNPSIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~--~--~~~~~~~i~~~  427 (437)
                      +.++|||+|||.++|+++|+++|++| |.|.+|.++++    ||||||+|.+.++|.+|+...+  .  +..+...+.|+
T Consensus        14 p~~~l~V~nLp~~~te~~L~~~F~~f-G~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a   88 (104)
T 1wex_A           14 VSPVVHVRGLCESVVEADLVEALEKF-GTICYVMMMPF----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYS   88 (104)
T ss_dssp             CCSEEEEESCCSSCCHHHHHHHHTTT-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC-CCEEEEEEECC----CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEc
Confidence            45899999999999999999999995 99999999874    6799999999999988887432  2  23333356666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        89 ~~   90 (104)
T 1wex_A           89 TS   90 (104)
T ss_dssp             SS
T ss_pred             cC
Confidence            53

>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=99.28  E-value=3.2e-12  Score=102.85  Aligned_cols=74  Identities=22%  Similarity=0.289  Sum_probs=60.9

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ++|||+|||.++++++|+++|++| |.|.+++++++  .+.++|||||+|.+.+ |.+|+...+...+...  .+.||..
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQF-GKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEANP   79 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHH-TCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC--
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhc-CCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcCC
Confidence            689999999999999999999996 99999999988  4779999999999999 9888887665433332  3555543

>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=99.28  E-value=6.5e-12  Score=107.48  Aligned_cols=77  Identities=17%  Similarity=0.196  Sum_probs=64.0

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.|+.+  .+.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        20 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   98 (126)
T 3ex7_B           20 VEGWILFVTGVHEEATEEDIHDKFAEY-GEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   98 (126)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            345899999999999999999999995 99999999988  677999999999999999999875554433332  4666


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      |.
T Consensus        99 a~  100 (126)
T 3ex7_B           99 CF  100 (126)
T ss_dssp             SE
T ss_pred             ec
Confidence            54

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

Probab=99.28  E-value=4.9e-12  Score=106.21  Aligned_cols=78  Identities=15%  Similarity=0.145  Sum_probs=63.8

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceE--------EEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVY--------RLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~--------~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ...++|||+|||.++|+++|+++|++| |.|.        .|+|+.+  .+.++|||||+|.+.++|.+|+...+...+.
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~   91 (113)
T 2cpe_A           13 SDNSAIYVQGLNDSVTLDDLADFFKQC-GVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ   91 (113)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHTTT-SCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhc-CCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCCCccC
Confidence            356899999999999999999999995 9999        5999887  5779999999999999999999865554333


Q ss_pred             Cc--hhhhhhh
Q 013726          421 NP--SIAWLEE  429 (437)
Q Consensus       421 ~~--~i~~~~~  429 (437)
                      ..  .|.|+..
T Consensus        92 g~~l~V~~a~~  102 (113)
T 2cpe_A           92 GSKLKVSLARK  102 (113)
T ss_dssp             TEECEEECSSC
T ss_pred             CCEEEEEECCC
Confidence            32  3555543

>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=99.28  E-value=9e-12  Score=103.78  Aligned_cols=78  Identities=17%  Similarity=0.156  Sum_probs=63.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc-eEEEEEe-cc--CCCcceEEEEEeCCHHHHHHHHhhcC---c-eeccCch
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE-VYRLRLL-GD--YHHSTRIAFVEFVMVIASSTLFIHTE---F-YILHNPS  423 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~-I~~v~i~-kd--~g~srGfAFVeF~s~e~A~kal~~~~---~-~~~~~~~  423 (437)
                      ..++|||+|||.++|+++|+++|++| |. |..|.++ .+  .+.++|||||+|.+.++|.+|+...+   . +..+...
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~f~~~-G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~   85 (109)
T 2dis_A            7 GNCRLFIGGIPKMKKREEILEEIAKV-TEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIA   85 (109)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHH-STTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHh-cCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEE
Confidence            45899999999999999999999996 98 9999998 55  45799999999999999999998753   2 2333335


Q ss_pred             hhhhhhh
Q 013726          424 IAWLEEF  430 (437)
Q Consensus       424 i~~~~~~  430 (437)
                      +.||..-
T Consensus        86 V~~a~~~   92 (109)
T 2dis_A           86 VDWAEPE   92 (109)
T ss_dssp             EEESCSS
T ss_pred             EEEcCCC
Confidence            7777643

>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=99.28  E-value=3e-12  Score=104.61  Aligned_cols=76  Identities=14%  Similarity=0.010  Sum_probs=61.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..+.++.+  .+.++|||||+|.+.++|++|+...+...++..  .+.|+
T Consensus        14 ~~~~l~v~nLp~~~t~~~l~~~F~~~-G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           14 GPTIIKVQNMPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTS-CCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHc-CCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            45899999999999999999999995 99988777765  667999999999999999999977665433332  34444


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        93 ~   93 (98)
T 2cqp_A           93 S   93 (98)
T ss_dssp             S
T ss_pred             C
Confidence            3

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

Probab=99.28  E-value=8.3e-12  Score=106.75  Aligned_cols=78  Identities=18%  Similarity=0.144  Sum_probs=64.9

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ....++|||+|||..+++++|+++|++| |.|.+|+++.+ .+.++|||||+|.+.++|.+|+...+...++..  .|.|
T Consensus        32 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  110 (124)
T 2kt5_A           32 VETGAKLLVSNLDFGVSDADIQELFAEF-GTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL  110 (124)
T ss_dssp             CSSCEEEEEESCCSSCCHHHHHHHHHTT-SCCSEEEEECCSSSSCCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEEECCCCCEeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEE
Confidence            3456899999999999999999999995 99999999988 677999999999999999999986665444433  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      |.
T Consensus       111 a~  112 (124)
T 2kt5_A          111 VA  112 (124)
T ss_dssp             EC
T ss_pred             eC
Confidence            43

>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=99.28  E-value=9.3e-12  Score=103.94  Aligned_cols=77  Identities=17%  Similarity=0.212  Sum_probs=62.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.+..+ +.++|||||+|.+.++|++|+...+...++..  .+.|+.
T Consensus        20 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~~~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           20 NNDCRIYVGNLPPDIRTKDIEDVFYKY-GAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEEC-CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            346899999999999999999999995 99999999664 45899999999999999999966555444333  355554


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        98 ~   98 (109)
T 1x4a_A           98 S   98 (109)
T ss_dssp             C
T ss_pred             c
Confidence            3

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.28  E-value=3.5e-12  Score=110.22  Aligned_cols=69  Identities=13%  Similarity=0.038  Sum_probs=59.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCce----EEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEV----YRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I----~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ....+|||+|||+++|++||+++|++| |.|    ..|+|+++ +|+++|||||+|.+.++|++|+.....++.+
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~-g~v~g~v~~v~i~~d~~gr~~G~aFV~F~~~~~A~~Al~~~~~~l~g   94 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQH-CPITGGKEGILFVTYPDGRPTGDAFVLFACEEYAQNALRKHKDLLGK   94 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTT-SCCTTGGGGEEEEECTTSCEEEEEEECCSSHHHHHHHHTTTTEESSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhh-CCccCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCCCeeCC
Confidence            345899999999999999999999995 875    68999887 7789999999999999999999874444433

>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=99.28  E-value=1.1e-11  Score=110.26  Aligned_cols=79  Identities=16%  Similarity=0.231  Sum_probs=66.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.|+.+  ++.++|||||+|.+.++|.+|+...+...+...  .|.|
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~  115 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKS-GDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDW  115 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEE
Confidence            356899999999999999999999995 99999999988  567999999999999999999986555433333  4777


Q ss_pred             hhhh
Q 013726          427 LEEF  430 (437)
Q Consensus       427 ~~~~  430 (437)
                      |...
T Consensus       116 a~~~  119 (156)
T 1h2v_Z          116 DAGF  119 (156)
T ss_dssp             ESCC
T ss_pred             CCCC
Confidence            7543

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

Probab=99.28  E-value=4.4e-12  Score=104.55  Aligned_cols=60  Identities=20%  Similarity=0.413  Sum_probs=56.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFI  412 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~  412 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|+++.+ .+.++|||||+|.+.++|.+|+.
T Consensus         8 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~   68 (102)
T 2xs2_A            8 MPNTVFVGGIDVRMDETEIRSFFARY-GSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE   68 (102)
T ss_dssp             EEEEEEEECCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhC-CCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh
Confidence            45899999999999999999999995 99999999988 67799999999999999999998

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.27  E-value=6.6e-12  Score=106.14  Aligned_cols=66  Identities=15%  Similarity=0.224  Sum_probs=57.8

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..+|||+|||+++|++||+++|++ | .|..|+|+++ .|+++|||||+|.+.++|.+|+......+.+
T Consensus        16 ~~~v~V~nLp~~~te~dl~~~F~~-~-~v~~v~i~~d~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~g   82 (109)
T 2dnn_A           16 DLYVSVHGMPFSAMENDVRDFFHG-L-RVDAVHLLKDHVGRNNGNGLVKFLSPQDTFEALKRNRMLMIQ   82 (109)
T ss_dssp             HHEEEEECCCSSCCHHHHHHHTTT-S-CCCEEEECCCTTCCCCSEEEEECSSHHHHHHHHHTTTEEETT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHhcc-C-CeeEEEEEECCCCCCCeEEEEEECCHHHHHHHHhcCCCeECC
Confidence            479999999999999999999999 5 7999999987 6789999999999999999999655444433

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

Probab=99.27  E-value=9.9e-12  Score=107.74  Aligned_cols=71  Identities=17%  Similarity=0.256  Sum_probs=62.5

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ....++|||+|||..+|+++|+++|++| |.|..++++++  .+.++|||||+|.+.++|.+|+...+...+..
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~-G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g  132 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPF-GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFG  132 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGG-SCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTEEEETT
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhc-CCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3456899999999999999999999996 99999999987  56799999999999999999998777654444

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.27  E-value=4.8e-12  Score=106.45  Aligned_cols=78  Identities=6%  Similarity=0.187  Sum_probs=64.5

Q ss_pred             ccccEEEEEcCCccCCHHHHH---HHhhhcCCceEEEEEeccCC-----CcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          351 MCARTIYCTNIDKKVTQADVK---LFFESVCGEVYRLRLLGDYH-----HSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLr---elF~~f~G~I~~v~i~kd~g-----~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ...++|||+|||+++++++|+   ++|++| |.|..|.++++.+     .++|||||+|.+.++|++|+...+...+...
T Consensus        13 ~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~-G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr   91 (111)
T 2cpi_A           13 VQKNLVFVVGLSQRLADPEVLKRPEYFGKF-GKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGR   91 (111)
T ss_dssp             CCSSCEEEEEECTTTCCHHHHHSTTTTTTT-SCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhhcc-CCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCCCEECCE
Confidence            345899999999999999999   999995 9999999998843     4779999999999999999997666544443


Q ss_pred             --hhhhhhh
Q 013726          423 --SIAWLEE  429 (437)
Q Consensus       423 --~i~~~~~  429 (437)
                        .+.||..
T Consensus        92 ~l~V~~a~~  100 (111)
T 2cpi_A           92 TLKASLGTT  100 (111)
T ss_dssp             EEEEESCCC
T ss_pred             EEEEEeccc
Confidence              3666654

>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=99.27  E-value=1.9e-12  Score=114.26  Aligned_cols=111  Identities=14%  Similarity=0.069  Sum_probs=58.1

Q ss_pred             ceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHh
Q 013726          296 LRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF  374 (437)
Q Consensus       296 ~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF  374 (437)
                      +|+||.+|.-++.+..++. +... .+|...--...            ...........++|||+|||+++|++||+++|
T Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~-~gg~~~g~~~g------------~~~~~~~~~~~~~lfV~nLp~~~te~dL~~~F   67 (139)
T 2hgn_A            1 MGSSHHHHHHSSGLVPRGSHMASM-TGGQQMGRGSG------------DSEFTVQSTTGHCVHMRGLPYKATENDIYNFF   67 (139)
T ss_dssp             ---------------------------------------------------------CCCCEECCSCCTTCCHHHHHHHH
T ss_pred             CCcccccccCccccchhcccchhc-cCCCCCCCCCC------------CcccCCCCCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            3678888888877777665 3322 22222110000            00001112345799999999999999999999


Q ss_pred             hhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          375 ESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       375 ~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++| | |..|+|++| .++++|||||+|.+.++|++|+......+.+.
T Consensus        68 ~~~-G-i~~v~i~~d~~g~srGfaFV~F~~~e~A~~Al~~~g~~l~gR  113 (139)
T 2hgn_A           68 SPL-N-PVRVHIEIGPDGRVTGEADVEFATHEEAVAAMSKDRANMQHR  113 (139)
T ss_dssp             CSC-C-CSEEECCCSSSSCSSCCCEEECSHHHHHHHHTTCCSCSSSSC
T ss_pred             Hhc-C-CeEEEEEECCCCCCceEEEEEeCCHHHHHHHHhhCCCEECCE
Confidence            995 9 779999988 67899999999999999999995544444333

>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=99.26  E-value=7e-12  Score=112.17  Aligned_cols=75  Identities=20%  Similarity=0.273  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|++||.|..+   .....++|||||+|.+.++|.+|+. |+|..++|+.|.|.++.
T Consensus        97 ~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~---~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B           97 RAARTLLAKNLSFNITEDELKEVFEDALEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             GGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE---CSSSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             ccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe---cCCCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            456899999999999999999999999988766   3334478999999999999999999 99999999999999975

>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=99.26  E-value=6e-12  Score=110.60  Aligned_cols=67  Identities=10%  Similarity=0.008  Sum_probs=58.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc---eEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE---VYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~---I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..++|||+|||+++|+++|+++|+++ |.   |..|+|++| .|+++|||||+|.+.++|++|+. .+...+.
T Consensus        43 ~~~~lfVgnLp~~~te~dL~~~F~~~-G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~  113 (136)
T 2hgl_A           43 EGFVVKLRGLPWSCSVEDVQNFLSDC-TIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMG  113 (136)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHTTTC-CCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEEC
Confidence            34799999999999999999999995 99   899999987 67899999999999999999998 5544333

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

Probab=99.26  E-value=4.3e-12  Score=109.92  Aligned_cols=66  Identities=15%  Similarity=0.211  Sum_probs=58.2

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEE--EEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYR--LRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      ....++|||+|||+++|+++|+++|++| |.|..  |+|++|  ++.++|||||+|.+. +|.+|+...+..
T Consensus        20 ~~~~~~lfV~nL~~~~te~~L~~~F~~~-G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~   89 (131)
T 2m2b_A           20 ENANDTIILRNLNPHSTMDSILGALAPY-AVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQAL   89 (131)
T ss_dssp             SCCCCEEEECSCCTTCCSHHHHHHHGGG-CCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHh-CCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCC
Confidence            3456899999999999999999999995 99977  999988  578999999999999 998887776654

>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=99.26  E-value=1.5e-12  Score=104.55  Aligned_cols=58  Identities=17%  Similarity=0.270  Sum_probs=52.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|+++++   ++|||||+|.+.++|++++..
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~~---~~g~afV~f~~~~~a~~~~~~   61 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQY-GDVMDVFIPKP---FRAFAFVTFADDQIAQSLCGE   61 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTT-SCCCEEECCSS---CCSCCEEECSCHHHHHHTTTC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHc-CCeeEEEEecC---CCCEEEEEECCHHHHHHHhcC
Confidence            45899999999999999999999995 99999999875   788999999999999887655

>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=99.26  E-value=2.8e-11  Score=101.96  Aligned_cols=77  Identities=19%  Similarity=0.182  Sum_probs=66.5

Q ss_pred             ccCCcEEEEecCCccc-----------hHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe
Q 013726          253 EIIRRTVYVSDIDQQV-----------TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML  320 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~-----------tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l  320 (437)
                      +..+++|+|+||....           ++++|+++|++||.|.+|.+ .++. ++|||||+|.+.++|.+|+. |||..+
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~-~~G~afV~f~~~~~A~~Ai~~lng~~~   89 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRH-PDGVASVSFRDPEEADYCIQTLDGRWF   89 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC-TTCEEEEECSCHHHHHHHHHHSTTCEE
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC-CCEEEEEEECCHHHHHHHHHHcCCCEE
Confidence            4467999999994332           36899999999999999966 4443 78999999999999999998 999999


Q ss_pred             eeeeeEEeccC
Q 013726          321 GFYPVRVLPSK  331 (437)
Q Consensus       321 ~Gr~L~V~~s~  331 (437)
                      +|++|.|.++.
T Consensus        90 ~gr~l~v~~a~  100 (112)
T 2dit_A           90 GGRQITAQAWD  100 (112)
T ss_dssp             TTEECEEEECC
T ss_pred             CCcEEEEEEeC
Confidence            99999999975

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

Probab=99.26  E-value=1e-11  Score=101.15  Aligned_cols=67  Identities=10%  Similarity=0.166  Sum_probs=59.5

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      +.-|||+||++.+|+++|+++|.+| |+|.++++..    ++|||||+|.+.++|.+|+...+...+....|
T Consensus         7 ~~wL~VgNL~~~~te~~L~~lF~q~-G~V~~~~l~~----~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I   73 (89)
T 2wbr_A            7 SSWLLLKNLTAQIDGPTLRTLCMQH-GPLVSFHPYL----NQGIALCKYTTREEANKAQMALNNCVLANTTI   73 (89)
T ss_dssp             CCEEEEECCCTTCCCHHHHHHHHHH-SCEEEEEEET----TTTEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cceEEEeCCCccCCHHHHHHHHHhh-CCEEEEEEcC----CCcEEEEEECCHHHHHHHHHHhcCCEECCcEE
Confidence            4789999999999999999999996 9999999975    68899999999999999998888766665543

>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=99.25  E-value=5.3e-12  Score=105.52  Aligned_cols=67  Identities=15%  Similarity=0.075  Sum_probs=58.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc---eEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE---VYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~---I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ...+|||+|||+++|+++|+++|+++ |.   |..|+|+++ .|+++|||||+|.+.++|.+|+......+.
T Consensus        10 ~~~~l~V~nLp~~~te~~l~~~F~~~-g~~~~v~~v~i~~~~~g~~~G~afV~F~~~~~a~~Al~~~~~~~~   80 (107)
T 2lmi_A           10 DVFLIRAQGLPWSCTMEDVLNFFSDC-RIRNGENGIHFLLNRDGKRRGDALIEMESEQDVQKALEKHRMYMG   80 (107)
T ss_dssp             SCCEEEEECCCSSCCSHHHHHHTTTS-CBTTTTTTEECCCCTTSTTCSEEEEEBSSHHHHHHHHTTTTCCSS
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhc-CCcCCcceEEEEECCCCCEeeEEEEEECCHHHHHHHHHhCcceeC
Confidence            45899999999999999999999994 88   899999987 678999999999999999999985444443

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

Probab=99.25  E-value=1.2e-11  Score=118.68  Aligned_cols=76  Identities=20%  Similarity=0.254  Sum_probs=69.7

Q ss_pred             ccCCcEEEEecCCccc---------hHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe--
Q 013726          253 EIIRRTVYVSDIDQQV---------TEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML--  320 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~---------tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l--  320 (437)
                      ....+||||+||+..+         ++++|+++|++||.|.+|+++.+    +|||||+|.+.++|..|++ |+|..|  
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~----kG~AFV~F~~~~~Ae~A~~am~g~~l~~  206 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES----KNCGFVKFKYQANAEFAKEAMSNQTLLL  206 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGG----GTEEEEEESSHHHHHHHHHHHTTCCCCC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECC----CCEEEEEeCCHHHHHHHHHHhCCCEEec
Confidence            3467899999999998         89999999999999999999864    5899999999999999999 999999  


Q ss_pred             ----------eeeeeEEeccCC
Q 013726          321 ----------GFYPVRVLPSKT  332 (437)
Q Consensus       321 ----------~Gr~L~V~~s~~  332 (437)
                                .|+.|.|.+++.
T Consensus       207 ~~~~e~~~~~~gr~L~V~wA~~  228 (240)
T 3u1l_A          207 PSDKEWDDRREGTGLLVKWANE  228 (240)
T ss_dssp             TTSTTGGGGGGSCCCEEEECC-
T ss_pred             cccccccccCCCCEEEEEEccC
Confidence                      899999999874

>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=99.24  E-value=1.4e-11  Score=118.51  Aligned_cols=78  Identities=27%  Similarity=0.329  Sum_probs=69.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-h-cCeEee---eeeeEEe
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-L-AGTMLG---FYPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-l-ng~~l~---Gr~L~V~  328 (437)
                      ..++|||+|||+.+|+++|+++|+.||.|.+|+++.++.+ ++|||||+|.+.++|.+|+. | ++..+.   +++|.|.
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~  174 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVE  174 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEE
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEe
Confidence            3578999999999999999999999999999999988543 58999999999999999999 8 555554   9999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      ++..
T Consensus       175 ~~~~  178 (261)
T 3sde_A          175 PMEQ  178 (261)
T ss_dssp             ECCC
T ss_pred             eccc
Confidence            8763

>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=99.24  E-value=1.2e-11  Score=107.33  Aligned_cols=68  Identities=18%  Similarity=0.144  Sum_probs=58.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceE--EEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVY--RLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~--~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||+++|+++|+++|++| + |.  .|+|++| .|+++|||||+|.+.++|++|+...+..+...
T Consensus        41 ~~~~lfVgnLp~~~te~dL~~~F~~~-~-i~~~~v~i~~d~~GrsrGfaFV~F~~~e~A~~Al~~~~~~l~gR  111 (126)
T 2hgm_A           41 NDGFVRLRGLPFGCTKEEIVQFFSGL-E-IVPNGITLPVDPEGKITGEAFVQFASQELAEKALGKHKERIGHR  111 (126)
T ss_dssp             SCCEEEEECCCTTCCHHHHHHHTTTS-C-EEEEEEECCCCSSSSSCSEEEEEESSTTHHHHHHTTTTCCBTTB
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcC-C-ceeeEEEEEECCCCCCceEEEEEECCHHHHHHHHHHCCCEECCE
Confidence            45799999999999999999999995 5 66  8999987 67899999999999999999998755444333

>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=99.24  E-value=1.6e-11  Score=103.28  Aligned_cols=75  Identities=16%  Similarity=0.292  Sum_probs=61.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||..+|+++|+++|++| |.|.+|.++++ +.++|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~v~i~~~-~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   83 (115)
T 3lqv_A            7 VNRILYIRNLPYKITAEEMYDIFGKY-GPIRQIRVGNT-PETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYN   83 (115)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEECS-TTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEeeC-CCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            45899999999999999999999995 99999999875 44699999999999999999886555443332  355554

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

Probab=99.24  E-value=3.1e-12  Score=108.11  Aligned_cols=61  Identities=11%  Similarity=0.200  Sum_probs=55.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--C---CCcceEEEEEeCCHHHHHHHHhhc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--Y---HHSTRIAFVEFVMVIASSTLFIHT  414 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~---g~srGfAFVeF~s~e~A~kal~~~  414 (437)
                      ..++|||+|||+++|+++|+++|++| |.|. +.++.+  .   |+++|||||+|.+.++|++|+...
T Consensus         7 ~~~~lfVgnLp~~~te~~L~~~F~~~-G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~   72 (114)
T 2dnl_A            7 GSRKVFVGGLPPDIDEDEITASFRRF-GPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDAC   72 (114)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHTTTT-CCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHS
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhc-CCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhh
Confidence            35899999999999999999999995 9999 888776  2   679999999999999999998876

>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=99.24  E-value=6.3e-12  Score=103.69  Aligned_cols=76  Identities=16%  Similarity=0.183  Sum_probs=59.5

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| | |.+|+++++   .|+++|||||+|.+.++|.+|+......+.+.+ .|.|
T Consensus        17 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G-i~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g~~~~g~~l~V~~   94 (100)
T 2j76_E           17 SPPYTAFLGNLPYDVTEESIKEFFRGL-N-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNRRIRVDV   94 (100)
T ss_dssp             ---CEEEESCCSSCCSSSHHHHHSCSS-C-EEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTTCCBTTBCCCCEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc-C-CeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCCCEECCeEEEEEe
Confidence            356899999999999999999999995 9 999999987   467999999999999999999943333333322 3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      +.
T Consensus        95 a~   96 (100)
T 2j76_E           95 AD   96 (100)
T ss_dssp             CC
T ss_pred             cc
Confidence            54

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

Probab=99.24  E-value=2.2e-11  Score=98.16  Aligned_cols=71  Identities=17%  Similarity=0.327  Sum_probs=58.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|++.      +|||||+|.+.++|.+|+...+...++..  .+.|+..
T Consensus         7 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~~   79 (90)
T 2dnq_A            7 GMVKLFIGNLPREATEQEIRSLFEQY-GKVLECDII------KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN   79 (90)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHHHTS-SCEEEEEEE------TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSSC
T ss_pred             CCeEEEEeCCCCCCCHHHHHHHHHhC-CCEEEEEEE------CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECCC
Confidence            45899999999999999999999995 999999998      57999999999999999876665433332  4666544

>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=99.23  E-value=4.4e-12  Score=106.13  Aligned_cols=73  Identities=11%  Similarity=0.098  Sum_probs=59.3

Q ss_pred             cccEEEEEcCCc-cCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc----eeccCchhhh
Q 013726          352 CARTIYCTNIDK-KVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF----YILHNPSIAW  426 (437)
Q Consensus       352 ~~~tL~V~NLp~-~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~----~~~~~~~i~~  426 (437)
                      +.++|||+|||+ ++|++||+++|++| |.|.+|+|+++    +|||||+|++.++|.+|+...+.    +..+...+.|
T Consensus        14 p~~~l~V~nLp~~~~te~dL~~lF~~f-G~V~~v~i~~~----kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~   88 (102)
T 1x4d_A           14 TRRVVHIMDFQRGKNLRYQLLQLVEPF-GVISNHLILNK----INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHL   88 (102)
T ss_dssp             CCCEEEEESCCCSSSHHHHHHTTTGGG-SCEEEEEECSS----SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHhc-CCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEE
Confidence            568999999999 99999999999996 99999999875    46999999999999888875432    2233335666


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      |..
T Consensus        89 a~~   91 (102)
T 1x4d_A           89 SQK   91 (102)
T ss_dssp             ECC
T ss_pred             CCC
Confidence            653

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

Probab=99.23  E-value=1.1e-11  Score=103.37  Aligned_cols=60  Identities=17%  Similarity=0.202  Sum_probs=53.5

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      .++++|||+|||+++|+++|+++|++| |.|.+++++++    ||||||+|.+.++|.+|+...+
T Consensus        19 ~ps~~l~V~NLp~~~te~~L~~lF~~f-G~V~~v~i~~~----kg~AFVef~~~~~A~~Av~~ln   78 (100)
T 3r27_A           19 PASPVVHIRGLIDGVVEADLVEALQEF-GPISYVVVMPK----KRQALVEFEDVLGACNAVNYAA   78 (100)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHH
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHhcc-CCEEEEEEEcC----CCEEEEEECCHHHHHHHHHHhc
Confidence            356899999999999999999999996 99999999863    6799999999999988877543

>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=99.22  E-value=1.2e-11  Score=115.41  Aligned_cols=76  Identities=13%  Similarity=0.109  Sum_probs=67.6

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCe--eEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeee----eeE
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQV--VDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFY----PVR  326 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I--~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr----~L~  326 (437)
                      ...++|||+|||+++|+++|+++|++||.|  .++++..+....+|||||+|.+.++|.+|+. |||..+.|.    ++.
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~~~~~p~~  200 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNPNGPYPYT  200 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCSSSSSCEE
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCCCCCcceE
Confidence            456899999999999999999999999999  8999988765557999999999999999999 999999887    455


Q ss_pred             Eec
Q 013726          327 VLP  329 (437)
Q Consensus       327 V~~  329 (437)
                      |++
T Consensus       201 vk~  203 (205)
T 3tyt_A          201 LKL  203 (205)
T ss_dssp             CEE
T ss_pred             EEe
Confidence            554

>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=99.22  E-value=2e-11  Score=99.72  Aligned_cols=74  Identities=8%  Similarity=0.180  Sum_probs=60.7

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc----Cchhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH----NPSIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~----~~~i~~  426 (437)
                      ...++|||+|||.++|+++|+++|++| |.|.+|.+..+    +|||||+|.+.++|++|+...+...+.    ...+.|
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~v~~~~~----~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~   89 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRF-GSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDF   89 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTT-SCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeeEEEEeCC----CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEE
Confidence            345899999999999999999999995 99999999865    679999999999999998865554433    224666


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      +..
T Consensus        90 a~~   92 (97)
T 1why_A           90 AKS   92 (97)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

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

Probab=99.22  E-value=1.8e-11  Score=99.64  Aligned_cols=75  Identities=21%  Similarity=0.263  Sum_probs=61.6

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..+   ...+.++|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus        14 ~~~~~l~V~nL~~~~t~~~l~~~F~~~-g~v~~~---~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   89 (96)
T 1fjc_A           14 RAARTLLAKNLSFNITEDELKEVFEDA-LEIRLV---SQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSE-EEECCE---EETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhC-CcEEEe---CCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            356899999999999999999999995 988777   55788999999999999999999997666544433  355554


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      +
T Consensus        90 ~   90 (96)
T 1fjc_A           90 E   90 (96)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.22  E-value=2.9e-11  Score=101.06  Aligned_cols=72  Identities=13%  Similarity=0.087  Sum_probs=61.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC-------chh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN-------PSI  424 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~-------~~i  424 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..|.|+.+     |||||+|.+.++|++|+...+...+..       ..|
T Consensus        14 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V   87 (108)
T 1x4c_A           14 SENRVVVSGLPPSGSWQDLKDHMREA-GDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRV   87 (108)
T ss_dssp             CCCEEEEESCCSSCCHHHHHHHHGGG-SCEEEEEEETT-----TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEeEEEEecC-----CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEE
Confidence            35899999999999999999999995 99999999987     799999999999999999777655543       246


Q ss_pred             hhhhh
Q 013726          425 AWLEE  429 (437)
Q Consensus       425 ~~~~~  429 (437)
                      .||..
T Consensus        88 ~~a~~   92 (108)
T 1x4c_A           88 KVDGP   92 (108)
T ss_dssp             EESSC
T ss_pred             EeCCC
Confidence            66654

>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=99.22  E-value=1.7e-11  Score=116.53  Aligned_cols=76  Identities=17%  Similarity=0.180  Sum_probs=63.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCC--ceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCG--EVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G--~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ..++|||+|||+++|+++|+++|++| |  .|.+|+|++|  +++++|||||+|.+.++|.+|+...+...++..  .|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~-G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~  145 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSL-GVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT  145 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTT-TCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHH-CCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEE
Confidence            45799999999999999999999995 9  9999999988  678999999999999999999987665444433  455


Q ss_pred             hhh
Q 013726          426 WLE  428 (437)
Q Consensus       426 ~~~  428 (437)
                      ||.
T Consensus       146 ~a~  148 (229)
T 3q2s_C          146 PVN  148 (229)
T ss_dssp             ECC
T ss_pred             ECC
Confidence            553

>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=99.22  E-value=1.3e-11  Score=105.81  Aligned_cols=68  Identities=16%  Similarity=0.146  Sum_probs=56.3

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ...++|||+|||+++|+++|+++|++| |.|..+.++.+  ++.++|||||+|.+.++|.+|+......+.
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~-G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g~~~~   92 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKL-DIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMG   92 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSS-CBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCST
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhc-CCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCCCeEC
Confidence            345899999999999999999999995 99988544443  678999999999999999999994433333

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

Probab=99.22  E-value=1.3e-11  Score=101.59  Aligned_cols=72  Identities=13%  Similarity=0.123  Sum_probs=59.8

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCce--eccCchhhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFY--ILHNPSIAWLEE  429 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~--~~~~~~i~~~~~  429 (437)
                      ++|||+|||.++|+++|+++|++| |.|..|.++++   ++|||||+|.+.++|.+|+...+..  ..+...+.|+..
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~v~i~~~---~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   74 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYY-GPLRTVWIARN---PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTG   74 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHH-CCCSEEEEESS---SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEeeC---CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEccC
Confidence            489999999999999999999996 99999999987   7889999999999999888754332  233335666654

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.21  E-value=1.8e-11  Score=100.63  Aligned_cols=74  Identities=14%  Similarity=0.159  Sum_probs=60.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ...++|||+|||.++|+++|+++|++| |.|   +++.+ .++++|||||+|.+.++|++|+...+...++..  .+.|+
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-g~v---~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           13 GESKTLVLSNLSYSATEETLQEVFEKA-TFI---KVPQNQNGKSKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHCSSC-SEE---ECCBCSSSCBCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhC-CEE---EEEECCCCCEeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            356899999999999999999999995 987   55555 677999999999999999999987666544433  35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        89 ~   89 (101)
T 2fc9_A           89 G   89 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.21  E-value=2.8e-11  Score=105.00  Aligned_cols=76  Identities=14%  Similarity=0.224  Sum_probs=62.1

Q ss_pred             cccEEEEEcCCccCCHHHHH----HHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          352 CARTIYCTNIDKKVTQADVK----LFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLr----elF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      +.++|||+|||+.+++++|+    ++|++| |.|.+|.+.+ +++++|||||+|.+.++|.+|+...+++.+...  .|.
T Consensus        28 p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~-G~I~~v~i~~-~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~  105 (127)
T 2a3j_A           28 PSQVVLITNINPEVPKEKLQALLYALASSQ-GDILDIVVDL-SDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVIT  105 (127)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHHHH-SCEEEEEECC-CCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhccC-CCeEEEEecc-CCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEE
Confidence            45799999999999999876    799996 9999998864 577899999999999999999887666544333  466


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      ||..
T Consensus       106 ~a~~  109 (127)
T 2a3j_A          106 FSET  109 (127)
T ss_dssp             ECCC
T ss_pred             EccC
Confidence            6654

>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=99.20  E-value=2.4e-11  Score=99.70  Aligned_cols=74  Identities=11%  Similarity=0.219  Sum_probs=60.5

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||..+|+++|+++|++| |.|..|++.++    +|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~i~~v~~~~~----kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpj_A           13 TQRSRLFVGNLPPDITEEEMRKLFEKY-GKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   87 (99)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTT-CCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhc-CCeEEEEEecC----CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcC
Confidence            345899999999999999999999995 99999999865    67999999999999999876555433332  466665


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        88 ~   88 (99)
T 2cpj_A           88 H   88 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.20  E-value=2.6e-11  Score=102.25  Aligned_cols=72  Identities=21%  Similarity=0.344  Sum_probs=60.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..|.+++    ++|||||+|.+.++|.+|+...+...+...  .+.||.
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~-G~i~~v~i~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   82 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRF-GSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAP   82 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEeC----CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            35799999999999999999999995 9999999875    567999999999999999887666544333  466764

>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=99.20  E-value=3.3e-11  Score=100.68  Aligned_cols=75  Identities=17%  Similarity=0.341  Sum_probs=61.8

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ....++|||+|||..+|+++|+++|++| |.|..|++.++    +|||||+|.+.++|.+|+...+...++..  .|.|+
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~-G~i~~v~i~~~----~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   96 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPF-GQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWG   96 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHH-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEec
Confidence            3456899999999999999999999996 99999999987    67999999999999999876555433333  46666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        97 ~~   98 (109)
T 1x4g_A           97 KE   98 (109)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

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

Probab=99.19  E-value=3e-11  Score=99.30  Aligned_cols=72  Identities=15%  Similarity=0.274  Sum_probs=59.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.++++.+    ++|||||+|.+.++|.+|+...+...++..  .+.||.
T Consensus        26 ~~~~l~V~nlp~~~~~~~l~~~f~~~-G~i~~~~~~~----~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           26 RVTTAYIGNIPHFATEADLIPLFQNF-GFILDFKHYP----EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             SCCEEEEESCCTTCCHHHHHHHHHTT-SCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             CCCEEEEcCCCcccCHHHHHHHHHhC-CCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            45899999999999999999999995 9999999983    567999999999999999876555443333  355554

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.19  E-value=1.4e-11  Score=100.33  Aligned_cols=76  Identities=18%  Similarity=0.311  Sum_probs=61.6

Q ss_pred             cccEEEEEcCCccCCHHHHH----HHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          352 CARTIYCTNIDKKVTQADVK----LFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLr----elF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ..++|||+|||.++++++|+    ++|++| |.|..|.+.+ .+.++|||||+|.+.++|.+|+...+...++..  .+.
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~-G~i~~v~i~~-~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   84 (97)
T 1nu4_A            7 PNHTIYINNLNEKIKKDELKKSLHAIFSRF-GQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   84 (97)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGG-SCEEEEECCH-HHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHHHhC-CCEEEEEEEc-CCCcCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            45899999999999999999    999995 9999999874 466789999999999999999876554433332  355


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      |+..
T Consensus        85 ~a~~   88 (97)
T 1nu4_A           85 YAKT   88 (97)
T ss_dssp             ECSS
T ss_pred             EccC
Confidence            5543

>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=99.19  E-value=3.5e-11  Score=95.52  Aligned_cols=58  Identities=19%  Similarity=0.381  Sum_probs=53.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHT  414 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~  414 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|++.++    +|||||+|.+.++|.+|+...
T Consensus        11 ~~~~l~V~~l~~~~t~~~l~~~f~~~-G~i~~~~~~~~----kg~afV~f~~~~~A~~a~~~l   68 (85)
T 2ytc_A           11 TITTLYVGGLGDTITETDLRNHFYQF-GEIRTITVVQR----QQCAFIQFATRQAAEVAAEKS   68 (85)
T ss_dssp             SCCCEEEECCTTTSCHHHHHHHHHTT-SCEEEEEEEGG----GTEEEEEESSHHHHHHHHHTT
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhC-CCEeEEEEECC----CCEEEEEECCHHHHHHHHHHh
Confidence            45899999999999999999999995 99999999974    679999999999999999854

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=99.18  E-value=2.9e-11  Score=102.60  Aligned_cols=67  Identities=10%  Similarity=-0.042  Sum_probs=58.1

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCC-ceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G-~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ..+|||+|||+++|+++|+++|+++ | .|..+.+..+  .++|||||+|.+.++|++|+...+...+...
T Consensus        28 ~~~l~VgnLp~~~te~dL~~~F~~~-G~~v~~v~i~~~--~~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr   95 (111)
T 2jvr_A           28 RYRITMKNLPEGCSWQDLKDLAREN-SLETTFSSVNTR--DFDGTGALEFPSEEILVEALERLNNIEFRGS   95 (111)
T ss_dssp             CEEEEEECSSCCCCHHHHHHHHHHH-TCCCSEEECSSC--SSSCCEEEEESSHHHHHHHHHHTTTEEETTE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHh-CCeeEEEEEEcC--CCCCEEEEEECCHHHHHHHHHHcCCCEECCe
Confidence            4799999999999999999999996 9 9999998643  4789999999999999999987766554443

>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=99.17  E-value=3.7e-11  Score=100.48  Aligned_cols=70  Identities=17%  Similarity=0.259  Sum_probs=57.6

Q ss_pred             cccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.+ +|+++|+++|++| |.|..|.+      ++|||||+|.+.++|.+|+...+...++..  .|.|+.
T Consensus        26 ~~~~l~V~nl~~~~~t~~~l~~~F~~~-G~v~~v~i------~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   98 (110)
T 1wf1_A           26 INSRVFIGNLNTALVKKSDVETIFSKY-GRVAGCSV------HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAG   98 (110)
T ss_dssp             CSSEEEECSCCCSSCCHHHHHHHHGGG-SCCSEEEE------ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESC
T ss_pred             CCcEEEEeCCCcccCCHHHHHHHHHhC-CCeEEEEE------eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            3479999999999 9999999999995 99999999      578999999999999999866554433332  455654

>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=99.17  E-value=7.1e-11  Score=99.22  Aligned_cols=76  Identities=18%  Similarity=0.235  Sum_probs=60.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCce----EEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEV----YRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SI  424 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I----~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i  424 (437)
                      ...++|||+|||.++|+++|+++|++| |.|    ..+++.  .+.++|||||+|.+.++|.+|+...+...+...  .+
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~-G~v~~~~~~~~~~--~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v   99 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARF-QEKKGPPIQFRMM--TGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI   99 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHH-HHSSSSCCEEEEE--CSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHh-CCccceEEEEEcC--CCccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE
Confidence            356899999999999999999999996 999    444444  778999999999999999999986555433332  45


Q ss_pred             hhhhh
Q 013726          425 AWLEE  429 (437)
Q Consensus       425 ~~~~~  429 (437)
                      .|+..
T Consensus       100 ~~a~~  104 (115)
T 2cpx_A          100 EFGKN  104 (115)
T ss_dssp             EECCC
T ss_pred             EEccC
Confidence            56543

>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=99.16  E-value=7.4e-11  Score=93.90  Aligned_cols=64  Identities=27%  Similarity=0.396  Sum_probs=55.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcC----C-------ceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVC----G-------EVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~----G-------~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..++|||+|||.++|+++|+++|++ |    |       .|.++++.++    +|||||+|.+.++|.+|+ ..+...++
T Consensus         5 ~~~~l~V~nLp~~~t~~~l~~~F~~-~~~~~g~~~~~~~~v~~~~~~~~----kg~afV~f~~~~~a~~A~-~l~g~~~~   78 (87)
T 2hzc_A            5 SARRLYVGNIPFGITEEAMMDFFNA-QMRLGGLTQAPGNPVLAVQINQD----KNFAFLEFRSVDETTQAM-AFDGIIFQ   78 (87)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHH-HHHHTTCCSSSSCSEEEEEECSS----SSEEEEEESSHHHHHHHG-GGTTCEET
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHH-HhhhcccccCCCCcceEEEecCC----CcEEEEEcCCHHHHHHHH-hcCCCEEC
Confidence            4589999999999999999999999 6    7       8999999865    679999999999999999 65555444


Q ss_pred             C
Q 013726          421 N  421 (437)
Q Consensus       421 ~  421 (437)
                      .
T Consensus        79 g   79 (87)
T 2hzc_A           79 G   79 (87)
T ss_dssp             T
T ss_pred             C
Confidence            3

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

Probab=99.16  E-value=4.1e-11  Score=100.59  Aligned_cols=72  Identities=15%  Similarity=0.307  Sum_probs=59.5

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ....++|||+|||.++|+++|+++|++| |.|..|++.      +|||||+|.+.++|.+|+...+...+...  .+.|+
T Consensus        28 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~-G~i~~v~i~------kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (108)
T 2jvo_A           28 ELSNTRLFVRPFPLDVQESELNEIFGPF-GPMKEVKIL------NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYS  100 (108)
T ss_dssp             CCSCSEEEECSSCTTCCHHHHHHHHTTT-SCCCEEEEE------TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhc-CCEEEEEEE------CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            4567899999999999999999999995 999999998      68999999999999999886555433332  35555


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus       101 ~  101 (108)
T 2jvo_A          101 K  101 (108)
T ss_dssp             S
T ss_pred             c
Confidence            4

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

Probab=99.16  E-value=9e-12  Score=102.46  Aligned_cols=75  Identities=8%  Similarity=0.063  Sum_probs=59.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.. .++.+  .+.++|||||+|.+.++|.+|+. .+...+...  .+.|+
T Consensus        16 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a   92 (101)
T 1fj7_A           16 TPFNLFIGNLNPNKSVAELKVAISEL-FAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   92 (101)
T ss_dssp             CSEEEEEECCCTTSCHHHHHHHHHHH-HHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEc
Confidence            45899999999999999999999996 99988 55554  57799999999999999999998 444333322  45565


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        93 ~~   94 (101)
T 1fj7_A           93 KG   94 (101)
T ss_dssp             SC
T ss_pred             CC
Confidence            43

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

Probab=99.16  E-value=6e-11  Score=96.90  Aligned_cols=71  Identities=10%  Similarity=0.148  Sum_probs=57.7

Q ss_pred             ccccEEEEEcCCc-cCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec--cCchhhhh
Q 013726          351 MCARTIYCTNIDK-KVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL--HNPSIAWL  427 (437)
Q Consensus       351 ~~~~tL~V~NLp~-~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~--~~~~i~~~  427 (437)
                      ...++|||+|||. .+|+++|+++|++| |.|..|++.      +|||||+|.+.++|.+|+...+...+  +...|.|+
T Consensus         8 ~~~~~l~V~nlp~~~~t~~~l~~~F~~~-G~v~~v~i~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   80 (96)
T 2kvi_A            8 PPKSRLFIGNLPLKNVSKEDLFRIFSPY-GHIMQINIK------NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS   80 (96)
T ss_dssp             -CCEEEEEESSTTSCCCHHHHHHHHTTT-CCCCEEEEE------TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhc-CCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEc
Confidence            3568999999998 99999999999995 999999995      67999999999999999886554333  22246665


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        81 ~   81 (96)
T 2kvi_A           81 S   81 (96)
T ss_dssp             E
T ss_pred             C
Confidence            4

>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=99.16  E-value=8.2e-11  Score=96.66  Aligned_cols=62  Identities=11%  Similarity=0.213  Sum_probs=54.5

Q ss_pred             ccccEEEEEcCCc-cCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          351 MCARTIYCTNIDK-KVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       351 ~~~~tL~V~NLp~-~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ...++|||+|||. ++++++|+++|++| |.|..+++.      +|||||+|.+.++|.+|+...+...+
T Consensus        20 ~~~~~l~V~nLp~~~~t~~~L~~~F~~~-G~v~~v~i~------~g~afV~f~~~~~A~~Ai~~l~g~~~   82 (97)
T 2xnq_A           20 HMKSRLFIGNLPLKNVSKEDLFRIFSPY-GHIMQINIK------NAFGFIQFDNPQSVRDAIEXESQEMN   82 (97)
T ss_dssp             CTTCEEEEESCCSSCCCHHHHHHHHGGG-SCEEEEEEC------SSEEEEEESSHHHHHHHHHHHTTSEE
T ss_pred             CCCCEEEEeCCCcccCCHHHHHHHHHhc-CCEEEEEEe------CCEEEEEECCHHHHHHHHHHcCCCEE
Confidence            3468999999998 99999999999995 999999994      68999999999999999886655443

>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=99.16  E-value=3.6e-11  Score=102.30  Aligned_cols=77  Identities=16%  Similarity=0.178  Sum_probs=61.9

Q ss_pred             cccccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC--c--eeccCchh
Q 013726          350 EMCARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE--F--YILHNPSI  424 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~--~--~~~~~~~i  424 (437)
                      ..++++|||+|||++ +|+++|+++|++| |.|.+|+|.+    ++|||||+|.+.++|.+|+...+  .  +..+...+
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~f-G~V~~v~i~~----~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V   96 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPY-GKIKNYILMR----MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKV   96 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTT-SCCSEEEEET----TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhc-CCEEEEEEec----CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEE
Confidence            345789999999998 9999999999995 9999999975    46799999999999988887432  2  33344467


Q ss_pred             hhhhhhc
Q 013726          425 AWLEEFS  431 (437)
Q Consensus       425 ~~~~~~s  431 (437)
                      .||....
T Consensus        97 ~~a~~~~  103 (112)
T 1x4f_A           97 DLSEKYK  103 (112)
T ss_dssp             EEECSCS
T ss_pred             EECcccc
Confidence            7776544

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

Probab=99.16  E-value=5.7e-11  Score=108.63  Aligned_cols=76  Identities=18%  Similarity=0.165  Sum_probs=64.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||+.+++++|+++|++| |.|..|.|+.+ .+.++|||||+|.+.++|.+|+...+...+...  .|.||.
T Consensus        87 ~~~~l~V~nLp~~~te~~L~~~F~~~-G~I~~v~i~~d~~g~~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a~  165 (177)
T 2f3j_A           87 TGAKLLVSNLDFGVSDADIQELFAEF-GTLKKAAVDYDRSGRSLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  165 (177)
T ss_dssp             TCEEEEEECCCSCCCHHHHHHHHHHT-SCCSEEEECCCTTSSCSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEEECCCCCEeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            45899999999999999999999995 99999999988 577999999999999999999986665444333  355554

>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=99.15  E-value=4.7e-11  Score=101.16  Aligned_cols=64  Identities=14%  Similarity=0.140  Sum_probs=55.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..|.|+.+     |||||+|.+.++|++|+...+...++.
T Consensus        15 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g   78 (115)
T 3beg_B           15 SENRVVVSGLPPSGSWQDLKDHMREA-GDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRS   78 (115)
T ss_dssp             --CCEEEEECCSSCCTTHHHHHHGGG-SCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEecC-----CEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            34799999999999999999999995 99999999887     799999999999999998766655444

>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=99.15  E-value=2.9e-11  Score=101.17  Aligned_cols=70  Identities=17%  Similarity=0.353  Sum_probs=61.8

Q ss_pred             EecCCccchHHHHHHHH------------hcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          261 VSDIDQQVTEEQLAALF------------VGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       261 VgNLp~~~tee~L~~~F------------~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      +.||+..+++++|++.|            ++||.|.+|+++.+..+ ++|||||+|.+.++|.+|+. |||..++|+.|.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~   99 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIH   99 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECC
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECCEEEE
Confidence            56788888888887766            99999999999887643 69999999999999999999 999999999999


Q ss_pred             Eecc
Q 013726          327 VLPS  330 (437)
Q Consensus       327 V~~s  330 (437)
                      |.++
T Consensus       100 v~~s  103 (104)
T 1jmt_A          100 AELS  103 (104)
T ss_dssp             EEEC
T ss_pred             EEEc
Confidence            9875

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.15  E-value=5.5e-11  Score=97.20  Aligned_cols=74  Identities=22%  Similarity=0.233  Sum_probs=58.2

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|. ++++.  +.++|||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus        17 ~~~~~l~V~nL~~~~t~~~l~~~F~~~-G~v~-~~~~~--~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           17 PLAADVYVGNLPRDARVSDLKRALREL-GSVP-LRLTW--QGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALAR   92 (97)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHHT-TCCC-SEEEE--ETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECC
T ss_pred             CCCCEEEEeCCCCcCcHHHHHHHHHhc-CCEE-EEEEc--CCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            345899999999999999999999995 9997 66664  36789999999999999999876555433332  355543

>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=99.15  E-value=6e-11  Score=98.06  Aligned_cols=71  Identities=17%  Similarity=0.235  Sum_probs=58.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..|++++      |||||+|.+.++|.+|+...+...++..  .+.|+..
T Consensus        10 ~~~~l~V~nl~~~~t~~~l~~~F~~~-G~i~~v~~~~------~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~   82 (103)
T 2dgu_A           10 KVKVLFVRNLANTVTEEILEKAFSQF-GKLERVKKLK------DYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAKP   82 (103)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHH-SCEEEEEECS------SCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCEEEEEEEC------CEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEcCC
Confidence            45899999999999999999999996 9999999873      5999999999999999986555444333  3556543

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

Probab=99.13  E-value=1e-10  Score=94.53  Aligned_cols=71  Identities=15%  Similarity=0.183  Sum_probs=58.7

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|.+.++      ||||+|.+.++|.+|+...+...++..  .+.|+.
T Consensus         8 ~~~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~v~~~~~------~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   80 (92)
T 2dgt_A            8 KASTKLHVGNISPTCTNQELRAKFEEY-GPVIECDIVKD------YAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST   80 (92)
T ss_dssp             CSSEEEEEESCCSSCCHHHHHHHHHTT-SCCCEEEECSS------EEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhc-CCeEEEEEECC------EEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            345899999999999999999999995 99999999843      999999999999999976665544433  355554

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

Probab=99.12  E-value=1.7e-10  Score=94.52  Aligned_cols=72  Identities=15%  Similarity=0.224  Sum_probs=59.0

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcC--CceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVC--GEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~--G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      ...++|||+|||..+|+++|+++|++ |  |.|..|++.      +|||||+|.+.++|.+|+...+...++..  .+.|
T Consensus        13 ~~~~~l~V~nLp~~~t~~~l~~~F~~-~g~g~v~~~~~~------~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   85 (99)
T 2cpd_A           13 SSVKILYVRNLMLSTSEEMIEKEFNN-IKPGAVERVKKI------RDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTL   85 (99)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHT-TSTTCEEEEEEC------SSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             CCcCEEEEeCCCCCCCHHHHHHHHHh-cCCcceEEEEEe------CCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            35689999999999999999999998 8  889999875      56999999999999999986665544433  3556


Q ss_pred             hhh
Q 013726          427 LEE  429 (437)
Q Consensus       427 ~~~  429 (437)
                      +..
T Consensus        86 a~~   88 (99)
T 2cpd_A           86 AKP   88 (99)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            544

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

Probab=99.12  E-value=1e-10  Score=94.20  Aligned_cols=72  Identities=15%  Similarity=0.214  Sum_probs=58.8

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||.++|+++|+++|++| |.|..|++.++      ||||+|.+.++|++|+...+...++..  .+.|+.
T Consensus         7 ~~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~~~~~~~------~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   79 (90)
T 2dnp_A            7 GNTWKIFVGNVSAACTSQELRSLFERR-GRVIECDVVKD------YAFVHMEKEADAKAAIAQLNGKEVKGKRINVELST   79 (90)
T ss_dssp             CCSCCEEEESCCTTCCHHHHHHHHHHH-SCEEEEEECSS------CEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHcC-CCEEEEEEECC------EEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECC
Confidence            345899999999999999999999996 99999999843      999999999999999886555433332  455554


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        80 ~   80 (90)
T 2dnp_A           80 K   80 (90)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.12  E-value=4e-11  Score=104.98  Aligned_cols=76  Identities=18%  Similarity=0.199  Sum_probs=60.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEE-------EEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRL-------RLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v-------~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--  422 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..+       .....++.++|||||+|.+.++|.+|+...+.+.++..  
T Consensus        44 ~~~~l~V~nLp~~~te~~L~~~F~~~-G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l  122 (143)
T 3egn_A           44 PNCRIYVKNLAKHVQEKDLKYIFGRY-VDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPM  122 (143)
T ss_dssp             CCSEEEEEEECTTCCHHHHHHHHGGG-CCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEE
Confidence            45899999999999999999999995 999874       11123678999999999999999999987666555443  


Q ss_pred             hhhhhh
Q 013726          423 SIAWLE  428 (437)
Q Consensus       423 ~i~~~~  428 (437)
                      .|.||.
T Consensus       123 ~V~~a~  128 (143)
T 3egn_A          123 VVQFAR  128 (143)
T ss_dssp             EEEECC
T ss_pred             EEEECC
Confidence            356654

>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=99.12  E-value=1.3e-10  Score=97.41  Aligned_cols=77  Identities=16%  Similarity=0.130  Sum_probs=66.6

Q ss_pred             CCcEEEEecC--Cccc--------hHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeE
Q 013726          255 IRRTVYVSDI--DQQV--------TEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTM  319 (437)
Q Consensus       255 ~~rtLfVgNL--p~~~--------tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~  319 (437)
                      +++.|.+.|+  |...        .+++|++.|++||.|.+|+++.++.+    ++|+|||+|.+.++|.+|+. |||..
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~~   83 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   83 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTCE
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCCE
Confidence            5678999998  3232        45799999999999999999887643    58999999999999999999 99999


Q ss_pred             eeeeeeEEeccC
Q 013726          320 LGFYPVRVLPSK  331 (437)
Q Consensus       320 l~Gr~L~V~~s~  331 (437)
                      ++|+.|.|.+..
T Consensus        84 f~GR~i~v~~~~   95 (105)
T 3v4m_A           84 FANRVVVTKYCD   95 (105)
T ss_dssp             ETTEECEEEEEC
T ss_pred             eCCCEEEEEEeC
Confidence            999999999864

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.11  E-value=1.1e-10  Score=95.84  Aligned_cols=76  Identities=17%  Similarity=0.258  Sum_probs=58.5

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhh
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIA  425 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~  425 (437)
                      ....++|||+|||.++|+++|+++|+++ +   .+.++.+  .+.++|||||+|.+.++|.+|+...+...+...  .|.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~-~---~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~   87 (102)
T 2fc8_A           12 SQPSKTLFVKGLSEDTTEETLKESFDGS-V---RARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLD   87 (102)
T ss_dssp             SCCCSSEEEECCCTTCCHHHHHHTSTTC-S---EEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCccCHHHHHHHhcCC-e---EEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            3456899999999999999999999985 5   4555555  677999999999999999999875444333322  466


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      |+..
T Consensus        88 ~a~~   91 (102)
T 2fc8_A           88 WAKP   91 (102)
T ss_dssp             ECCC
T ss_pred             EecC
Confidence            6543

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

Probab=98.71  E-value=6.8e-12  Score=106.04  Aligned_cols=77  Identities=16%  Similarity=0.167  Sum_probs=63.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE--------EEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR--------LRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~--------v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..        |+++.+  .+.++|||||+|.+.++|.+|+...+...+..
T Consensus         6 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g   84 (116)
T 2lcw_A            6 DNNTIFVQGLGENVTIESVADYFKQI-GIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDGKEFSG   84 (116)
Confidence            45899999999999999999999995 99999        888877  56799999999999999999988655443332


Q ss_pred             c--hhhhhhh
Q 013726          422 P--SIAWLEE  429 (437)
Q Consensus       422 ~--~i~~~~~  429 (437)
                      .  .+.|+..
T Consensus        85 ~~l~V~~a~~   94 (116)
T 2lcw_A           85 NPIKVSFATR   94 (116)
Confidence            2  4666654

>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=99.10  E-value=1.2e-10  Score=105.28  Aligned_cols=74  Identities=12%  Similarity=0.124  Sum_probs=62.1

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec----cCchhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL----HNPSIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~----~~~~i~~~~  428 (437)
                      ..+|||+||++.+|+++|+++|++| |+|.+|+|..+  .++|||||+|.+.++|.+|+...++..+    ....|.|++
T Consensus        46 vl~l~VgNL~~~vted~L~~~Fs~f-G~V~~V~i~~k--~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak  122 (164)
T 1sjr_A           46 VLRIIVENLFYPVTLDVLHQIFSKF-GTVLKIITFTK--NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK  122 (164)
T ss_dssp             EEEEEECSCCSCCCHHHHHHHHHHH-SCEEEEEEEES--SSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECS
T ss_pred             eEEEEEeCcCCCCCHHHHHHHHHhc-CCEEEEEEEeC--CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEec
Confidence            4689999999999999999999996 99999999754  3578999999999999999887777655    233577776


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus       123 ~  123 (164)
T 1sjr_A          123 L  123 (164)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.09  E-value=3.4e-10  Score=91.89  Aligned_cols=72  Identities=19%  Similarity=0.188  Sum_probs=55.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|.+.+..+.   ||||+|.+.++|.+|+. .+...+...  .+.|+.
T Consensus         7 ~~~~l~V~nl~~~~t~~~l~~~F~~~-G~v~~v~~~~~~g~---~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~   80 (94)
T 2e5g_A            7 GLRSVFVSGFPRGVDSAQLSEYFLAF-GPVASVVMDKDKGV---FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPRE   80 (94)
T ss_dssp             TCCEEEEECCCTTCCHHHHHHHGGGT-SCEEEEEECSSSCC---EEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc-CCeEEEEEcCCCCc---EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECC
Confidence            34799999999999999999999995 99999833233443   99999999999999999 555443332  345543

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.09  E-value=9.9e-11  Score=99.87  Aligned_cols=62  Identities=11%  Similarity=0.163  Sum_probs=54.6

Q ss_pred             cccEEEE--EcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          352 CARTIYC--TNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       352 ~~~tL~V--~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ++++|||  +||+.++|+++|+++|++| |.|.+|.++.+    +|||||+|.+.++|++|+..+++..
T Consensus        24 pt~~L~V~Ng~L~~~~te~~L~~~F~~f-G~v~~v~i~~~----rgfaFV~f~~~~~A~~Ai~~lnG~~   87 (114)
T 2cq2_A           24 ATQSLVVANGGLGNGVSRNQLLPVLEKC-GLVDALLMPPN----KPYSFARYRTTEESKRAYVTLNGKE   87 (114)
T ss_dssp             CCSEEEEETCTGGGTCCHHHHHHHHHHH-SCEEEEECCTT----CSCEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCEEEEECCCCCCCCCHHHHHHHHHhc-CCeEEEEEeCC----CCEEEEEECCHHHHHHHHHHhCCCE
Confidence            4679999  6699999999999999996 99999988753    7899999999999999998777653

>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=99.09  E-value=9.9e-11  Score=94.08  Aligned_cols=70  Identities=11%  Similarity=0.120  Sum_probs=58.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++ | .|.++++.    +++|||||+|.+.++|.+|+...+...++..  .+.|+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~-~-~v~~~~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   75 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKD-Y-DLKYCYVD----RNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQ   75 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCS-S-CCCCEEEE----GGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhh-C-CeEEEEEe----CCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEc
Confidence            3479999999999999999999999 5 89999884    6788999999999999999987766544443  34444

>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=99.07  E-value=7.6e-11  Score=95.39  Aligned_cols=72  Identities=18%  Similarity=0.168  Sum_probs=56.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCc-eEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc-eeccC--chhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGE-VYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF-YILHN--PSIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~-I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~-~~~~~--~~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |. |..+.+.     ++|||||+|.+.++|.+|+...+. ..+..  ..+.|+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~vv~~~~~~-----~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A            7 GMNKLYIGNLSPAVTADDLRQLFGDR-KLPLAGQVLL-----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   80 (93)
T ss_dssp             CCCCEEEECCCTTCCHHHHHHHHHHT-TCCCSSCEEE-----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHc-CCceEEEEEc-----CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEc
Confidence            45899999999999999999999995 99 6666663     478999999999999999886655 33222  246666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        81 ~~   82 (93)
T 2cqh_A           81 VS   82 (93)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>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=99.04  E-value=5e-10  Score=95.95  Aligned_cols=77  Identities=14%  Similarity=0.136  Sum_probs=67.1

Q ss_pred             CCcEEEEecCCc--c---chHHHHHHHHhcCCCeeEEEEeeCCCC------CceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          255 IRRTVYVSDIDQ--Q---VTEEQLAALFVGCGQVVDCRICGDPNS------VLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       255 ~~rtLfVgNLp~--~---~tee~L~~~F~~~G~I~~vri~~d~~~------s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      .+++|+++|+-.  +   --+++|++.|++||.|.+|+++.++.+      ++|++||+|.+.++|.+|+. |||..++|
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~G   98 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAG   98 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            678999999842  1   246899999999999999999887542      47999999999999999999 99999999


Q ss_pred             eeeEEeccC
Q 013726          323 YPVRVLPSK  331 (437)
Q Consensus       323 r~L~V~~s~  331 (437)
                      +.|.|.+..
T Consensus        99 R~i~v~~~~  107 (118)
T 3ue2_A           99 RKVVAEVYD  107 (118)
T ss_dssp             EECEEEEEC
T ss_pred             cEEEEEEcC
Confidence            999999864

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

Probab=99.04  E-value=5.4e-10  Score=91.24  Aligned_cols=71  Identities=13%  Similarity=0.152  Sum_probs=57.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|+  ++|+++|+++|++| |.|..|.+.    .++|||||+|.+.++|.+|+...+...+...  .+.|+..
T Consensus        14 ~~~~l~V~n~--~~t~~~l~~~F~~~-G~i~~v~i~----~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~~   86 (97)
T 1x5p_A           14 KGNTLYVYGE--DMTPTLLRGAFSPF-GNIIDLSMD----PPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIARK   86 (97)
T ss_dssp             CCSEEEEECS--SCCHHHHHHHHTTT-SCEEEEEEE----TTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCSS
T ss_pred             CCCEEEEcCC--CCCHHHHHHHHhhC-CCEEEEEec----CCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECCC
Confidence            4589999996  89999999999995 999999995    5677999999999999999977666544433  3556543

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

Probab=99.03  E-value=3.3e-10  Score=98.78  Aligned_cols=72  Identities=14%  Similarity=0.183  Sum_probs=59.6

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceE-EEEEeCCHHHHHHHHhhcCceeccC----chhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRI-AFVEFVMVIASSTLFIHTEFYILHN----PSIAWL  427 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGf-AFVeF~s~e~A~kal~~~~~~~~~~----~~i~~~  427 (437)
                      .-.|||+||++.+|+++|+++|++| |+|.+|++..+   .+|| |||+|.+.++|.+|+...++..+..    ..|+|+
T Consensus        28 VL~I~V~NL~~~vte~~L~~lFs~y-G~V~~V~i~~~---~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~a  103 (130)
T 3zzy_A           28 VLRIIVENLFYPVTLDVLHQIFSKF-GTVLKIITFTK---NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFS  103 (130)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTS-SCEEEEEEEEE---TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEEC
T ss_pred             eEEEEECCCCCCCCHHHHHHHHhCc-CCEEEEEEEcC---CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEec
Confidence            4678899999999999999999995 99999998864   3577 9999999999988887777755433    247776


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      +
T Consensus       104 k  104 (130)
T 3zzy_A          104 K  104 (130)
T ss_dssp             S
T ss_pred             C
Confidence            4

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

Probab=99.03  E-value=4.9e-10  Score=91.01  Aligned_cols=74  Identities=15%  Similarity=0.120  Sum_probs=58.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEE-EeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLR-LLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~-i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.+|+ ++.+..  .|.|||+|.+.++|.+|+...+...++..  .+.||.
T Consensus        14 ~~~~l~V~nlp~~~t~~~l~~~F~~~-G~v~~~~~i~~~~~--~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   90 (96)
T 2e44_A           14 RIRKLQIRNIPPHLQWEVLDSLLVQY-GVVESCEQVNTDSE--TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIP   90 (96)
T ss_dssp             SCCCEEEEEECSSSCHHHHHHHHHHH-SCEEEEEEECCSSS--SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEEcCCCCCCHHHHHHHHHhc-CCeEEEEEeecCCC--CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            35899999999999999999999996 9999995 777644  23499999999999999875555433332  355554

>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=99.01  E-value=5.6e-10  Score=112.36  Aligned_cols=75  Identities=16%  Similarity=0.219  Sum_probs=64.2

Q ss_pred             ccCCcEEEEec--CCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee---ee--e
Q 013726          253 EIIRRTVYVSD--IDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG---FY--P  324 (437)
Q Consensus       253 ~~~~rtLfVgN--Lp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~---Gr--~  324 (437)
                      ...+++|||+|  |++++|+++|+++|++||.|.+|++..    ++|||||+|.+.++|.+|++ |||..+.   |+  .
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~----~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~   90 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKIT   90 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT----TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceE
Confidence            45678999999  578999999999999999999988754    46899999999999999999 9999883   34  5


Q ss_pred             eEEeccC
Q 013726          325 VRVLPSK  331 (437)
Q Consensus       325 L~V~~s~  331 (437)
                      |.|.+..
T Consensus        91 ly~~~~~   97 (345)
T 3tht_A           91 LYLNFVE   97 (345)
T ss_dssp             CEEEECS
T ss_pred             EEEEEee
Confidence            7777653

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

Probab=98.99  E-value=4.7e-10  Score=97.48  Aligned_cols=58  Identities=10%  Similarity=0.231  Sum_probs=50.7

Q ss_pred             cEEEEEcC----CccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCC----HHH----HHHHHh
Q 013726          354 RTIYCTNI----DKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVM----VIA----SSTLFI  412 (437)
Q Consensus       354 ~tL~V~NL----p~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s----~e~----A~kal~  412 (437)
                      ++|||+||    |+.+++++|+++|++| |+|.+|.++.|  +|.++|||||+|.+    +++    |.+|+.
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~f-GeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~   74 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKY-GEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVR   74 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTT-SCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHH
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhc-CCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHH
Confidence            68999999    9999999999999995 99999999999  77899999999996    322    677766

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

Probab=98.98  E-value=7.3e-10  Score=95.84  Aligned_cols=71  Identities=18%  Similarity=0.124  Sum_probs=57.4

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceE-EEEEeCCHHHHHHHHhhcCceeccC----chhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRI-AFVEFVMVIASSTLFIHTEFYILHN----PSIAWLE  428 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGf-AFVeF~s~e~A~kal~~~~~~~~~~----~~i~~~~  428 (437)
                      ..|||+||++.+|+++|+++|++| |.|.+|+|..+    .|| |||+|.+.++|.+|+...++..+..    ..|.||+
T Consensus        26 l~l~V~NL~~~vt~~~L~~~Fs~y-G~V~~v~i~~~----~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak  100 (124)
T 2e5i_A           26 LLLSIQNPLYPITVDVLYTVCNPV-GKVQRIVIFKR----NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYAR  100 (124)
T ss_dssp             EEEEEESCCSCCCHHHHHHHHTTT-SCEEEEEEEES----SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCS
T ss_pred             EEEEEcCcCCCCCHHHHHHHHHhc-CCEEEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEec
Confidence            457899999999999999999995 99999999763    286 9999999999988887766654432    2466665


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus       101 ~  101 (124)
T 2e5i_A          101 P  101 (124)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=98.96  E-value=2.2e-09  Score=89.87  Aligned_cols=70  Identities=13%  Similarity=0.074  Sum_probs=57.3

Q ss_pred             ccccEEEEEcCCc-----cCCHHHHHHHhhhcCCceEEEEEeccC---CCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          351 MCARTIYCTNIDK-----KVTQADVKLFFESVCGEVYRLRLLGDY---HHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       351 ~~~~tL~V~NLp~-----~vteedLrelF~~f~G~I~~v~i~kd~---g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .++++|+|+||..     +-++++|+++|++| |.|.+|.|+++.   ++++|||||+|.+.++|.+|+...++.....
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~-G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~G   83 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKY-GKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGG   83 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGG-SCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETT
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhc-CCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            4568999999963     23789999999996 999999999873   5789999999999999999987766644433

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

Probab=98.94  E-value=4.2e-09  Score=87.59  Aligned_cols=62  Identities=19%  Similarity=0.229  Sum_probs=54.9

Q ss_pred             ccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          266 QQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       266 ~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..+|+++|+++|++||.|.+|+++.   .++|||||+|.+.++|..|++ +++  +.|++|.|.+++.
T Consensus        27 ~~~te~~L~~~F~~~G~V~~v~i~~---~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~~   89 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKYGEVLNLVLSS---KKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLEG   89 (100)
T ss_dssp             CSCCHHHHHHHHHTTSCEEEEEEES---SSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSSC
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEcc---CCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEccC
Confidence            4689999999999999999999983   457999999999999999999 555  5799999999763

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

Probab=98.92  E-value=2.8e-09  Score=88.66  Aligned_cols=63  Identities=24%  Similarity=0.264  Sum_probs=53.9

Q ss_pred             ccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhhhhhh
Q 013726          363 KKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEE  429 (437)
Q Consensus       363 ~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~~~~~  429 (437)
                      ..+|+++|+++|++| |.|..|.|+   ++++|||||+|.+.++|.+|+...+.+..+...|.|++.
T Consensus        27 ~~~te~~L~~~F~~~-G~V~~v~i~---~~~rGfaFVeF~~~~~A~~Ai~~~~~~~g~~l~V~~a~~   89 (100)
T 2d9o_A           27 GGYSKDVLLRLLQKY-GEVLNLVLS---SKKPGTAVVEFATVKAAELAVQNEVGLVDNPLKISWLEG   89 (100)
T ss_dssp             CSCCHHHHHHHHHTT-SCEEEEEEE---SSSSSEEEEEESCHHHHHHHHHTCCBCSSSBCEEECSSC
T ss_pred             CCCCHHHHHHHHHhc-CCEEEEEEc---cCCCCEEEEEECCHHHHHHHHHhcCCCCCCeEEEEEccC
Confidence            568999999999995 999999998   468899999999999999999887666555556888764

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

Probab=98.89  E-value=4.1e-09  Score=89.70  Aligned_cols=76  Identities=13%  Similarity=0.109  Sum_probs=64.0

Q ss_pred             cCCcEEEEecCCc----------cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          254 IIRRTVYVSDIDQ----------QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       254 ~~~rtLfVgNLp~----------~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      ..++.|.+.|+=.          .-.+++|++.|++||.|.+|.+.++  +++|+|||+|.+.++|.+|+. |||..++|
T Consensus         5 ~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~--~~~G~~fV~f~~~e~A~~Ai~~lnG~~f~G   82 (114)
T 3s6e_A            5 LATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKN--SAQGNVYVKCPSIAAAIAAVNALHGRWFAG   82 (114)
T ss_dssp             CCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTT--CTTCCEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecC--CCcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            3567788888732          1234689999999999999999655  358999999999999999999 99999999


Q ss_pred             eeeEEeccC
Q 013726          323 YPVRVLPSK  331 (437)
Q Consensus       323 r~L~V~~s~  331 (437)
                      +.|.|.++.
T Consensus        83 R~i~v~~~~   91 (114)
T 3s6e_A           83 KMITAAYVP   91 (114)
T ss_dssp             EECEEEEEC
T ss_pred             EEEEEEEEc
Confidence            999999864

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

Probab=98.82  E-value=3.6e-09  Score=101.39  Aligned_cols=63  Identities=21%  Similarity=0.360  Sum_probs=55.1

Q ss_pred             cccEEEEEcCCccC---------CHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKV---------TQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~v---------teedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ..++|||+||+..+         ++++|+++|++| |+|.+|+|+.    ++|||||+|.+.++|+.|+..++...+
T Consensus       133 ~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~f-G~I~~v~v~~----~kG~AFV~F~~~~~Ae~A~~am~g~~l  204 (240)
T 3u1l_A          133 KNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRL-GDIDRIRYVE----SKNCGFVKFKYQANAEFAKEAMSNQTL  204 (240)
T ss_dssp             CCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTT-SCEEEEEEEG----GGTEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CCceeecCCCChhhhcccccccCcHHHHHHHHHcc-CCEEEEEEEC----CCCEEEEEeCCHHHHHHHHHHhCCCEE
Confidence            45899999999998         799999999995 9999999986    477999999999999888876665444

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.81  E-value=7.7e-09  Score=85.05  Aligned_cols=71  Identities=11%  Similarity=0.172  Sum_probs=54.5

Q ss_pred             cEEEEEcCCccCCHHH----HHHHhhhcCC-ceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCce-ecc-Cchhhh
Q 013726          354 RTIYCTNIDKKVTQAD----VKLFFESVCG-EVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFY-ILH-NPSIAW  426 (437)
Q Consensus       354 ~tL~V~NLp~~vteed----LrelF~~f~G-~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~-~~~-~~~i~~  426 (437)
                      +.|||+|||+.+++++    |+++|++ || +|..|     .+   |+|||.|.+.++|.+|+..++.. +.. ...|.|
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~-yGG~Vl~V-----tg---G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~   80 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDN-CGGKVLSI-----TG---CSAILRFINQDSAERAQKRMENEDVFGNRIIVSF   80 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHT-TTCCEEEC-----CT---TCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEES
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHH-cCCeeEEE-----ec---CEEEEEECCHHHHHHHHHHhcCCccCCceEEEEe
Confidence            4599999999999988    5589999 66 99998     22   89999999999998888655553 222 225777


Q ss_pred             hhhhcCC
Q 013726          427 LEEFSGE  433 (437)
Q Consensus       427 ~~~~sg~  433 (437)
                      |.+-+.-
T Consensus        81 A~~~sd~   87 (96)
T 2diu_A           81 TPKNREL   87 (96)
T ss_dssp             SCCSCCC
T ss_pred             cCCCcce
Confidence            7765543

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.78  E-value=7.7e-09  Score=104.07  Aligned_cols=64  Identities=13%  Similarity=0.177  Sum_probs=55.4

Q ss_pred             cccccEEEEEc--CCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          350 EMCARTIYCTN--IDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       350 ~~~~~tL~V~N--Lp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ..++++|||+|  |++.+|+++|+++|++| |+|.+|.++.    +||||||+|.+.++|++|+..+++..
T Consensus        15 ~~ps~~l~VgN~gl~~~~te~~L~~~F~~~-G~V~~v~~~~----~kgfaFV~f~~~~~A~~Ai~~lnG~~   80 (345)
T 3tht_A           15 SYATQSLVVANGGLGNGVSRNQLLPVLEKC-GLVDALLMPP----NKPYSFARYRTTEESKRAYVTLNGKE   80 (345)
T ss_dssp             SSCCSEEEEETCSGGGTCCHHHHHHHHHTT-SCEEEEECCT----TCSEEEEEESSHHHHHHHHHHTTTCE
T ss_pred             CCCCCEEEEEcCCCCCCCCHHHHHHHHHhc-CCeEEEEEeC----CCCEEEEEECCHHHHHHHHHHhCCCc
Confidence            34568999999  57899999999999995 9999998865    47899999999999999988877643

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

Probab=98.77  E-value=1.5e-08  Score=85.20  Aligned_cols=77  Identities=14%  Similarity=0.141  Sum_probs=58.0

Q ss_pred             cccccEEEEEcCCccC-----------CHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          350 EMCARTIYCTNIDKKV-----------TQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~v-----------teedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ...+++|+|+||....           ++++|+++|++| |.|..|.|. +. .++|||||+|.+.++|.+|+...+...
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~-G~v~~v~i~-~~-~~~G~afV~f~~~~~A~~Ai~~lng~~   88 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKF-GQIRKLLLF-DR-HPDGVASVSFRDPEEADYCIQTLDGRW   88 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGT-SCCSEEEEE-TT-CTTCEEEEECSCHHHHHHHHHHSTTCE
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHcc-CCEeEEEEe-cC-CCCEEEEEEECCHHHHHHHHHHcCCCE
Confidence            3456899999994332           268999999995 999999773 32 389999999999999999997777654


Q ss_pred             ccCc--hhhhhhh
Q 013726          419 LHNP--SIAWLEE  429 (437)
Q Consensus       419 ~~~~--~i~~~~~  429 (437)
                      +...  .+.|+..
T Consensus        89 ~~gr~l~v~~a~~  101 (112)
T 2dit_A           89 FGGRQITAQAWDG  101 (112)
T ss_dssp             ETTEECEEEECCS
T ss_pred             ECCcEEEEEEeCC
Confidence            4333  3555543

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

Probab=98.74  E-value=1.5e-08  Score=84.80  Aligned_cols=70  Identities=16%  Similarity=0.097  Sum_probs=56.8

Q ss_pred             cccEEEEEcC--CccCC--------HHHHHHHhhhcCCceEEEEEeccC----CCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          352 CARTIYCTNI--DKKVT--------QADVKLFFESVCGEVYRLRLLGDY----HHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       352 ~~~tL~V~NL--p~~vt--------eedLrelF~~f~G~I~~v~i~kd~----g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      +++.|.|.|+  |.++.        ++||++.|++| |.|.+|.|+++.    +.++|+|||+|.+.++|.+|+..+++.
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~-G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG~   82 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKY-GLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   82 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTT-SCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTTC
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHcc-CCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCCC
Confidence            4689999998  44443        47999999995 999999999883    257999999999999999998877765


Q ss_pred             eccCc
Q 013726          418 ILHNP  422 (437)
Q Consensus       418 ~~~~~  422 (437)
                      .....
T Consensus        83 ~f~GR   87 (105)
T 3v4m_A           83 KFANR   87 (105)
T ss_dssp             EETTE
T ss_pred             EeCCC
Confidence            54443

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

Probab=98.72  E-value=5.8e-09  Score=87.07  Aligned_cols=63  Identities=14%  Similarity=0.227  Sum_probs=50.3

Q ss_pred             EEcCCccCCHHHHHHHh------------hhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          358 CTNIDKKVTQADVKLFF------------ESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       358 V~NLp~~vteedLrelF------------~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +.||+..+++++|++.|            ++| |.|.+|.|+++ .++++|||||+|.+.++|.+|+...++.....
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~-G~V~~v~i~~~~~~~~~G~~fV~f~~~~~A~~A~~~lng~~~~G   95 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKY-GEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNG   95 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-CCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccC-CceEEEEEEeCCCCCccEEEEEEECCHHHHHHHHHHHCCCEECC
Confidence            45677777777777666            995 99999999988 56799999999999999999988766644433

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

Probab=98.68  E-value=4.2e-08  Score=83.87  Aligned_cols=70  Identities=14%  Similarity=0.121  Sum_probs=56.1

Q ss_pred             ccccEEEEEcCC--ccC---CHHHHHHHhhhcCCceEEEEEeccC------CCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          351 MCARTIYCTNID--KKV---TQADVKLFFESVCGEVYRLRLLGDY------HHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       351 ~~~~tL~V~NLp--~~v---teedLrelF~~f~G~I~~v~i~kd~------g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      .++++|+|+|+-  .++   -++||++.|++| |.|.+|.|+++.      +.++|+|||+|.+.++|.+|+...++...
T Consensus        18 ~ps~vl~L~Nm~~~~el~ddleedl~eef~k~-G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f   96 (118)
T 3ue2_A           18 QESTVMVLRNMVDPKDIDDDLEGEVTEECGKF-GAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWF   96 (118)
T ss_dssp             HSCCEEEEESCSCGGGCCTTHHHHHHHHHTTT-SCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEE
T ss_pred             CCCCEEEEECCCCHHHHHHHHHHHHHHHHhcc-CCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEE
Confidence            367899999993  233   368999999995 999999999872      34789999999999999999887776444


Q ss_pred             cC
Q 013726          420 HN  421 (437)
Q Consensus       420 ~~  421 (437)
                      ..
T Consensus        97 ~G   98 (118)
T 3ue2_A           97 AG   98 (118)
T ss_dssp             TT
T ss_pred             CC
Confidence            33

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

Probab=98.67  E-value=4.8e-08  Score=79.62  Aligned_cols=70  Identities=23%  Similarity=0.293  Sum_probs=59.6

Q ss_pred             CcEEEEecCCc----cchH----HHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEE
Q 013726          256 RRTVYVSDIDQ----QVTE----EQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRV  327 (437)
Q Consensus       256 ~rtLfVgNLp~----~~te----e~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V  327 (437)
                      ..||+|.-.+.    ++-+    .+|.+.|.+||.|..+++..++      +||+|.+.++|.+|++|||..++|+.|+|
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~------~fVtF~d~~sAlaAi~mnG~~v~Gr~LkV   80 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK------MWVTFLEGSSALNVLSLNGKELLNRTITI   80 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS------EEEEESSHHHHHHGGGGTTCEETTEEEEE
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC------EEEEECChHHHHHHHhcCCeEeCCeEEEE
Confidence            35777776652    2323    5688999999999999998864      89999999999999999999999999999


Q ss_pred             eccC
Q 013726          328 LPSK  331 (437)
Q Consensus       328 ~~s~  331 (437)
                      ..++
T Consensus        81 ~lkt   84 (91)
T 2dnr_A           81 ALKS   84 (91)
T ss_dssp             EECC
T ss_pred             EeCC
Confidence            9876

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.60  E-value=7.7e-08  Score=82.70  Aligned_cols=73  Identities=16%  Similarity=0.054  Sum_probs=64.5

Q ss_pred             cCCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcC-HHHHHHHHH-h--cCeEeeeeeeEEe
Q 013726          254 IIRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTD-EEGARAALN-L--AGTMLGFYPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~-~e~A~~Al~-l--ng~~l~Gr~L~V~  328 (437)
                      .....|||+||+.. ++.++|+++|++||.|..|.+..+..    .|||.|.+ .++|..|++ +  ++..|.|..+.+.
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~----tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~e   91 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK----EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   91 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS----EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC----EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEE
Confidence            34578999999999 99999999999999999999988876    79999999 899999998 8  4778888888876


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      ..
T Consensus        92 vL   93 (121)
T 1owx_A           92 VL   93 (121)
T ss_dssp             EC
T ss_pred             EC
Confidence            54

>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=98.47  E-value=1.6e-07  Score=77.03  Aligned_cols=71  Identities=20%  Similarity=0.232  Sum_probs=60.4

Q ss_pred             CCcEEEEecCCcc-----chH----HHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeee
Q 013726          255 IRRTVYVSDIDQQ-----VTE----EQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPV  325 (437)
Q Consensus       255 ~~rtLfVgNLp~~-----~te----e~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L  325 (437)
                      ...||+|.-++..     +-+    .+|.+.|.+||.|..+++..|+      +||+|.+.++|.+|++|+|..++|+.|
T Consensus        14 pD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~------~fVtF~d~~sAl~AI~ldG~~v~Gr~L   87 (95)
T 1ufw_A           14 LDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ------MLVTFADSHSALSVLDVDGMKVKGRAV   87 (95)
T ss_dssp             TTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE------EEEECSCSHHHHHHHHGGGSEETTEEE
T ss_pred             CCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc------EEEEEcChHHHHHHHhcCCeeeCCeEE
Confidence            3468999888632     222    4688999999999999999875      999999999999999999999999999


Q ss_pred             EEeccC
Q 013726          326 RVLPSK  331 (437)
Q Consensus       326 ~V~~s~  331 (437)
                      +|....
T Consensus        88 ~V~~k~   93 (95)
T 1ufw_A           88 KISGPS   93 (95)
T ss_dssp             EEECCC
T ss_pred             EEeccC
Confidence            998753

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.38  E-value=7.4e-07  Score=76.58  Aligned_cols=58  Identities=9%  Similarity=0.095  Sum_probs=51.4

Q ss_pred             cccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCC-HHHHHHHHhhc
Q 013726          352 CARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVM-VIASSTLFIHT  414 (437)
Q Consensus       352 ~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s-~e~A~kal~~~  414 (437)
                      ....|+|+||+.+ +++++|+++|++| |+|.+|.+.++..    .|||+|.+ .++|.+++...
T Consensus        17 ~G~il~v~~l~~~~~sredLke~F~~~-G~V~~Vd~~~g~~----tgfVrf~~~~~~A~~av~~l   76 (121)
T 1owx_A           17 IGCLLKFSGDLDDQTCREDLHILFSNH-GEIKWIDFVRGAK----EGIILFKEKAKEALGKAKDA   76 (121)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSS-CCEEEEECCTTCS----EEEEEESSCHHHHHHHHHHT
T ss_pred             CCeEEEEecCCCCcCCHHHHHHHHHhc-CCEEEEEEecCCC----EEEEEECCChHHHHHHHHHh
Confidence            4589999999999 9999999999995 9999999998766    69999999 78887776654

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

Probab=98.37  E-value=6.5e-07  Score=76.03  Aligned_cols=67  Identities=10%  Similarity=0.014  Sum_probs=53.0

Q ss_pred             cccEEEEEcCCc--c--------CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDK--K--------VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~--~--------vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++++|.++|+=.  +        --++||++.|++| |.|.+|.|.++.  ++|+|||+|.+.++|.+|+..+++.....
T Consensus         6 ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kf-G~V~~v~i~~~~--~~G~~fV~f~~~e~A~~Ai~~lnG~~f~G   82 (114)
T 3s6e_A            6 ATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKH-GGVIHIYVDKNS--AQGNVYVKCPSIAAAIAAVNALHGRWFAG   82 (114)
T ss_dssp             CCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTT-TCCSEEEECTTC--TTCCEEEECSSHHHHHHHHHHHTTCEETT
T ss_pred             CCcEEEEECCCChHHccChhHHHHHHHHHHHHHhcc-CCEEEEEEecCC--CcEEEEEEECCHHHHHHHHHHhCCCEECC
Confidence            457899999832  2        1246899999995 999999998764  58999999999999999988777644443

>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=98.26  E-value=1.1e-06  Score=82.07  Aligned_cols=63  Identities=17%  Similarity=0.166  Sum_probs=56.4

Q ss_pred             hHHHHHHHHhcCCCeeEEEEeeCCC------CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          269 TEEQLAALFVGCGQVVDCRICGDPN------SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       269 tee~L~~~F~~~G~I~~vri~~d~~------~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .+++|++.|++||.|.++.++.+..      .++|++||+|.+.++|.+|+. |+|..++||.|.+.+..
T Consensus       142 ~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~~~  211 (222)
T 3dxb_A          142 LEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYD  211 (222)
T ss_dssp             HHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEEcC
Confidence            5678999999999999999985543      358999999999999999999 99999999999998863

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.77  E-value=7.3e-05  Score=62.68  Aligned_cols=73  Identities=15%  Similarity=0.132  Sum_probs=65.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcC-----CCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHH-HhcCeEeeeeeeE
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGC-----GQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVR  326 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~-----G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al-~lng~~l~Gr~L~  326 (437)
                      ....++|-+-|||-.+++..|+.+.+.+     |.+..+.+..|-    +-|+|+|.+...|.+|. .|+|..|+|++|+
T Consensus        18 ~~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH----~GAivef~d~~~AgKasLaL~G~ef~gr~Lr   93 (117)
T 2l9w_A           18 KELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDF----NGAIIIFRDSKFAAKMLMILNGSQFQGKVIR   93 (117)
T ss_dssp             TTTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTT----TEEEEECSCHHHHHHHHHHHSSEEETTEEEE
T ss_pred             ccCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCC----CceEEEEccchhhHHHHhhcCCeeecCeEEE
Confidence            3457899999999999999999999999     999999998875    47999999999999986 5999999999999


Q ss_pred             Eec
Q 013726          327 VLP  329 (437)
Q Consensus       327 V~~  329 (437)
                      +..
T Consensus        94 ~gT   96 (117)
T 2l9w_A           94 SGT   96 (117)
T ss_dssp             EEC
T ss_pred             ecC
Confidence            865

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.58  E-value=0.00022  Score=59.09  Aligned_cols=88  Identities=17%  Similarity=0.170  Sum_probs=71.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhc-----CCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVG-----CGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~-----~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      ...+|.|.|||+.+.++.|.-.|+.     -|+|.++....      +-|+|+|.+.+.|++.|+-..+.|.+.+|.|.+
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~------~~AvItF~d~~va~rVL~k~~H~L~~~~LsV~P   80 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG------CGGVLTFREPADAERVLAQADHELHGAQLSLRP   80 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET------TEEEEEESSHHHHHHHHTCSCCBSSSSBCEEEE
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC------CcEEEEEcChHHHHHHhcCCcceecCeEEEEEc
Confidence            4578999999999999999999986     26888887754      379999999999999999768889999999987


Q ss_pred             cCCCCCCCCCCCCCCChhhhcccccEEEEEcCCccCC
Q 013726          330 SKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVT  366 (437)
Q Consensus       330 s~~~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vt  366 (437)
                      .-                  .....+|.+++|++.++
T Consensus        81 ~~------------------~~~~~r~ll~gl~~~t~   99 (104)
T 2dhx_A           81 AP------------------PRAPARLLLQGLPPGTS   99 (104)
T ss_dssp             CC------------------CCCCCCCCCCSCCCCCC
T ss_pred             CC------------------CCCcceEeeecCCCCCC
Confidence            42                  11236788888887654

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

Probab=97.46  E-value=0.00018  Score=66.85  Aligned_cols=54  Identities=15%  Similarity=0.094  Sum_probs=44.7

Q ss_pred             CCHHHHHHHhhhcCCceEEEEEecc------CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          365 VTQADVKLFFESVCGEVYRLRLLGD------YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       365 vteedLrelF~~f~G~I~~v~i~kd------~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      -.+++|++.|++| |.|.++.|+++      .+.++|++||+|.+.++|.+|+...++-..
T Consensus       141 e~~~dl~~e~~~~-G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~gr~~  200 (222)
T 3dxb_A          141 DLEGEVTEECGKF-GAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWF  200 (222)
T ss_dssp             THHHHHHHHHTTT-SCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTTCBS
T ss_pred             HHHHHHHHHHHcc-CCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcCceE
Confidence            3568999999995 99999999865      237899999999999999888777665433

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

Probab=97.29  E-value=0.00052  Score=55.74  Aligned_cols=58  Identities=17%  Similarity=0.196  Sum_probs=45.2

Q ss_pred             ccEEEEEcCC----ccCCH----HHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          353 ARTIYCTNID----KKVTQ----ADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       353 ~~tL~V~NLp----~~vte----edLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ..||+|.-.+    .++-+    .+|.+.|++| |+|..+++..+.      +||+|.+.++|.+|+. ++.+.
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~-G~Vi~vr~~~d~------~fVtF~d~~sAlaAi~-mnG~~   72 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASF-GEVILIRFVEDK------MWVTFLEGSSALNVLS-LNGKE   72 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTT-CCEEEEEECSSS------EEEEESSHHHHHHGGG-GTTCE
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhC-CCeEEEEEecCC------EEEEECChHHHHHHHh-cCCeE
Confidence            3688887766    23333    6788999995 999999999864      8999999999999998 55443

>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=96.90  E-value=0.00088  Score=54.76  Aligned_cols=61  Identities=10%  Similarity=0.059  Sum_probs=47.4

Q ss_pred             cccEEEEEcCCcc-----CCH----HHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKK-----VTQ----ADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~-----vte----edLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +..||+|.-++..     +-+    .+|.+.|++| |+|..+++..+.      +||+|.+.++|.+|+. ++.+.+.
T Consensus        14 pD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~-G~Vilvr~v~d~------~fVtF~d~~sAl~AI~-ldG~~v~   83 (95)
T 1ufw_A           14 LDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSY-GTIVLVRINQGQ------MLVTFADSHSALSVLD-VDGMKVK   83 (95)
T ss_dssp             TTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHH-SCCSEEEEETTE------EEEECSCSHHHHHHHH-GGGSEET
T ss_pred             CCCeEEEEecCCcccccccCCHHHHHHHHHHHHHC-CCEEEEEEecCc------EEEEEcChHHHHHHHh-cCCeeeC
Confidence            3479999988632     222    5688999995 999999999874      9999999999999998 5554333

>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=96.54  E-value=0.0072  Score=50.13  Aligned_cols=73  Identities=12%  Similarity=0.055  Sum_probs=60.5

Q ss_pred             CCcEEEEecCCccc-h----HHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          255 IRRTVYVSDIDQQV-T----EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~-t----ee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ...||+|.||+.++ +    .+.++++|..|+++......+.=    +=..|.|.++++|.+|-. |++..+.|+.++|.
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkSF----RRirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~Y   79 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSF----KRVRINFSNPLSAADARLRLHKTEFLGKEMKLY   79 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETTT----TEEEEECSSTTHHHHHHHTSTTSEETTEECEEE
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCcc----eEEEEEeCChHHHHHHHHHhccceecCceeEEE
Confidence            45789999999875 2    25778999999998887665332    356899999999999977 99999999999999


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      .+.
T Consensus        80 Fgq   82 (104)
T 1wey_A           80 FAQ   82 (104)
T ss_dssp             CCC
T ss_pred             ecC
Confidence            875

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=96.41  E-value=0.0077  Score=50.50  Aligned_cols=63  Identities=13%  Similarity=0.178  Sum_probs=53.3

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcC-----CceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVC-----GEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~-----G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      .++|-+-|||.++++..|+.+.++ +     |.|..+.+..|.+    =|+|+|.+...|-+|....+++...
T Consensus        21 ~rtiaL~~ipDtvndarIr~lve~-~~~i~~g~i~KI~L~pDH~----GAivef~d~~~AgKasLaL~G~ef~   88 (117)
T 2l9w_A           21 ETLICLFPLSDKVSPSLICQFLQE-EIHINEKDIRKILLVSDFN----GAIIIFRDSKFAAKMLMILNGSQFQ   88 (117)
T ss_dssp             TSCEEEECCCTTCCHHHHHHHHHH-HTCCCTTTCSEEEEETTTT----EEEEECSCHHHHHHHHHHHSSEEET
T ss_pred             CcEEEEecCCCCCCHHHHHHHHhh-hhccCccceeEEEEecCCC----ceEEEEccchhhHHHHhhcCCeeec
Confidence            489999999999999999999998 7     9999999999865    4999999999996666555554433

>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=96.35  E-value=0.0096  Score=48.81  Aligned_cols=53  Identities=21%  Similarity=0.325  Sum_probs=45.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN  314 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~  314 (437)
                      ....+++ ++|+++...||.++|+.||.| .|+++.|.     -|||.|.+++.|..|+.
T Consensus        15 r~HVf~l-~FP~ewKt~DI~~lFs~fggv-~I~WidDT-----sAlvvf~~~~~a~~al~   67 (100)
T 1whv_A           15 RDHVLHV-TFPKEWKTSDLYQLFSAFGNI-QISWIDDT-----SAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CCSEEEE-ECCTTCCHHHHHHHHTTTCSC-CCEEEETT-----EEEEECSCHHHHHHHHH
T ss_pred             CCeEEEE-eCChhhhhHHHHHHhhccCCE-EEEEEcCC-----eEEEEecCHHHHHHHHH
Confidence            3355666 999999999999999999965 47887764     79999999999999998

>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=96.24  E-value=0.019  Score=46.57  Aligned_cols=66  Identities=17%  Similarity=0.176  Sum_probs=54.5

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      +.|.|++||+++|++++.+.+.....+.....+..+.+    .-.-|||.|.+.+++....+ ++|..+.+
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D   72 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEc
Confidence            46899999999999999999999888776666554422    25679999999999999988 99998743

>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=96.15  E-value=0.025  Score=48.05  Aligned_cols=72  Identities=19%  Similarity=0.250  Sum_probs=58.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeee-eeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGF-YPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~G-r~L~V~~s  330 (437)
                      ...+-|.|-+.|+.. ...+...|++||.|.+.....    ...+-.|.|.+..+|++||..||..++| --|-|.+.
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~~----~~NWihI~Y~s~~~A~rAL~kNG~ii~g~~mIGV~p~   94 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMSN----TGNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPC   94 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEECS----SSSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEEC
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccCC----CCCeEEEEeCCHHHHHHHHHhCCeEecCCEEEEEEEC
Confidence            346789999999986 466778899999999887622    2359999999999999999999999975 56777664

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.10  E-value=0.032  Score=46.18  Aligned_cols=60  Identities=15%  Similarity=0.189  Sum_probs=50.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhc----CCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh-cCce
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESV----CGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH-TEFY  417 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f----~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~-~~~~  417 (437)
                      ...+|.|.|||..++++.|.-+|+.-    =|+|.++....      +-|+|+|.+.+.|+++|+. .|.+
T Consensus         7 ~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~------~~AvItF~d~~va~rVL~k~~H~L   71 (104)
T 2dhx_A            7 GGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG------CGGVLTFREPADAERVLAQADHEL   71 (104)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET------TEEEEEESSHHHHHHHHTCSCCBS
T ss_pred             CccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC------CcEEEEEcChHHHHHHhcCCccee
Confidence            34799999999999999999999962    36899988765      3699999999999999999 4443

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=95.68  E-value=0.037  Score=44.78  Aligned_cols=67  Identities=9%  Similarity=0.120  Sum_probs=51.3

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC---C-CcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY---H-HSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~---g-~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++|.|++||+.+||+++.+.++.. ..+.........   + ..-.-|||.|.+.+++......-+++.-.+
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~-~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g~~F~D   72 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPM-PEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSC-CCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCc-ccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCCcEEEc
Confidence            589999999999999999999996 887777665431   2 233569999999999877766666554443

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=94.84  E-value=0.034  Score=45.66  Aligned_cols=52  Identities=21%  Similarity=0.336  Sum_probs=44.7

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hc
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LA  316 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-ln  316 (437)
                      .++| ++|+++...||.++|+.||. ..|+++.|.     -|||.|.+++.|..|+. +.
T Consensus         8 V~~l-~FP~ewKt~Di~~lFs~fgg-v~I~WidDT-----sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            8 VLHV-TFPKEWKTSDLYQLFSAFGN-IQISWIDDT-----SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEE-ECCTTCCHHHHHHHTTTSEE-EEEEEEETT-----EEEEEEEEECHHHHHHHHHT
T ss_pred             EEEE-eCChhhhhHHHHHHHhccCC-EEEEEEcCC-----eEEEEecCHHHHHHHHHhcc
Confidence            3555 99999999999999999994 458888774     79999999999999998 53

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=94.62  E-value=0.049  Score=44.61  Aligned_cols=52  Identities=15%  Similarity=0.250  Sum_probs=42.1

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..++| ++|.++...||.++|++| |.| .|+.+.|+     -|||.|.+++.|..|+.+
T Consensus        17 HVf~l-~FP~ewKt~DI~~lFs~f-ggv-~I~WidDT-----sAlvvf~~~~~a~~al~~   68 (100)
T 1whv_A           17 HVLHV-TFPKEWKTSDLYQLFSAF-GNI-QISWIDDT-----SAFVSLSQPEQVQIAVNT   68 (100)
T ss_dssp             SEEEE-ECCTTCCHHHHHHHHTTT-CSC-CCEEEETT-----EEEEECSCHHHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHhhcc-CCE-EEEEEcCC-----eEEEEecCHHHHHHHHHh
Confidence            56777 999999999999999995 844 35555554     499999999999777664

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=94.51  E-value=0.012  Score=61.04  Aligned_cols=69  Identities=19%  Similarity=0.265  Sum_probs=50.6

Q ss_pred             hhhhccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEee
Q 013726          249 AQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLG  321 (437)
Q Consensus       249 ~~~~~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~  321 (437)
                      ..+.....|+|+|. .|..+++.+|.+.|++||+|.++.+-.+..   -|+.|||.+.+++..++...+....
T Consensus        46 ~~r~~qa~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g---~~~~vef~~~~~~~~~~~~~~~p~~  114 (464)
T 3pq1_A           46 NERREQAQRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFG---LYAVVEFCQKESIGSLQNGTHTPXX  114 (464)
T ss_dssp             HHHHHHHHTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSS---EEEEEECC---CCHHHHSSCCCCCC
T ss_pred             HHHHHHhcceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCC---eEEEEEeCCHHHHHHHHhccCCCcc
Confidence            34566778999997 799999999999999999999998865543   6999999999999988764443333

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=93.83  E-value=0.3  Score=41.38  Aligned_cols=63  Identities=5%  Similarity=0.021  Sum_probs=51.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..+.|.|-+.|... ...|...|++ ||+|.........    .+-.|.|.+..+|++||..+...+..
T Consensus        23 ~~~wVtVFGFp~~~-~~~VL~~F~~-~G~Iv~~~~~~~~----NWihI~Y~s~~~A~rAL~kNG~ii~g   85 (119)
T 1wwh_A           23 DDTWVTVFGFPQAS-ASYILLQFAQ-YGNILKHVMSNTG----NWMHIRYQSKLQARKALSKDGRIFGE   85 (119)
T ss_dssp             GGGEEEEECCCGGG-HHHHHHHHHT-TSCEEEEEECSSS----SEEEEEESSHHHHHHHHTTTTCEETT
T ss_pred             CCCEEEEECCCHHH-HHHHHHHHHh-hCcEEEeccCCCC----CeEEEEeCCHHHHHHHHHhCCeEecC
Confidence            35799999999985 6678888998 5999998873222    38999999999999999998876653

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=93.78  E-value=0.064  Score=44.05  Aligned_cols=52  Identities=15%  Similarity=0.225  Sum_probs=41.7

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      ..++| ++|.++...||.++|++| |. ..|+.+.|+     -|||.|.+++.|..|+..
T Consensus         7 HV~~l-~FP~ewKt~Di~~lFs~f-gg-v~I~WidDT-----sAlvvf~~~~~a~~al~~   58 (101)
T 3ctr_A            7 HVLHV-TFPKEWKTSDLYQLFSAF-GN-IQISWIDDT-----SAFVSLSQPEQVKIAVNT   58 (101)
T ss_dssp             EEEEE-ECCTTCCHHHHHHHTTTS-EE-EEEEEEETT-----EEEEEEEEECHHHHHHHH
T ss_pred             eEEEE-eCChhhhhHHHHHHHhcc-CC-EEEEEEcCC-----eEEEEecCHHHHHHHHHh
Confidence            45666 999999999999999995 83 346666554     499999999988777764

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=93.78  E-value=0.024  Score=58.84  Aligned_cols=61  Identities=18%  Similarity=0.233  Sum_probs=47.1

Q ss_pred             cccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          350 EMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       350 ~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      ....++|+|. .|...++.+|.++|++| |.|.++.+-++.|   -||.|+|.+.+++.+++....
T Consensus        50 ~qa~rsv~v~-~~~~~~~~~l~~y~~~~-g~i~~~~~~~~~g---~~~~vef~~~~~~~~~~~~~~  110 (464)
T 3pq1_A           50 EQAQRTVLIH-CPEKISENKFLKYLSQF-GPINNHFFYESFG---LYAVVEFCQKESIGSLQNGTH  110 (464)
T ss_dssp             HHHHTEEEEE-ECCC---CHHHHHHGGG-SCCCCEEEECSSS---EEEEEECC---CCHHHHSSCC
T ss_pred             HHhcceEEEE-cCCCCCHHHHHHHHHhc-CCcceEEEEccCC---eEEEEEeCCHHHHHHHHhccC
Confidence            4456899998 79999999999999996 9999999887766   499999999999998876654

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=93.50  E-value=0.089  Score=45.37  Aligned_cols=74  Identities=19%  Similarity=0.236  Sum_probs=54.7

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEE-Eee----------CCC-----CCceEEEEEEcCHHHHHHHHHhcCeEe
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCR-ICG----------DPN-----SVLRFAFIEFTDEEGARAALNLAGTML  320 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vr-i~~----------d~~-----~s~GfaFVeF~~~e~A~~Al~lng~~l  320 (437)
                      .-|.|-+.|++.+ ..+.+.|++||.|.+-. ...          ..+     ++.++-.|.|.++.+|.+||..||..+
T Consensus         8 ~~VtVFGFp~~~~-~~VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG~ii   86 (132)
T 3p3d_A            8 LAILVFGYPETMA-NQVIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENGAVF   86 (132)
T ss_dssp             CEEEEECCCGGGH-HHHHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTTCEE
T ss_pred             eEEEEEecCHHHH-HHHHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCCeEe
Confidence            5678889987766 45667899999987621 110          000     124588999999999999999999999


Q ss_pred             eeeeeEEeccC
Q 013726          321 GFYPVRVLPSK  331 (437)
Q Consensus       321 ~Gr~L~V~~s~  331 (437)
                      .|.-|-|.+.+
T Consensus        87 ~G~mIGV~Py~   97 (132)
T 3p3d_A           87 NGVLLGVIPYT   97 (132)
T ss_dssp             TTEECEEEECC
T ss_pred             CcEEEEEEECC
Confidence            99888887753

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=92.81  E-value=0.093  Score=42.93  Aligned_cols=67  Identities=15%  Similarity=0.118  Sum_probs=48.4

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      +-.|.|+.||+++|++++.+.+...-.+.....+..+.+    .-.-|||.|.+.++...-.+ ++|..+-+
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 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFLD   80 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEEC
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEe
Confidence            456999999999999998877766544332222222211    14578999999999999998 99998743

>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=92.35  E-value=0.28  Score=40.60  Aligned_cols=64  Identities=6%  Similarity=0.118  Sum_probs=51.0

Q ss_pred             cccEEEEEcCCccC-C----HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNIDKKV-T----QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NLp~~v-t----eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      ..++|+|.||+.++ .    ++.++++|.+| +++......+...    =..|.|.+.++|.+|-...|..-.+
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~-~~~~tF~~lkSFR----Rirv~F~~~~~A~~AR~~Lh~~~f~   72 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTY-DKDTTFQYFKSFK----RVRINFSNPLSAADARLRLHKTEFL   72 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTT-CSSCEEEEETTTT----EEEEECSSTTHHHHHHHTSTTSEET
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhh-CcCcceeecCcce----EEEEEeCChHHHHHHHHHhccceec
Confidence            35799999999865 2    36789999996 9999998888766    3679999999998887777765433

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=90.45  E-value=0.3  Score=39.89  Aligned_cols=67  Identities=9%  Similarity=0.067  Sum_probs=45.5

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc---CC-CcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD---YH-HSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd---~g-~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +-+|.|+.||+.+||+++.+.++.. =++........   .+ ..-.-|||.|.+.++.......-+++.-.
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~-~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g~~F~   79 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPL-PAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDGYIFL   79 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCC-SSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTTEEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCc-CccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEE
Confidence            3589999999999999998888875 34433332221   11 12235899999999987766665555433

---

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	437
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	2e-12
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	2e-04
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	2e-10
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	2e-10
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	4e-10
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	4e-10
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	5e-10
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	5e-10
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	6e-10
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-09
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	1e-09
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	2e-09
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	3e-09
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	4e-09
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	6e-09
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	6e-09
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	6e-09
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-08
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	7e-09
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	2e-08
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-08
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	2e-08
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	2e-08
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	3e-08
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-08
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	3e-08
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	4e-08
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	4e-08
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	5e-08
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	5e-08
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	7e-08
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	7e-08
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	8e-08
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	8e-08
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	8e-08
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-07
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	1e-07
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	2e-07
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	3e-07
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	3e-07
d1wg5a_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-07
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	7e-07
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	7e-07
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	8e-07
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	9e-07
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	1e-06
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	1e-06
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	1e-06
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	1e-06
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	2e-06
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	2e-06
d1x5oa1	101	d.58.7.1 (A:8-108) RNA-binding motif, single-stran	2e-06
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	2e-06
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	5e-06
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	5e-06
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	5e-06
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	6e-06
d1wela1	112	d.58.7.1 (A:412-523) RNA-binding protein 12 {Human	6e-06
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	7e-06
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	9e-06
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	1e-05
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	2e-05
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	3e-05
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	3e-05
d2bz2a1	79	d.58.7.1 (A:35-113) Negative elongation factor E,	6e-05
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	6e-05
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	7e-05
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	1e-04
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:) 1e-04
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	1e-04
d1x4da1	89	d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [	2e-04
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	0.001
d2cq1a1	88	d.58.7.1 (A:51-138) Polypyrimidine tract-binding p	0.001
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.003
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	0.003

>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 = 61.2 bits (148), Expect = 2e-12
 Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 2/95 (2%)

Query: 239 KRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--L 296
           K  +         EE   RTV+   +  ++    L   F   G+V D RI  D NS    
Sbjct: 1   KSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSK 60

Query: 297 RFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK 331
             A++EF + +    A+ L G  L   P+ V  S+
Sbjct: 61  GIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQ 95

>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 = 38.5 bits (89), Expect = 2e-04
 Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 3/68 (4%)

Query: 335 APVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCG-EVYRLRLLGDYHHS 393
           +PV       + +ER+  ART++C  +  ++   D++ FF +V      R+    +   S
Sbjct: 2   SPVREPVDNLSPEERD--ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRS 59

Query: 394 TRIAFVEF 401
             IA+VEF
Sbjct: 60  KGIAYVEF 67

>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 = 55.4 bits (133), Expect = 2e-10
 Identities = 23/77 (29%), Positives = 38/77 (49%), Gaps = 1/77 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
           RT+YV ++ + VTE  +  LF   G    C++  +  S   + F+EF +   A AAL  +
Sbjct: 9   RTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAM 68

Query: 316 AGTMLGFYPVRVLPSKT 332
            G  +    V+V  + T
Sbjct: 69  NGRKILGKEVKVNWATT 85

>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 = 55.5 bits (133), Expect = 2e-10
 Identities = 19/80 (23%), Positives = 34/80 (42%), Gaps = 2/80 (2%)

Query: 250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEE 307
           +RE+   R +++  +  + TEE L   +   G++ DC +  DP S     F F+ F+   
Sbjct: 14  KREKEQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMA 73

Query: 308 GARAALNLAGTMLGFYPVRV 327
              AA+      +    V  
Sbjct: 74  EVDAAMAARPHSIDGRVVEP 93

>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 = 53.9 bits (129), Expect = 4e-10
 Identities = 19/79 (24%), Positives = 34/79 (43%), Gaps = 2/79 (2%)

Query: 251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEG 308
           +E    R +++  +  + T+E L + F   G + DC +  DPN+     F F+ +   E 
Sbjct: 1   KEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEE 60

Query: 309 ARAALNLAGTMLGFYPVRV 327
             AA+N     +    V  
Sbjct: 61  VDAAMNARPHKVDGRVVEP 79

>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 = 54.2 bits (130), Expect = 4e-10
 Identities = 21/81 (25%), Positives = 37/81 (45%), Gaps = 5/81 (6%)

Query: 252 EEIIR--RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP--NSVLRFAFIEFTDEE 307
           E++++   T+YV ++    TEEQ+  LF   G +    +  D    +   F F+E+    
Sbjct: 1   EKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRA 60

Query: 308 GARAALN-LAGTMLGFYPVRV 327
            A  A+  + GT L    +R 
Sbjct: 61  DAENAMRYINGTRLDDRIIRT 81

>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 = 53.4 bits (128), Expect = 5e-10
 Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALNLA 316
           ++V  +     EE++   F G G+V    +  D  +     F FI F +EE  +  +   
Sbjct: 2   IFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKK 61

Query: 317 GTMLGFYPVRV 327
              +G     +
Sbjct: 62  YHNVGLSKCEI 72

>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 = 54.6 bits (131), Expect = 5e-10
 Identities = 18/96 (18%), Positives = 40/96 (41%), Gaps = 2/96 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
           R +Y+ ++  ++T E++  +F   G +   R  G+       A++ + D   A+ A  +L
Sbjct: 8   RILYIRNLPYKITAEEMYDIFGKYGPIRQIR-VGNTPETRGTAYVVYEDIFDAKNACDHL 66

Query: 316 AGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREM 351
           +G  +    + VL      A        + E  + +
Sbjct: 67  SGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQLKLL 102

>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 = 53.4 bits (128), Expect = 6e-10
 Identities = 21/81 (25%), Positives = 39/81 (48%), Gaps = 5/81 (6%)

Query: 252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGA 309
           E I    +YV+++ + +T++QL  +F   G +V   I  D  +      AF+ +   E A
Sbjct: 2   ESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEA 61

Query: 310 RAALN-LAGTML--GFYPVRV 327
           + A++ L   +   G  P+ V
Sbjct: 62  QEAISALNNVIPEGGSQPLSV 82

>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 = 52.3 bits (125), Expect = 1e-09
 Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALNLA 316
           +++  +    T++ L   F   G+VVDC +  DP +     F F+ F + E     ++  
Sbjct: 2   MFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQK 61

Query: 317 GTMLGFYPVRV 327
              L    +  
Sbjct: 62  EHKLNGKVIDP 72

>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 = 52.7 bits (126), Expect = 1e-09
 Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLA 316
           +++  +  Q T+E L   F   G+V +C +  DP +     F F+ F D+ G    L  +
Sbjct: 3   MFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS 62

Query: 317 GTMLGFYPVRV 327
              L    +  
Sbjct: 63  RHELDSKTIDP 73

>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 = 52.2 bits (125), Expect = 2e-09
 Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 5/76 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL 313
             + V +I  Q  + ++  LF   G++   R+            F F++F  ++ A+ A 
Sbjct: 9   SKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAF 68

Query: 314 N--LAGTMLGFYPVRV 327
           N     T L    + +
Sbjct: 69  NALCHSTHLYGRRLVL 84

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.5 bits (123), Expect = 3e-09
 Identities = 22/77 (28%), Positives = 39/77 (50%), Gaps = 3/77 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN- 314
           ++YV D+   VTE  L   F   G ++  R+C D  +   L +A++ F     A  AL+ 
Sbjct: 2   SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDT 61

Query: 315 LAGTMLGFYPVRVLPSK 331
           +   ++   PVR++ S+
Sbjct: 62  MNFDVIKGKPVRIMWSQ 78

>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 = 51.2 bits (122), Expect = 4e-09
 Identities = 25/79 (31%), Positives = 42/79 (53%), Gaps = 3/79 (3%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAAL 313
           +R +YV  + ++V ++ L A F+  G + D +I  D  +     FAF+EF   E A AA+
Sbjct: 5   KRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAI 64

Query: 314 -NLAGTMLGFYPVRVLPSK 331
            N+  + L    +RV  +K
Sbjct: 65  DNMNESELFGRTIRVNLAK 83

>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 = 50.8 bits (121), Expect = 6e-09
 Identities = 17/78 (21%), Positives = 36/78 (46%), Gaps = 1/78 (1%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-N 314
              +++ ++D+ +  + L   F   G ++ C++  D N    + F+ F  +E A  A+  
Sbjct: 8   VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEK 67

Query: 315 LAGTMLGFYPVRVLPSKT 332
           + G +L    V V   K+
Sbjct: 68  MNGMLLNDRKVFVGRFKS 85

>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 = 50.9 bits (121), Expect = 6e-09
 Identities = 15/78 (19%), Positives = 29/78 (37%), Gaps = 7/78 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-------FAFIEFTDEEGA 309
           R +YV +I   +TEE +   F    ++           +         FAF+EF   +  
Sbjct: 2   RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDET 61

Query: 310 RAALNLAGTMLGFYPVRV 327
             A+   G +     +++
Sbjct: 62  TQAMAFDGIIFQGQSLKI 79

>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 = 53.1 bits (126), Expect = 6e-09
 Identities = 28/149 (18%), Positives = 58/149 (38%), Gaps = 13/149 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN 314
           R +++  +  + T+E L + F   G + DC +  DPN+     F F+ +   E   AA+N
Sbjct: 7   RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66

Query: 315 LAGTMLGFYPVRVLPSKTAIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFF 374
                +    V    + +                  +  + I+   I +   +  ++ +F
Sbjct: 67  ARPHKVDGRVVEPKRAVSRE--------DSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYF 118

Query: 375 ESVCGEVYRLRLLGDYHHSTR--IAFVEF 401
           E   G++  + ++ D     +   AFV F
Sbjct: 119 EQ-YGKIEVIEIMTDRGSGKKRGFAFVTF 146

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.2 bits (121), Expect = 3e-08
 Identities = 29/177 (16%), Positives = 57/177 (32%), Gaps = 15/177 (8%)

Query: 158 GGGDFKRDMRELQELFSKLNPMAEEFVPPSLAKTNNNNHGVNGFNGGFFANNSLIFNNHN 217
           GG  F+     L+  F +        +   +   + N     GF    +A    +    N
Sbjct: 12  GGLSFETTDESLRSHFEQWGT-----LTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN 66

Query: 218 ARNGNVNANAAVRRKKSFGQGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALF 277
           AR   V+      ++    +  +R  +  +         + ++V  I +   E  L   F
Sbjct: 67  ARPHKVDGRVVEPKRAVSREDSQRPGAHLT--------VKKIFVGGIKEDTEEHHLRDYF 118

Query: 278 VGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT 332
              G++    I  D  S     FAF+ F D +     +      +  +   V  + +
Sbjct: 119 EQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKALS 175

>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 = 50.1 bits (119), Expect = 7e-09
 Identities = 13/71 (18%), Positives = 24/71 (33%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALNLA 316
           ++V  +    T E +   F   G+V D  +  D  +     F F+ F  E+       + 
Sbjct: 2   IFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61

Query: 317 GTMLGFYPVRV 327
              +    V  
Sbjct: 62  FHEINNKMVEC 72

>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 = 2e-08
 Identities = 20/74 (27%), Positives = 29/74 (39%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAAL- 313
             + V  +    TE  L  +F   G + D  I  D  S     FAF+ F + + A+ A  
Sbjct: 10  CCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKE 69

Query: 314 NLAGTMLGFYPVRV 327
              G  L    +RV
Sbjct: 70  RANGMELDGRRIRV 83

>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 = 49.9 bits (119), Expect = 2e-08
 Identities = 19/90 (21%), Positives = 42/90 (46%), Gaps = 8/90 (8%)

Query: 244 SRTSLAQREEIIRRTVYVSDIDQQVTEEQ-LAALFVGCGQVVDCRICGDPNSVLRFAFIE 302
           S +S       +   V++ +++  V ++  + A+F   G++V C +         FAF++
Sbjct: 3   SGSSGKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHKG------FAFVQ 56

Query: 303 FTDEEGARAAL-NLAGTMLGFYPVRVLPSK 331
           + +E  ARAA+    G M+    + +  + 
Sbjct: 57  YVNERNARAAVAGEDGRMIAGQVLDINLAA 86

>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 = 49.3 bits (117), Expect = 2e-08
 Identities = 22/83 (26%), Positives = 37/83 (44%), Gaps = 6/83 (7%)

Query: 260 YVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-----VLRFAFIEFTDEEGARAALN 314
           ++ +++   TEE L  +F   G +  C I    N       + F F+E+   E A+ AL 
Sbjct: 2   FIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALK 61

Query: 315 -LAGTMLGFYPVRVLPSKTAIAP 336
            L G  +  + + V  S+ A  P
Sbjct: 62  QLQGHTVDGHKLEVRISERATKP 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 = 49.3 bits (117), Expect = 2e-08
 Identities = 25/74 (33%), Positives = 38/74 (51%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAAL- 313
            TVYV  +D++V+E  L  LF+  G VV+  +  D  +     + F+EF  EE A  A+ 
Sbjct: 10  ATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIK 69

Query: 314 NLAGTMLGFYPVRV 327
            +    L   P+RV
Sbjct: 70  IMDMIKLYGKPIRV 83

>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 = 48.6 bits (115), Expect = 3e-08
 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 2/73 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
           + ++V  I +   E  L   F   G++    I  D  S     FAF+ F D +     + 
Sbjct: 3   KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI 62

Query: 315 LAGTMLGFYPVRV 327
                +  +   V
Sbjct: 63  QKYHTVNGHNCEV 75

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 3e-08
 Identities = 16/77 (20%), Positives = 27/77 (35%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
             V++  +  + TE  +   F     +      G    V   A +EF   E A AA+   
Sbjct: 16  HCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKD 75

Query: 317 GTMLGFYPVRVLPSKTA 333
              +    V +  + TA
Sbjct: 76  KANMQHRYVELFLNSTA 92

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

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

 Score = 48.8 bits (116), Expect = 3e-08
 Identities = 17/72 (23%), Positives = 36/72 (50%), Gaps = 5/72 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL-NL 315
            TVY   I   +T++ +   F   GQ+++ R+  +      ++F+ F+  E A  A+ ++
Sbjct: 19  CTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPEKG----YSFVRFSTHESAAHAIVSV 74

Query: 316 AGTMLGFYPVRV 327
            GT +  + V+ 
Sbjct: 75  NGTTIEGHVVKC 86

>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 = 48.5 bits (115), Expect = 4e-08
 Identities = 17/76 (22%), Positives = 34/76 (44%), Gaps = 1/76 (1%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
           + ++VS+I  +  +  L  +F   G+++D  I  +      F F+ F +   A  A   L
Sbjct: 12  KRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKL 71

Query: 316 AGTMLGFYPVRVLPSK 331
            GT++    + V  + 
Sbjct: 72  HGTVVEGRKIEVNNAT 87

>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 = 48.4 bits (115), Expect = 4e-08
 Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 3/73 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
             + V  +  + TE+ L   F   G+V+  ++  D  +     F F+ FT+ E     ++
Sbjct: 9   SDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS 68

Query: 315 LAGTMLGFYPVRV 327
               M+       
Sbjct: 69  -QRHMIDGRWCDC 80

>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 = 48.1 bits (114), Expect = 5e-08
 Identities = 17/75 (22%), Positives = 33/75 (44%), Gaps = 4/75 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
             V+V      +TE++L   F   G V+D  I     +   FAF+ F D++ A++     
Sbjct: 6   SGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA---FAFVTFADDQIAQSLCG-E 61

Query: 317 GTMLGFYPVRVLPSK 331
             ++    V +  ++
Sbjct: 62  DLIIKGISVHISNAE 76

>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 = 47.6 bits (113), Expect = 5e-08
 Identities = 15/71 (21%), Positives = 29/71 (40%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LA 316
           + VS++D  V++  +  LF   G +    +  D +      A + F  +  A  A+    
Sbjct: 3   LLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYN 62

Query: 317 GTMLGFYPVRV 327
           G  L   P+ +
Sbjct: 63  GVPLDGRPMNI 73

>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 = 48.3 bits (114), Expect = 7e-08
 Identities = 11/78 (14%), Positives = 21/78 (26%), Gaps = 7/78 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAA---L 313
             V+V  + + V E  L       G +    +          A +EF + + A+      
Sbjct: 16  PVVHVRGLCESVVEADLVEALEKFGTICYVMMMPFKR----QALVEFENIDSAKECVTFA 71

Query: 314 NLAGTMLGFYPVRVLPSK 331
                 +         S 
Sbjct: 72  ADVPVYIAGQQAFFNYST 89

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.2 bits (114), Expect = 7e-08
 Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL--RFAFIEFTDEEGARAALN 314
            T ++ ++   VTEE +   F G             N      F + EF D +   +AL+
Sbjct: 16  YTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALS 75

Query: 315 LAGTMLGFYPVRV 327
           L    LG   +RV
Sbjct: 76  LNEESLGNKRIRV 88

>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 = 47.4 bits (112), Expect = 8e-08
 Identities = 18/79 (22%), Positives = 40/79 (50%), Gaps = 3/79 (3%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAAL 313
           +  + V+ + Q +T+E+  +LF   G++  C++  D  +   L + F+ + D + A  A+
Sbjct: 2   KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAI 61

Query: 314 -NLAGTMLGFYPVRVLPSK 331
             L G  L    ++V  ++
Sbjct: 62  NTLNGLRLQTKTIKVSYAR 80

>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 = 47.7 bits (113), Expect = 8e-08
 Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 5/73 (6%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN- 314
           R  ++V ++   +TEE++  LF   G+  +  I  D      F FI       A  A   
Sbjct: 8   RSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG----FGFIRLETRTLAEIAKVE 63

Query: 315 LAGTMLGFYPVRV 327
           L    L    +RV
Sbjct: 64  LDNMPLRGKQLRV 76

>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 = 47.4 bits (112), Expect = 8e-08
 Identities = 13/82 (15%), Positives = 30/82 (36%), Gaps = 1/82 (1%)

Query: 251 REEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV-LRFAFIEFTDEEGA 309
           + ++  R+VY+       T + +       GQV++ ++    +       F+ F   E A
Sbjct: 1   KNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESA 60

Query: 310 RAALNLAGTMLGFYPVRVLPSK 331
           +  +   G       + +L   
Sbjct: 61  KKFVETPGQKYKETDLLILFKD 82

>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 = 46.9 bits (111), Expect = 1e-07
 Identities = 19/77 (24%), Positives = 37/77 (48%), Gaps = 3/77 (3%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCR--ICGDPNSVLRFAFIEFTDEEGARAALN- 314
            + V+ + Q +T+ +L ALF   G +  CR            +AF++FT E  ++ A+  
Sbjct: 4   NLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKV 63

Query: 315 LAGTMLGFYPVRVLPSK 331
           L G  +    ++V  ++
Sbjct: 64  LNGITVRNKRLKVSYAR 80

>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 = 47.0 bits (111), Expect = 1e-07
 Identities = 16/72 (22%), Positives = 29/72 (40%), Gaps = 4/72 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
           RT+   ++   +TE++L  +F      ++ R+          A+IEF  E  A   L   
Sbjct: 17  RTLLAKNLSFNITEDELKEVF---EDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEK 73

Query: 316 AGTMLGFYPVRV 327
            G  +    V +
Sbjct: 74  QGAEIDGRSVSL 85

>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 = 46.6 bits (110), Expect = 2e-07
 Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 3/79 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
             ++V ++    +EE L  LF   G + +     D  +     FAF+ F   E A  A  
Sbjct: 9   GRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYA 68

Query: 315 -LAGTMLGFYPVRVLPSKT 332
            + G +     + VLPS  
Sbjct: 69  EVDGQVFQGRMLHVLPSTI 87

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 45.6 bits (107), Expect = 3e-07
 Identities = 18/70 (25%), Positives = 32/70 (45%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAG 317
           TV V ++ +   + ++   F  CG ++   +        RFA IEF   +GA AA+    
Sbjct: 2   TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTH 61

Query: 318 TMLGFYPVRV 327
            ++G   + V
Sbjct: 62  KVVGQNEIIV 71

>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 = 45.5 bits (107), Expect = 3e-07
 Identities = 16/80 (20%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 256 RRTVYVSDIDQQVTEEQ-LAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARA 311
            R + + ++  ++ +E  L   F G G +    I             AF+ F +++ A  
Sbjct: 4   GREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAER 63

Query: 312 ALNLAGTMLGFYPVRVLPSK 331
           AL +  ++LG   + V  + 
Sbjct: 64  ALQMNRSLLGNREISVSLAD 83

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {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: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.0 bits (108), Expect = 4e-07
 Identities = 17/93 (18%), Positives = 33/93 (35%), Gaps = 2/93 (2%)

Query: 243 NSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAF 300
           +S +S    +      V +  +    ++E++   F G   V +               AF
Sbjct: 2   SSGSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAF 61

Query: 301 IEFTDEEGARAALNLAGTMLGFYPVRVLPSKTA 333
           ++F  +E A  AL      +G   + +  S  A
Sbjct: 62  VQFASQEIAEKALKKHKERIGHRYIEIFKSSRA 94

>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 = 45.0 bits (106), Expect = 7e-07
 Identities = 19/81 (23%), Positives = 41/81 (50%), Gaps = 6/81 (7%)

Query: 257 RTVYVSDIDQQVTEEQL----AALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAA 312
            T+Y++++++++ +++L     A+F   GQ++D  +          AF+ F +   A  A
Sbjct: 4   HTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKM-RGQAFVIFKEVSSATNA 62

Query: 313 LN-LAGTMLGFYPVRVLPSKT 332
           L  + G      P+R+  +KT
Sbjct: 63  LRSMQGFPFYDKPMRIQYAKT 83

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

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]

 Score = 44.5 bits (105), Expect = 7e-07
 Identities = 15/74 (20%), Positives = 24/74 (32%), Gaps = 6/74 (8%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAG 317
            V V    Q      L   F   G ++   +    N    +  I +  +  AR AL+  G
Sbjct: 6   WVTVFGFPQASASYILLQ-FAQYGNILKHVMSNTGN----WMHIRYQSKLQARKALSKDG 60

Query: 318 TML-GFYPVRVLPS 330
            +      + V P 
Sbjct: 61  RIFGESIMIGVKPC 74

>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 = 44.7 bits (105), Expect = 8e-07
 Identities = 14/74 (18%), Positives = 34/74 (45%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAAL- 313
             ++V+ I ++  E+++   F   G++ +  +  D  +     +A +E+   + A AA  
Sbjct: 8   WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 67

Query: 314 NLAGTMLGFYPVRV 327
            L G  +    ++V
Sbjct: 68  ALNGAEIMGQTIQV 81

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 9e-07
 Identities = 20/76 (26%), Positives = 33/76 (43%), Gaps = 5/76 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAAL- 313
             +YVS + + +T+++L  LF   G+++  RI  D  +       FI F     A  A+ 
Sbjct: 7   ANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIK 66

Query: 314 NLAGTMLGFY--PVRV 327
            L G        P+ V
Sbjct: 67  GLNGQKPSGATEPITV 82

>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 = 1e-06
 Identities = 17/76 (22%), Positives = 30/76 (39%), Gaps = 2/76 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
             +YV ++   +  + +  +F   G + D  +         FAF+EF D   A  A+   
Sbjct: 15  CRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRRG-GPPFAFVEFEDPRDAEDAVYGR 73

Query: 316 AGTMLGFYPVRVLPSK 331
            G     Y +RV   +
Sbjct: 74  DGYDYDGYRLRVEFPR 89

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 1e-06
 Identities = 20/85 (23%), Positives = 33/85 (38%), Gaps = 3/85 (3%)

Query: 250 QREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEE 307
            R      T+ V+++ +   E  L  LF   G +    +  D  +     FAFI F   E
Sbjct: 2   NRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRRE 61

Query: 308 GARAALN-LAGTMLGFYPVRVLPSK 331
            A  A+  ++G       + V  +K
Sbjct: 62  DAARAIAGVSGFGYDHLILNVEWAK 86

>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 = 44.0 bits (103), Expect = 1e-06
 Identities = 15/73 (20%), Positives = 31/73 (42%), Gaps = 4/73 (5%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR---FAFIEFTDEEGARAAL-N 314
           +++ ++D ++ E+ L   F   G ++                +AFI F   + + AA+  
Sbjct: 1   IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEA 60

Query: 315 LAGTMLGFYPVRV 327
           + G  L   P+ V
Sbjct: 61  MNGQYLCNRPITV 73

>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 = 43.9 bits (103), Expect = 1e-06
 Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 5/76 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
           + +YV ++    +EE +   F         R+      +  +AF+ F++ E A  A+  L
Sbjct: 9   KILYVRNLMLSTSEEMIEKEFNNIKPGAVERV----KKIRDYAFVHFSNREDAVEAMKAL 64

Query: 316 AGTMLGFYPVRVLPSK 331
            G +L   P+ V  +K
Sbjct: 65  NGKVLDGSPIEVTLAK 80

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.0 bits (103), Expect = 2e-06
 Identities = 25/80 (31%), Positives = 36/80 (45%), Gaps = 4/80 (5%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLA 316
            T+++S+I   V+EE L  LF   G VV        +   + A I+    E A  AL   
Sbjct: 11  ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDR--KMALIQMGSVEEAVQALIDL 68

Query: 317 -GTMLGF-YPVRVLPSKTAI 334
               LG  + +RV  SK+ I
Sbjct: 69  HNHDLGENHHLRVSFSKSTI 88

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

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

 Score = 43.5 bits (102), Expect = 2e-06
 Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVL--RFAFIEFTDEEGARAALN 314
             +++  +   + ++Q+  L    G +    +  D  + L   +AF E+ D      A+ 
Sbjct: 2   HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA 61

Query: 315 -LAGTMLGFYPVRV 327
            L G  LG   + V
Sbjct: 62  GLNGMQLGDKKLLV 75

>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 = 44.0 bits (103), Expect = 2e-06
 Identities = 18/87 (20%), Positives = 36/87 (41%), Gaps = 2/87 (2%)

Query: 247 SLAQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV-LRFAFIEFTD 305
            +A+++E     +Y+S++   + E++L  +    GQV+  RI  D +       F     
Sbjct: 9   QMAKQQEQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMES 68

Query: 306 EEGARAALN-LAGTMLGFYPVRVLPSK 331
            E   A +    G  +   P    P++
Sbjct: 69  TEKCEAVIGHFNGKFIKTPPGVSAPTE 95

>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 = 44.0 bits (103), Expect = 2e-06
 Identities = 12/81 (14%), Positives = 27/81 (33%), Gaps = 2/81 (2%)

Query: 249 AQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDE 306
             +++     ++V  +    T+  L   F G G + +  +  D  +     + F+   D 
Sbjct: 3   GSQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADR 62

Query: 307 EGARAALNLAGTMLGFYPVRV 327
             A  A      ++      V
Sbjct: 63  AAAERACKDPNPIIDGRKANV 83

>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 = 43.1 bits (101), Expect = 5e-06
 Identities = 17/78 (21%), Positives = 30/78 (38%), Gaps = 5/78 (6%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
             + V ++   VT + L  +F   G V+        N     A +++ D   A+ A   L
Sbjct: 8   LRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKNNQ--FQALLQYADPVSAQHAKLSL 65

Query: 316 AGTMLGFY--PVRVLPSK 331
            G  +      +R+  SK
Sbjct: 66  DGQNIYNACCTLRIDFSK 83

>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 = 42.9 bits (100), Expect = 5e-06
 Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 9/85 (10%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
           +TV++ ++     EE L  +    G +   R+   P++      AF +F  +E A+  L 
Sbjct: 9   KTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLA 68

Query: 315 -------LAGTMLGFYPVRVLPSKT 332
                    G  L    ++V  + T
Sbjct: 69  AASLEAEGGGLKLDGRQLKVDLAVT 93

>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 = 42.9 bits (100), Expect = 5e-06
 Identities = 12/78 (15%), Positives = 27/78 (34%), Gaps = 2/78 (2%)

Query: 256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL 313
           +   ++++I   +T+  +     G     +       N+      A ++F +E+ AR + 
Sbjct: 8   KVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSE 67

Query: 314 NLAGTMLGFYPVRVLPSK 331
            L    L      V    
Sbjct: 68  RLHRKKLNGREAFVHVVT 85

>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 = 42.8 bits (100), Expect = 6e-06
 Identities = 18/86 (20%), Positives = 40/86 (46%), Gaps = 3/86 (3%)

Query: 249 AQREEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVD--CRICGDPNSVLRFAFIEFTDE 306
           +Q+E      +++  + Q+  ++ L  +F+  G VV     I    N    F F+ + + 
Sbjct: 11  SQKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNP 70

Query: 307 EGARAAL-NLAGTMLGFYPVRVLPSK 331
             A+AA+ ++ G  +G   ++V   +
Sbjct: 71  VSAQAAIQSMNGFQIGMKRLKVQLKR 96

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 112

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 = 43.0 bits (100), Expect = 6e-06
 Identities = 15/77 (19%), Positives = 27/77 (35%), Gaps = 2/77 (2%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
             VY+  +  +   + +   F     V D        +       F+EF +E   +AAL 
Sbjct: 19  FCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC 78

Query: 315 LAGTMLGFYPVRVLPSK 331
                +G   ++V P  
Sbjct: 79  RHKQYMGNRFIQVHPIT 95

>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 = 42.4 bits (99), Expect = 7e-06
 Identities = 13/77 (16%), Positives = 24/77 (31%), Gaps = 7/77 (9%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCG----QVVDCRICGDPNSVLRFAFIEFTDEEGARAA- 312
            +++  I +    E++             V+      D      FAF+E+     A  A 
Sbjct: 3   RLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMAR 62

Query: 313 --LNLAGTMLGFYPVRV 327
             L      L  + + V
Sbjct: 63  RKLMPGRIQLWGHQIAV 79

>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 = 42.1 bits (98), Expect = 9e-06
 Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 3/79 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRF--AFIEFTDEEGARAAL- 313
           R+V+V +I  + TEEQL  +F   G VV  R+  D  +       F E+ D+E A +A+ 
Sbjct: 9   RSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMR 68

Query: 314 NLAGTMLGFYPVRVLPSKT 332
           NL G       +RV  + +
Sbjct: 69  NLNGREFSGRALRVDNAAS 87

>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 = 41.3 bits (96), Expect = 1e-05
 Identities = 16/78 (20%), Positives = 29/78 (37%), Gaps = 3/78 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV--LRFAFIEFTDEEGARAALN 314
            T+++++     T+  +  L      V               RFA+I+ T +E AR  + 
Sbjct: 2   CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 61

Query: 315 -LAGTMLGFYPVRVLPSK 331
            L G  +  Y +    S 
Sbjct: 62  KLNGLKIEGYTLVTKVSN 79

>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 = 41.1 bits (95), Expect = 2e-05
 Identities = 12/82 (14%), Positives = 28/82 (34%), Gaps = 1/82 (1%)

Query: 252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGAR 310
           E      +++ +++   +  +L           D  +        R F +++F   E   
Sbjct: 9   ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 68

Query: 311 AALNLAGTMLGFYPVRVLPSKT 332
            AL L G  +    +++   K 
Sbjct: 69  KALELTGLKVFGNEIKLEKPKG 90

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

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

 Score = 40.5 bits (94), Expect = 3e-05
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 11/92 (11%)

Query: 252 EEIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSV----------LRFAFI 301
           E+     +YV  ++  VT + LA  F  CG V   +  G P                A +
Sbjct: 4   EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATV 63

Query: 302 EFTDEEGARAALN-LAGTMLGFYPVRVLPSKT 332
            + D   A+AA+    G       ++V  ++ 
Sbjct: 64  SYEDPPTAKAAVEWFDGKDFQGSKLKVSLARK 95

>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 = 40.4 bits (94), Expect = 3e-05
 Identities = 17/79 (21%), Positives = 32/79 (40%), Gaps = 7/79 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
             ++V  +    +   LA  F   G +         +    FA+I++   + A+AA   +
Sbjct: 18  TRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKGDS----FAYIQYESLDAAQAACAKM 73

Query: 316 AGTMLGFY--PVRVLPSKT 332
            G  LG     +RV  +K+
Sbjct: 74  RGFPLGGPDRRLRVDFAKS 92

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]} Length = 79

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

 Score = 39.2 bits (91), Expect = 6e-05
 Identities = 19/76 (25%), Positives = 32/76 (42%), Gaps = 7/76 (9%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L 315
            T+YV   D  +T   L   F   G ++D  +    N     AF+ +   E A  A+  L
Sbjct: 6   NTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPPRN----CAFVTYEKMESADQAVAEL 59

Query: 316 AGTMLGFYPVRVLPSK 331
            GT +    ++V  ++
Sbjct: 60  NGTQVESVQLKVNIAR 75

>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 = 39.3 bits (91), Expect = 6e-05
 Identities = 12/74 (16%), Positives = 28/74 (37%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL- 313
             + V ++   V+ +++   F G   +            +    A + F   + A AA+ 
Sbjct: 10  TIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVI 69

Query: 314 NLAGTMLGFYPVRV 327
           +L    +G   V++
Sbjct: 70  DLNDRPIGSRKVKL 83

>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 = 40.7 bits (94), Expect = 7e-05
 Identities = 20/99 (20%), Positives = 40/99 (40%), Gaps = 3/99 (3%)

Query: 237 QGKRRMNSRTSLAQREEIIRRTVYVSDIDQQVTEEQLAALF--VGCGQVVDCRICGDPNS 294
           Q +++ +   +    E  + R + V+ I   V E QL  LF   G  + V      +   
Sbjct: 23  QQQQQQHIPPTQMNPEPDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQ 82

Query: 295 VLRFAFIEFTDEEGARAAL-NLAGTMLGFYPVRVLPSKT 332
              + F++F     A+ A+  L G  +    ++V  + +
Sbjct: 83  SRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAAS 121

>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 = 39.0 bits (90), Expect = 1e-04
 Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 3/79 (3%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTD---EEGARAAL 313
           + +Y+ ++  +VTE  L +LF    +     I     +         T    E   +A  
Sbjct: 19  KVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALH 78

Query: 314 NLAGTMLGFYPVRVLPSKT 332
            + G  L    + +   K 
Sbjct: 79  LVNGYKLYGKILVIEFGKN 97

>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 = 38.9 bits (90), Expect = 1e-04
 Identities = 14/71 (19%), Positives = 27/71 (38%), Gaps = 2/71 (2%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR-FAFIEFTDEEGARAALN-LA 316
           V + +   +  EE    +    G+V +  +C +    L    +++F  EE A  A+  L 
Sbjct: 30  VEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLN 89

Query: 317 GTMLGFYPVRV 327
                  P+  
Sbjct: 90  NRWFNGQPIHA 100

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.6 bits (89), Expect = 1e-04
 Identities = 15/74 (20%), Positives = 32/74 (43%), Gaps = 3/74 (4%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLR--FAFIEFTDEEGARAAL- 313
             ++V  +     E+ L  +F   GQ+ +  +  D  +     F F+ F + + A+ A+ 
Sbjct: 6   GKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMM 65

Query: 314 NLAGTMLGFYPVRV 327
            + G  +    +RV
Sbjct: 66  AMNGKSVDGRQIRV 79

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {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: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.8 bits (87), Expect = 2e-04
 Identities = 19/80 (23%), Positives = 28/80 (35%), Gaps = 8/80 (10%)

Query: 257 RTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDE---EGARAA 312
           R V++ D  +      QL  L    G + +  I    N     AFIE       + A   
Sbjct: 9   RVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKIN----EAFIEMATTEDAQAAVDY 64

Query: 313 LNLAGTMLGFYPVRVLPSKT 332
                 ++   PVRV  S+ 
Sbjct: 65  YTTTPALVFGKPVRVHLSQK 84

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {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: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.3 bits (83), Expect = 0.001
 Identities = 11/81 (13%), Positives = 25/81 (30%), Gaps = 10/81 (12%)

Query: 258 TVYVSDIDQQVTEE-----QLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAA 312
            +     +  V  E     +  +LF    +    +         +   I F++   A  A
Sbjct: 7   GLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS----FKRVRINFSNPLSAADA 62

Query: 313 L-NLAGTMLGFYPVRVLPSKT 332
              L  T      +++  ++T
Sbjct: 63  RLRLHKTEFLGKEMKLYFAQT 83

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 35.6 bits (81), Expect = 0.001
 Identities = 18/78 (23%), Positives = 34/78 (43%), Gaps = 7/78 (8%)

Query: 257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAAL--- 313
           R +++  +  +VTE ++ AL +  G+V +  +    N     AF+E   EE A   +   
Sbjct: 9   RVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGKN----QAFLELATEEAAITMVNYY 64

Query: 314 NLAGTMLGFYPVRVLPSK 331
           +     L   P+ +  S 
Sbjct: 65  SAVTPHLRNQPIYIQYSN 82

>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 = 34.4 bits (78), Expect = 0.003
 Identities = 12/66 (18%), Positives = 28/66 (42%), Gaps = 3/66 (4%)

Query: 259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-L 315
           +Y+  +    T++ L  L    G++V  +   D  +     + F++F     A+ A+  L
Sbjct: 1   LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTAL 60

Query: 316 AGTMLG 321
             + + 
Sbjct: 61  KASGVQ 66

>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 = 34.3 bits (78), Expect = 0.003
 Identities = 14/77 (18%), Positives = 30/77 (38%), Gaps = 8/77 (10%)

Query: 258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDE---EGARAALN 314
            +Y+ ++   VT + L  LF      +  ++         +AF+++ D+     A   L+
Sbjct: 3   KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLKSG----YAFVDYPDQNWAIRAIETLS 58

Query: 315 LAGTMLGFYPVRVLPSK 331
               + G   + V  S 
Sbjct: 59  GKVELHG-KIMEVDYSV 74

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	437
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.94
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.7
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.69
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.69
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.68
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.68
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.67
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.67
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.67
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.67
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.67
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.66
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.65
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.65
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.65
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.65
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.65
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.65
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.65
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.64
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.63
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.63
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.63
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.63
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.63
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.63
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.63
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.62
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.62
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.62
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.62
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.62
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.62
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.61
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.61
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.6
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.59
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.59
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.59
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.58
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.58
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.58
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.58
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.58
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.57
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.56
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.56
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.56
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.56
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.56
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.54
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.54
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.53
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.53
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.52
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.52
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.52
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.51
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.51
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.5
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.5
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.5
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.5
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.5
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.5
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.5
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.5
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.5
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.5
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.49
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.49
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.49
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.49
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.49
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.49
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.48
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.48
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.48
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.48
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.48
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.48
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.48
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.48
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.48
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.47
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.47
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.47
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.47
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.46
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.46
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.46
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.46
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.46
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.46
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.46
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.46
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.46
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.45
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.45
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.45
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.45
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.44
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.43
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.42
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.42
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.42
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.42
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.41
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.41
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.41
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.41
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.41
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.4
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.39
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.39
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.39
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.39
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.37
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.37
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.36
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.36
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.36
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.35
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.34
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.32
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.31
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.3
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.3
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.3
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.29
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.29
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.28
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.28
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.27
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.27
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.26
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.25
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.24
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.24
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.23
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	99.23
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.23
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.23
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.22
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.2
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.2
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.18
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.18
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.18
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.17
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.15
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.14
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.14
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.13
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.11
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.1
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.09
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.05
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.04
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.04
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.02
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.01
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.01
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.98
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	98.91
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.87
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.86
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.63
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.58
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.51
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	96.85
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	96.29
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	95.75
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	95.15
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	86.7

>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=99.94  E-value=2.1e-26  Score=208.06  Aligned_cols=164  Identities=18%  Similarity=0.294  Sum_probs=134.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~~  332 (437)
                      ..|+|||+|||+++|+++|+++|++||.|.++.++.+..+  ++|||||+|.+.++|.+|+.+.+..+.++.+.+.....
T Consensus         5 ~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~~~~~~~~~~~~~~~~   84 (183)
T d1u1qa_           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAVS   84 (183)
T ss_dssp             HHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcCCcccccchhhhhhhh
Confidence            4489999999999999999999999999999999988765  48999999999999999999878888888888776532


Q ss_pred             CCCCCCCCCCCCChhhhcccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHH
Q 013726          333 AIAPVNPTFLPRTEDEREMCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTL  410 (437)
Q Consensus       333 ~~~~~~~~~~pr~~~~~~~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~ka  410 (437)
                      .....        ........++|||+|||+.+|+++|+++|+.| |.|..+.+..+  .+.++|||||+|.+.++|.+|
T Consensus        85 ~~~~~--------~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~-G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~A  155 (183)
T d1u1qa_          85 REDSQ--------RPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQY-GKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKI  155 (183)
T ss_dssp             TTGGG--------STTTTCCCSEEEEECCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHH
T ss_pred             ccccc--------ccccccccceeEEccCCCcCCHHHHhhhhccC-CceeeeeeecccccCccceeEEEEECCHHHHHHH
Confidence            11111        11123455899999999999999999999995 99999999987  567999999999999999999


Q ss_pred             HhhcCceeccCc-hhhhh
Q 013726          411 FIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       411 l~~~~~~~~~~~-~i~~~  427 (437)
                      +...+..+.+.+ .+.||
T Consensus       156 l~~~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_         156 VIQKYHTVNGHNCEVRKA  173 (183)
T ss_dssp             HTSSCEEETTEEEEEEEC
T ss_pred             HHhCCCeECCEEEEEEec
Confidence            887665543332 35554

>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=99.70  E-value=2.6e-17  Score=132.54  Aligned_cols=79  Identities=28%  Similarity=0.403  Sum_probs=74.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...+||||+|||+++|+++|+++|++||+|.+|++..++.+++|||||+|.+.++|.+|+. |+|..+.|+.|+|.+++
T Consensus         5 ~~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1           5 DGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            34568999999999999999999999999999999999988889999999999999999999 99999999999999986

>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=99.69  E-value=6.1e-17  Score=131.14  Aligned_cols=79  Identities=22%  Similarity=0.322  Sum_probs=75.1

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||+|.+|+++.++.+++|||||+|.+.++|.+|++ |+|..++|+.|.|.+++
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~   87 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   87 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            45668899999999999999999999999999999999988889999999999999999998 99999999999999986

>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=99.69  E-value=4e-17  Score=128.73  Aligned_cols=76  Identities=28%  Similarity=0.475  Sum_probs=71.6

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..++|++|+|.+++
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            468999999999999999999999999999999988765  58999999999999999998 99999999999999985

>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=99.68  E-value=6.8e-17  Score=127.29  Aligned_cols=76  Identities=25%  Similarity=0.503  Sum_probs=71.2

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .++|||+|||+++|+++|+++|++||.|.+|+++.+...  ++|||||+|.+.++|.+|++ |+|..++|++|+|.+++
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            467999999999999999999999999999999987654  58999999999999999998 99999999999999975

>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=99.68  E-value=5.4e-17  Score=127.74  Aligned_cols=75  Identities=29%  Similarity=0.520  Sum_probs=71.0

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      +|||+|||+++|+++|+++|++||+|.+|+++.|+.+  ++|||||+|.+.++|..|++ |+|..++|++|+|.++++
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~~   79 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQR   79 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECCC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            6999999999999999999999999999999998865  48999999999999999998 999999999999999853

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=7.1e-17  Score=128.45  Aligned_cols=78  Identities=23%  Similarity=0.362  Sum_probs=72.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +..++|||+|||+++|+++|+++|++||.|.+++++.|+.+  ++|||||+|.+.++|.+|+++++..|+|+.|.|..+.
T Consensus         4 e~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           4 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTEECEEEECC
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            34589999999999999999999999999999999988865  5999999999999999999999999999999998763

>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=99.67  E-value=1.4e-16  Score=129.06  Aligned_cols=78  Identities=26%  Similarity=0.307  Sum_probs=73.2

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..++||||+|||+++|+++|+++|++||+|.+|+++.++.+  ++|||||+|.+.++|..|++ |||..++|++|.|.++
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            45689999999999999999999999999999999988765  58999999999999999998 9999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        85 ~   85 (93)
T d1h2vz_          85 A   85 (93)
T ss_dssp             S
T ss_pred             C
Confidence            4

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=7e-17  Score=129.66  Aligned_cols=77  Identities=22%  Similarity=0.449  Sum_probs=73.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...+|||+|||+++|+++|+++|++||.|.+|+++.+..+++|||||+|.+.++|.+|++ |||..++|+.|.|.+++
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~   84 (89)
T d1cvja2           7 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   84 (89)
T ss_dssp             TTTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            346899999999999999999999999999999999988889999999999999999998 99999999999999985

>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=99.67  E-value=8.4e-17  Score=125.38  Aligned_cols=74  Identities=24%  Similarity=0.410  Sum_probs=70.7

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +||||+|||+++++++|+++|+.||.|..+++..++.+++|||||+|.+.++|.+|+.+++..|+|++|.|...
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHHhcCcEECCEEEEEEEC
Confidence            58999999999999999999999999999999999888889999999999999999999999999999999864

>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=99.67  E-value=4.4e-17  Score=134.29  Aligned_cols=77  Identities=30%  Similarity=0.446  Sum_probs=72.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +.+||||+|||+++|+++|+++|+.||.|.+|+++.++.+  ++|||||+|.+.++|.+|++|||..|+|+.|.|.++.
T Consensus        17 ~~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a~   95 (101)
T d2cq4a1          17 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQ   95 (101)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHH
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
Confidence            4579999999999999999999999999999999998764  6999999999999999999999999999999999864

>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=99.66  E-value=5.6e-16  Score=134.09  Aligned_cols=80  Identities=24%  Similarity=0.331  Sum_probs=74.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |||..|+|+.|+|.+
T Consensus        39 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~  118 (139)
T d1u6fa1          39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            345679999999999999999999999999999999998865  58999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus       119 a~~  121 (139)
T d1u6fa1         119 AAS  121 (139)
T ss_dssp             SSC
T ss_pred             cCC
Confidence            863

>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=99.65  E-value=1.2e-16  Score=128.50  Aligned_cols=78  Identities=24%  Similarity=0.317  Sum_probs=73.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      .+..+|||+|||.++|+++|+++|++||.|.+|++..++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~a   85 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   85 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEee
Confidence            35679999999999999999999999999999999988765  59999999999999999999 9999999999999998


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        86 k   86 (90)
T d2cq0a1          86 K   86 (90)
T ss_dssp             S
T ss_pred             e
Confidence            6

>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=99.65  E-value=2.1e-16  Score=123.66  Aligned_cols=75  Identities=20%  Similarity=0.278  Sum_probs=70.3

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .++|||+|||+++|+++|+++|++||.|..+.+..++.+  ++|||||+|.++++|.+|++++|..|+|+.|.|..+
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            478999999999999999999999999999999988766  489999999999999999999999999999999864

>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=99.65  E-value=2e-16  Score=125.64  Aligned_cols=74  Identities=27%  Similarity=0.495  Sum_probs=69.0

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-----CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-----VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-----s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      |||+|||+++|+++|+++|++||.|.+|+++.++.+     ++|||||+|.+.++|.+|++ |||..++|+.|.|.++..
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~~   80 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISER   80 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSSC
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            799999999999999999999999999999887654     38999999999999999998 999999999999999753

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1e-16  Score=128.71  Aligned_cols=77  Identities=31%  Similarity=0.433  Sum_probs=72.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..+||||+|||+++|+++|+++|++||+|.+|+++.|+.+  ++|||||+|.+.++|.+|+. |||..++|++|.|.+++
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a~   83 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   83 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            4689999999999999999999999999999999988764  69999999999999999998 99999999999999985

>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=99.65  E-value=1.7e-16  Score=125.52  Aligned_cols=74  Identities=27%  Similarity=0.303  Sum_probs=68.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEE
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRV  327 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V  327 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|+. |+|..++|++|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            34578999999999999999999999999999999988764  58999999999999999998 9999999999987

>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=99.65  E-value=2e-16  Score=126.70  Aligned_cols=78  Identities=18%  Similarity=0.279  Sum_probs=72.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|+. |||..++|+.|.|.++
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            35689999999999999999999999999999999988765  58999999999999999998 9999999999999997


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        85 ~   85 (88)
T d1rk8a_          85 F   85 (88)
T ss_dssp             E
T ss_pred             c
Confidence            5

>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=99.65  E-value=1.2e-16  Score=129.36  Aligned_cols=77  Identities=32%  Similarity=0.441  Sum_probs=72.3

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|+|.+++
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~   87 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   87 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            3479999999999999999999999999999999988765  58999999999999999998 99999999999999985

>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=99.64  E-value=3.3e-16  Score=128.00  Aligned_cols=79  Identities=25%  Similarity=0.311  Sum_probs=73.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ ||+..++|+.|+|.++
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            35678999999999999999999999999999999988754  69999999999999999998 9999999999999998


Q ss_pred             CC
Q 013726          331 KT  332 (437)
Q Consensus       331 ~~  332 (437)
                      ..
T Consensus        86 ~~   87 (99)
T d1whwa_          86 TI   87 (99)
T ss_dssp             CC
T ss_pred             CC
Confidence            64

>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=99.63  E-value=3.4e-16  Score=124.44  Aligned_cols=77  Identities=25%  Similarity=0.408  Sum_probs=70.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~  328 (437)
                      ...++|||+|||+++|+++|+++|++||+|.+++++.++.+  ++|||||+|.+.++|.+|++ |||..+.|  ++|.|.
T Consensus         4 ~~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~   83 (85)
T d1b7fa2           4 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVR   83 (85)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEE
Confidence            35578999999999999999999999999999999988754  58999999999999999999 99999876  889998


Q ss_pred             cc
Q 013726          329 PS  330 (437)
Q Consensus       329 ~s  330 (437)
                      ++
T Consensus        84 ~A   85 (85)
T d1b7fa2          84 LA   85 (85)
T ss_dssp             EC
T ss_pred             EC
Confidence            74

>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=99.63  E-value=2.2e-16  Score=125.82  Aligned_cols=75  Identities=19%  Similarity=0.356  Sum_probs=71.1

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .+|||+|||+++|+++|+++|++||+|.+|+++.|+.+  ++|||||+|.++++|..|++ |+|..++|++|.|.++.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            46999999999999999999999999999999998764  58999999999999999999 99999999999999986

>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=99.63  E-value=2.3e-16  Score=125.67  Aligned_cols=78  Identities=17%  Similarity=0.244  Sum_probs=72.0

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||.++|+++|+++|+.||+|.+|++..++.+ ++|||||+|.++++|.+|+++++..+.|+.|.|.++.
T Consensus         4 ~~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           4 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKD   82 (85)
T ss_dssp             HHTTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEGG
T ss_pred             CCcCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEcC
Confidence            45689999999999999999999999999999999877644 5899999999999999999999999999999999864

>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=99.63  E-value=4.8e-16  Score=128.16  Aligned_cols=79  Identities=15%  Similarity=0.259  Sum_probs=71.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +...++|||+|||+.+|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ +++ .++|++|.|.+
T Consensus         7 d~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~   85 (103)
T d2cqda1           7 DTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   85 (103)
T ss_dssp             SCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             CCCCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEE
Confidence            445678999999999999999999999999999999988765  68999999999999999999 766 69999999998


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      +..
T Consensus        86 a~~   88 (103)
T d2cqda1          86 AYL   88 (103)
T ss_dssp             STT
T ss_pred             cCC
Confidence            764

>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=99.63  E-value=2.9e-16  Score=122.95  Aligned_cols=74  Identities=22%  Similarity=0.307  Sum_probs=69.4

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .|||+|||+++|+++|+++|++||.|.+|++..++.. ++|||||+|.+.++|.+|++ |||..++|++|+|..+.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            5999999999999999999999999999999988754 69999999999999999999 99999999999998864

>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=99.63  E-value=2.6e-16  Score=122.40  Aligned_cols=73  Identities=21%  Similarity=0.375  Sum_probs=68.1

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.++++|.+|+++++..|+|+.|.|..+
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCCEEEeeEC
Confidence            3899999999999999999999999999999988765  589999999999999999999999999999999753

>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=99.63  E-value=2.7e-16  Score=130.02  Aligned_cols=77  Identities=22%  Similarity=0.349  Sum_probs=72.0

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|..+.+..|+.+  ++|||||+|.+.++|.+|+++++..|+|+.|.|.++.
T Consensus        19 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a~   97 (103)
T d1x4ba1          19 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRAV   97 (103)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEECc
Confidence            3478999999999999999999999999999999988765  6999999999999999999999999999999999875

>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=99.62  E-value=4.7e-16  Score=123.72  Aligned_cols=76  Identities=26%  Similarity=0.389  Sum_probs=69.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~  329 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+|++ |||..+.|  ++|.|.+
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEe
Confidence            3478999999999999999999999999999999988754  59999999999999999998 99999988  4588876


Q ss_pred             c
Q 013726          330 S  330 (437)
Q Consensus       330 s  330 (437)
                      +
T Consensus        85 A   85 (85)
T d1fxla2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=3.8e-16  Score=126.67  Aligned_cols=79  Identities=20%  Similarity=0.282  Sum_probs=72.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC---CCceEEEEEEcCHHHHHHHHH-h-cCeEeeeeeeEEe
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN---SVLRFAFIEFTDEEGARAALN-L-AGTMLGFYPVRVL  328 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~---~s~GfaFVeF~~~e~A~~Al~-l-ng~~l~Gr~L~V~  328 (437)
                      ...++|||+|||+++++++|+++|++||.|.+|+++.+..   .++|||||+|.+.++|.+|++ | +|..++|++|.|.
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            3557899999999999999999999999999999987754   269999999999999999998 7 8999999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      +++.
T Consensus        86 ~A~~   89 (94)
T d2cpha1          86 WADS   89 (94)
T ss_dssp             ECCC
T ss_pred             EcCC
Confidence            9864

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=1.1e-16  Score=125.48  Aligned_cols=74  Identities=23%  Similarity=0.394  Sum_probs=69.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ++|||+|||+++|+++|+++|++||.|.+++++.|+.+  ++|||||+|.++++|.+|+++++..++|+.|.|+.+
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            46999999999999999999999999999999998865  699999999999999999999999999999999864

>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=99.62  E-value=5.7e-16  Score=129.52  Aligned_cols=77  Identities=21%  Similarity=0.327  Sum_probs=71.1

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...+||||+|||.++|+++|+++|++||.|.+|++..+. .++|||||+|.+.++|..|++ |||..|+|+.|.|.++.
T Consensus         5 ~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~~-~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   82 (114)
T d2f9da1           5 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP-ETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYN   82 (114)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST-TTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccccC-CcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            356899999999999999999999999999999998664 358999999999999999998 99999999999999874

>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=99.62  E-value=5.5e-16  Score=127.59  Aligned_cols=77  Identities=19%  Similarity=0.433  Sum_probs=72.0

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+++++.++.+  ++|||||+|.+.++|..|++ |||..++|++|+|.+++
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~   96 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR   96 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            3467999999999999999999999999999999988765  48999999999999999998 99999999999999986

>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=99.62  E-value=3e-16  Score=125.86  Aligned_cols=77  Identities=19%  Similarity=0.366  Sum_probs=71.4

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +.++|||+|||+++|+++|+++|++||.|..+.++.++.+  ++|||||+|.+.++|..|++ |+|..++|++|.|.++.
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~   83 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   83 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            5678999999999999999999999999999998876644  69999999999999999998 99999999999999975

>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=99.62  E-value=3.3e-16  Score=123.17  Aligned_cols=75  Identities=21%  Similarity=0.258  Sum_probs=66.8

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +||||+|||+++|+++|+++|++||.|..+.+..+...  ++|||||+|.+.++|.+|++ |||..++|++|.|.+++
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            69999999999999999999999999988887765543  68999999999999999998 99999999999999875

>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=99.61  E-value=5.6e-16  Score=123.54  Aligned_cols=77  Identities=21%  Similarity=0.328  Sum_probs=68.9

Q ss_pred             CCcEEEEecCCccch-HHHHHHHHhcCCCeeEEEEeeCCC---CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          255 IRRTVYVSDIDQQVT-EEQLAALFVGCGQVVDCRICGDPN---SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       255 ~~rtLfVgNLp~~~t-ee~L~~~F~~~G~I~~vri~~d~~---~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ..++|||+|||+++| +++|+++|++||.|.+|++..+..   .++|||||+|.+.++|.+|++|||..++|+.|.|.++
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~~~~~gr~l~V~~a   82 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNRSLLGNREISVSLA   82 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTTEEETTEEEEEEEC
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCCCEECCEEEEEEEc
Confidence            468999999999976 556999999999999999876432   3699999999999999999999999999999999998


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        83 ~   83 (86)
T d2ghpa3          83 D   83 (86)
T ss_dssp             C
T ss_pred             C
Confidence            5

>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=99.61  E-value=1.7e-15  Score=122.02  Aligned_cols=77  Identities=18%  Similarity=0.212  Sum_probs=69.8

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|++||.|.+|+++.|+.+  ++|||||+|.+.++|.+||+ +...++|+.|.|.++.
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~~~l~Gr~i~v~~a~   84 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QRHMIDGRWCDCKLPN   84 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SCEEETTEEEEEECCC
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHh-cCCccCCEEeEEEeCC
Confidence            35578999999999999999999999999999999998865  59999999999999999999 3447999999999875

>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=99.60  E-value=5.5e-16  Score=127.70  Aligned_cols=77  Identities=32%  Similarity=0.464  Sum_probs=72.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..+||||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+|++ |+|..++|+.|.|.++.
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~   86 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            4578999999999999999999999999999999988765  58999999999999999998 99999999999999875

>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=99.59  E-value=6e-16  Score=127.05  Aligned_cols=79  Identities=22%  Similarity=0.370  Sum_probs=71.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      +.+.++|||+|||+++|+++|+++|++||.|..+++..+... ++|||||+|.+.++|.+|++ |||..+.|+++.|.++
T Consensus        15 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          15 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            445689999999999999999999999999999999877644 59999999999999999999 9999999999988776


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      +
T Consensus        95 ~   95 (101)
T d1x5oa1          95 E   95 (101)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.59  E-value=4e-16  Score=121.61  Aligned_cols=72  Identities=21%  Similarity=0.376  Sum_probs=67.2

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      .|||+|||+++|+++|+++|++||.|.+|+++.++.+  ++|||||+|.+.++|.+||++++..++|+.|.|+.
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g~~i~vk~   74 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGLSKCEIKV   74 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTTBCCEEEC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECCEEeEEEE
Confidence            4899999999999999999999999999999988765  69999999999999999999888889999999875

>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=99.59  E-value=1.8e-15  Score=123.20  Aligned_cols=75  Identities=24%  Similarity=0.372  Sum_probs=69.9

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ...++|||+|||.++++++|+++|++||.|.+|++..+    +|||||+|.+.++|.+|+. |+|..++|+.|+|.+++.
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~   91 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   91 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            44578999999999999999999999999999999876    4799999999999999998 999999999999999863

>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=99.58  E-value=1.5e-15  Score=120.19  Aligned_cols=75  Identities=21%  Similarity=0.321  Sum_probs=68.5

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe-eeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML-GFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l-~Gr~L~V~~s~  331 (437)
                      .+.+||||+|||.++|+++|+++|++||.|.+|++.+++   +|||||+|.+.++|..|+. |+|..+ +|++|+|.+++
T Consensus         6 pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~---~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           6 PPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR---HDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT---CSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc---ceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            356899999999999999999999999999999997654   5899999999999999999 999988 47899999985

>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=99.58  E-value=8.6e-16  Score=118.68  Aligned_cols=73  Identities=18%  Similarity=0.239  Sum_probs=68.0

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .|||+|||+++|+++|+++|++||.|..+.+..++.+  ++|||||+|.+.++|.+|++++|..++|++|+|.++
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECCeEEEEEEC
Confidence            3899999999999999999999999999999887754  599999999999999999999999999999999864

>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=99.58  E-value=2.8e-15  Score=121.55  Aligned_cols=77  Identities=22%  Similarity=0.324  Sum_probs=70.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hc------CeEeeeeee
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LA------GTMLGFYPV  325 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-ln------g~~l~Gr~L  325 (437)
                      ..++|||+|||+++|+++|+++|++||.|.++.+..++.+  ++|||||+|.+.++|.+|++ |+      |..+.|+.|
T Consensus         7 ~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l   86 (98)
T d1x4ha1           7 EGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQL   86 (98)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEE
Confidence            4579999999999999999999999999999999887754  58999999999999999998 75      788999999


Q ss_pred             EEeccC
Q 013726          326 RVLPSK  331 (437)
Q Consensus       326 ~V~~s~  331 (437)
                      .|.++.
T Consensus        87 ~v~~a~   92 (98)
T d1x4ha1          87 KVDLAV   92 (98)
T ss_dssp             EEECCC
T ss_pred             EEEECC
Confidence            999975

>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=99.58  E-value=2e-16  Score=127.77  Aligned_cols=79  Identities=13%  Similarity=0.203  Sum_probs=71.2

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC-CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN-SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~-~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      +...++|||+|||+++|+++|+++|++||.|.+++++.+.. .++|||||+|.+.++|.+||+|+|..++|++|.|.+++
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~ak   89 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKPK   89 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECCC
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEecC
Confidence            44667999999999999999999999999998888865432 36899999999999999999999999999999999875

>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=99.58  E-value=1.7e-15  Score=119.53  Aligned_cols=73  Identities=25%  Similarity=0.507  Sum_probs=67.1

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEE-EEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~v-ri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      |||+|||+++|+++|+++|++||.|.++ +++.++.+  ++|||||+|.+.++|.+|++ |+|..++|++|.|.++.
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~   77 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAF   77 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEec
Confidence            7999999999999999999999999765 67777654  58999999999999999998 99999999999999975

>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=99.57  E-value=2.8e-15  Score=122.37  Aligned_cols=80  Identities=24%  Similarity=0.328  Sum_probs=69.9

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCee--------EEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEee
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVV--------DCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLG  321 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~--------~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~  321 (437)
                      +...++|||+|||+++|+++|+++|++||.|.        .+.+..++.+  ++|||||+|.+.++|.+|++ |+|..++
T Consensus         5 ~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~   84 (101)
T d2cpea1           5 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQ   84 (101)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEET
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEEC
Confidence            44678999999999999999999999999885        3445555543  48999999999999999999 9999999


Q ss_pred             eeeeEEeccCC
Q 013726          322 FYPVRVLPSKT  332 (437)
Q Consensus       322 Gr~L~V~~s~~  332 (437)
                      |+.|+|.+++.
T Consensus        85 gr~i~V~~a~~   95 (101)
T d2cpea1          85 GSKLKVSLARK   95 (101)
T ss_dssp             TEECEEECSSC
T ss_pred             CEEEEEEEcCC
Confidence            99999999864

>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=99.56  E-value=5e-15  Score=120.04  Aligned_cols=76  Identities=22%  Similarity=0.348  Sum_probs=69.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|..+.+..+. .++|||||+|.+.++|.+|++ |||..++|++|+|.+++
T Consensus        13 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~-~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          13 NDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNRR-GGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCSS-SSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecccc-cccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            45789999999999999999999999999999876543 468999999999999999999 99999999999999986

>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=99.56  E-value=4.4e-15  Score=118.52  Aligned_cols=76  Identities=32%  Similarity=0.249  Sum_probs=68.4

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe-eeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML-GFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l-~Gr~L~V~~s~~  332 (437)
                      +++||||+|||+++|+++|+++|++||.|..+.+..++  ++|||||+|.+.++|.+|+. |+|..+ +|++|+|.+++.
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~~--~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk~   86 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK--DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSKS   86 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS--STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECSS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeeec--ccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCCC
Confidence            46899999999999999999999999999888776543  46899999999999999998 999988 589999999874

>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=99.56  E-value=5.1e-15  Score=122.41  Aligned_cols=75  Identities=28%  Similarity=0.364  Sum_probs=69.0

Q ss_pred             CcEEEEecCCc-cchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          256 RRTVYVSDIDQ-QVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       256 ~rtLfVgNLp~-~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      .++|||+|||+ .+|+++|+++|+.||.|.+|+++.++   +|||||+|.+.++|.+|++ |+|..|.|+.|+|.+++..
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~---kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~~~   78 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQ   78 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc---cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCCC
Confidence            47999999966 59999999999999999999998875   5899999999999999999 9999999999999998643

>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=99.56  E-value=2e-15  Score=121.55  Aligned_cols=77  Identities=18%  Similarity=0.210  Sum_probs=65.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~~~~~  429 (437)
                      ..++|||+|||+++|+++|+++|++| |.|.+|+|++|  +|.++|||||+|.+.++|.+|+...+.+..+...+.||..
T Consensus         7 ~~~~lfV~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~~~l~Gr~i~v~~a~~   85 (90)
T d2cqga1           7 KTSDLIVLGLPWKTTEQDLKEYFSTF-GEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQRHMIDGRWCDCKLPNS   85 (90)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHHGGG-SCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSCEEETTEEEEEECCCT
T ss_pred             CCCeEEEECCCCCCCHHHHHHHHHhh-cccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcCCccCCEEeEEEeCCC
Confidence            34799999999999999999999995 99999999987  5789999999999999999999977755444444556543

>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=99.56  E-value=2e-15  Score=121.13  Aligned_cols=74  Identities=14%  Similarity=0.255  Sum_probs=67.2

Q ss_pred             CCcEEEEecCCccchHHHH---HHHHhcCCCeeEEEEeeCCCC-----CceEEEEEEcCHHHHHHHHH-hcCeEeeeeee
Q 013726          255 IRRTVYVSDIDQQVTEEQL---AALFVGCGQVVDCRICGDPNS-----VLRFAFIEFTDEEGARAALN-LAGTMLGFYPV  325 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L---~~~F~~~G~I~~vri~~d~~~-----s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L  325 (437)
                      ..++|||+|||+++++++|   .++|++||.|.+|.+..++.+     ..|||||+|.+.++|.+|++ |||..++|+.|
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            4567999999999999999   678999999999999988754     36899999999999999999 99999999999


Q ss_pred             EEe
Q 013726          326 RVL  328 (437)
Q Consensus       326 ~V~  328 (437)
                      +|.
T Consensus        87 kvS   89 (89)
T d2cpia1          87 KAS   89 (89)
T ss_dssp             EEE
T ss_pred             EEC
Confidence            974

>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=99.54  E-value=7.5e-15  Score=120.67  Aligned_cols=77  Identities=26%  Similarity=0.423  Sum_probs=68.5

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC---CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS---VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~---s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|+.|| +..++++.++..   ++|||||+|.+.++|++|++|++..|+|+.|+|.++.
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a~   92 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEECC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            458999999999999999999999999 778888766532   5899999999999999888899999999999999976


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        93 ~   93 (104)
T d1wi8a_          93 Q   93 (104)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.54  E-value=4.2e-15  Score=123.23  Aligned_cols=75  Identities=15%  Similarity=0.145  Sum_probs=68.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKTA  333 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~~  333 (437)
                      ..+||||+|||+++++++|+++|++||.|..|.+..    ++|||||+|.+.++|.+|++ |||..|.|+.|.|.++...
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~----~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~   84 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIG   84 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETT
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec----cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCC
Confidence            457999999999999999999999999999998843    36899999999999999999 9999999999999987643

>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=99.53  E-value=6.4e-15  Score=117.44  Aligned_cols=74  Identities=26%  Similarity=0.293  Sum_probs=68.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      ..++|||+|||.++++++|+++|++||.|.+|++..+    +|||||+|.+.++|.+|++ |||..++|+.|+|.++..
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~~   81 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFACH   81 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESSC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECCC
Confidence            3467999999999999999999999999999999866    4799999999999999999 999999999999999863

>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=99.53  E-value=2.8e-15  Score=115.11  Aligned_cols=68  Identities=18%  Similarity=0.363  Sum_probs=63.7

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeE
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVR  326 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~  326 (437)
                      |||+|||+++|+++|+++|++||.|..+++..++.+  ++|||||+|.+.++|.+|++ |||..++|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            799999999999999999999999999999887754  58999999999999999999 999999999764

>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=99.52  E-value=9.6e-15  Score=115.84  Aligned_cols=66  Identities=18%  Similarity=0.306  Sum_probs=59.5

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      .++|||+|||.++|+++|+++|++| |+|.+++++++  .++++|||||+|.+.++|.+|+...+...+
T Consensus         6 ~t~lfV~nlp~~~te~~l~~~F~~~-G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~   73 (85)
T d1b7fa2           6 DTNLYVTNLPRTITDDQLDTIFGKY-GSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIP   73 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHTSS-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhh-CCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEe
Confidence            4789999999999999999999995 99999999987  578999999999999999999987666543

>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=99.52  E-value=1.1e-14  Score=115.76  Aligned_cols=77  Identities=16%  Similarity=0.223  Sum_probs=65.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~~  429 (437)
                      ..++|||+|||.++|+++|+++|+++ |+|..|+++++ .+.++|||||+|.+.++|.+|+...+..+.... .|.|.++
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~-G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~~~~~~~~g~~l~v~~~~d   83 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDK-GQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETPGQKYKETDLLILFKDD   83 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTS-CCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHTCCCCEETTEECEEEEGGG
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHh-cccccceeeeeccCCcceEEEEEEcCHHHHHHHHHHCCCEECCEEEEEEEcCC
Confidence            35799999999999999999999995 99999999887 677999999999999999999987655544443 4666654

>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=99.52  E-value=4.1e-15  Score=118.71  Aligned_cols=69  Identities=19%  Similarity=0.162  Sum_probs=64.7

Q ss_pred             EEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          258 TVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       258 tLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      +|||+|||+++|+++|+++|++||.|.++++..+     |||||+|.+.++|.+|++ |+|..|.|+.|.|.+.+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~~   71 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   71 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc-----ceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEEe
Confidence            5999999999999999999999999999998654     799999999999999998 99999999999988764

>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=1.5e-14  Score=129.35  Aligned_cols=79  Identities=19%  Similarity=0.267  Sum_probs=72.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      ....++|||+|||+.+|+++|+++|+.||.|..+.+..+..+  ++|||||+|.+.++|.+|+++++..++|++|.|.++
T Consensus        94 ~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_          94 HLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGHNCEVRKA  173 (183)
T ss_dssp             TCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTSSCEEETTEEEEEEEC
T ss_pred             ccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHHhCCCeECCEEEEEEec
Confidence            445689999999999999999999999999999999988764  589999999999999999999999999999999986


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus       174 ~  174 (183)
T d1u1qa_         174 L  174 (183)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.51  E-value=1.3e-14  Score=118.57  Aligned_cols=73  Identities=23%  Similarity=0.489  Sum_probs=66.0

Q ss_pred             cCCcEEEEecCC-ccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDID-QQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp-~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+||| ..+++++|+++|++||.|.+|++.      +|||||+|.+.++|.+|++ |||..++|++|+|.++.
T Consensus        13 ~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~------rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          13 SMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH------KGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             SCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE------TEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe------CCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            345679999997 468889999999999999999983      5899999999999999999 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        87 ~   87 (98)
T d1wf2a_          87 E   87 (98)
T ss_dssp             S
T ss_pred             C
Confidence            3

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=1.8e-14  Score=113.60  Aligned_cols=70  Identities=17%  Similarity=0.123  Sum_probs=61.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      +.++|||+|||+.+|+++|+++|++| |.|.+|+|+++  ++.++|||||+|.+.++|.+|+...+...+...
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 PNCCLGVFGLSLYTTERDLREVFSKY-GPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGR   79 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTT-SCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCE
Confidence            45799999999999999999999995 99999999987  578999999999999999999987776655443

>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=99.50  E-value=9.5e-15  Score=118.58  Aligned_cols=75  Identities=20%  Similarity=0.258  Sum_probs=67.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...++|||+|||+++|+++|+++|++||.|..++.   ...++|||||+|.+.++|.+|++ |+|..++|++|.|.++.
T Consensus        14 ~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~~---~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~   89 (96)
T d1fjca_          14 RAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ---DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG   89 (96)
T ss_dssp             TGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEEE---TTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcccceeeee---cCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            45689999999999999999999999998876653   33468999999999999999998 99999999999999976

>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=99.50  E-value=9.5e-15  Score=119.97  Aligned_cols=79  Identities=20%  Similarity=0.198  Sum_probs=69.8

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      .....+|||+|||+++|+++|+++|..||. ..+.++.+..+ .+|||||+|.+.++|++|+++|+..|+||.|.|.++.
T Consensus        12 ~~~~~~v~v~nLp~~~te~dl~~~F~~~~~-~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s~   90 (102)
T d1weza_          12 STTGHCVHMRGLPYRATENDIYNFFSPLNP-MRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCC-SEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEEC
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHhccCc-ceeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            345679999999999999999999999985 56777776654 5999999999999999999999999999999999876


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        91 ~   91 (102)
T d1weza_          91 T   91 (102)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=2e-14  Score=114.16  Aligned_cols=67  Identities=19%  Similarity=0.272  Sum_probs=59.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      ..++|||+|||+++|+++|+++|++| |+|.++++++|  +|.++|||||+|.+.++|.+|+...+...+
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~-G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~   73 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQY-GRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKP   73 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEe
Confidence            34789999999999999999999996 99999999987  578999999999999999999876655444

>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=99.50  E-value=9.9e-15  Score=116.68  Aligned_cols=73  Identities=23%  Similarity=0.346  Sum_probs=66.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|++||.|.+|++..+   ++|||||+|.+.++|++|+. ++..++|++|.|.++.
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~~---~~gfafV~f~~~~~a~~a~~-~~~~i~g~~l~v~~a~   76 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP---FRAFAFVTFADDQIAQSLCG-EDLIIKGISVHISNAE   76 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS---CCSCCEEECSCHHHHHHTTT-CEEEETTEEEEEECCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEeec---cCceEEEEECCHHHHHHHHh-CCCEECCEEeEEEeCC
Confidence            5689999999999999999999999999999987644   46899999999999999987 7889999999999875

>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=99.50  E-value=1.3e-14  Score=113.98  Aligned_cols=75  Identities=16%  Similarity=0.283  Sum_probs=63.7

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+|||+++|+++|+++|++| |.|.+++++++  .|.++|||||+|.+.++|++|+...+.+.+...  .|+||.
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~-G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAI-GPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHh-CCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            3689999999999999999999995 99999999876  677999999999999999999987666555443  355553

>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=99.50  E-value=1.2e-14  Score=116.52  Aligned_cols=78  Identities=19%  Similarity=0.300  Sum_probs=66.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|+++++  ++.++|||||+|.+.++|.+|+...+.+.+...  .|.||
T Consensus         7 ~~~~i~V~nLp~~~t~~~l~~~f~~~-G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~a   85 (90)
T d2cq0a1           7 DNATIRVTNLSEDTRETDLQELFRPF-GSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   85 (90)
T ss_dssp             SSEEEEEESCCTTCCHHHHHTTSTTT-CCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHh-cccccccccccccccccccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEee
Confidence            45799999999999999999999995 99999999987  577999999999999999999988776544443  47777


Q ss_pred             hhh
Q 013726          428 EEF  430 (437)
Q Consensus       428 ~~~  430 (437)
                      ..-
T Consensus        86 kp~   88 (90)
T d2cq0a1          86 KPS   88 (90)
T ss_dssp             SCC
T ss_pred             eCC
Confidence            643

>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=99.50  E-value=1.4e-14  Score=112.65  Aligned_cols=65  Identities=14%  Similarity=0.252  Sum_probs=58.4

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +|||+|||+++|+++|+++|++| |.|..|+|+++  +++++|||||+|.+.++|++|+...+..+.+
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~-G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~~~i~g   67 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGF-GEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKYHNVGL   67 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHH-SCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSSCCBTT
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHh-CCcccccccccccccccccEEEEEECCHHHHHHHHhhCCCEECC
Confidence            59999999999999999999996 99999999988  5789999999999999999999876554433

>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=99.50  E-value=3e-15  Score=122.47  Aligned_cols=78  Identities=24%  Similarity=0.219  Sum_probs=71.1

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCC--CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPN--SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~--~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .++||||+|||.++|+++|+++|++||.|..+.+..+..  .++|||||+|.+.++|.+|++ |||..+.|++|.|.+++
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            468999999999999999999999999999888876543  368999999999999999998 99999999999999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        97 ~   97 (102)
T d2cpxa1          97 N   97 (102)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.50  E-value=3.8e-14  Score=112.37  Aligned_cols=68  Identities=15%  Similarity=0.225  Sum_probs=60.6

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .++|||+|||+++|+++|+++|++| |.|..++|++|  +|.++|||||+|.+.++|++|+...+..+.+.
T Consensus         6 ~~~lfV~nlp~~~te~~l~~~F~~~-G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~~~i~Gr   75 (84)
T d1l3ka1           6 LRKLFIGGLSFETTDESLRSHFEQW-GTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARPHKVDGR   75 (84)
T ss_dssp             GGEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCSCEETTE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhh-ccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCCCEECCE
Confidence            4799999999999999999999995 99999999987  57899999999999999999998766554443

>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=99.50  E-value=2.7e-14  Score=117.54  Aligned_cols=79  Identities=18%  Similarity=0.170  Sum_probs=69.4

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC--CceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS--VLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~--s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ....+|||+|||+++|+++|+++|..+|.+..+.++.+..+  ++|||||+|.++++|.+|+++++..|+|+.|.|.++.
T Consensus        13 ~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~i~V~~~~   92 (104)
T d1wg5a_          13 ANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRYIEIFKSS   92 (104)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSCCEEEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceEEEEEECC
Confidence            35568999999999999999999999999887666554433  5899999999999999999999999999999999876


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        93 ~   93 (104)
T d1wg5a_          93 R   93 (104)
T ss_dssp             T
T ss_pred             H
Confidence            4

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=3.8e-14  Score=111.11  Aligned_cols=72  Identities=21%  Similarity=0.375  Sum_probs=63.0

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      +|||+|||+.+|+++|+++|++| |+|.+++|+++  +|+++|||||+|.++++|.+|+...+++.++..  .|.||
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~-G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a   77 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPA-GPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS   77 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEEC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHh-CCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            69999999999999999999996 99999999987  577999999999999999999987777665553  35555

>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=99.49  E-value=2.2e-14  Score=118.04  Aligned_cols=76  Identities=16%  Similarity=0.195  Sum_probs=65.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~  428 (437)
                      ..++|||+|||+++|++||+++|++| |.|.+|+|+++  +|.++|||||+|.+.++|.+|+...+..+.+.+ .|.||.
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~~l~Gr~l~V~~a~   87 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGF-GDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNPIIDGRKANVNLAY   87 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTT-SCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSCEETTEECEEEEST
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhc-ccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCCcCCCEEEEEEEcC
Confidence            34789999999999999999999995 99999999988  577999999999999999999998887654443 355653

>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=99.49  E-value=2.6e-14  Score=111.86  Aligned_cols=72  Identities=25%  Similarity=0.325  Sum_probs=66.3

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ...+||||+||+  +|+++|+++|++||.|.+|++..+    +|||||+|.+.++|..|+. |||..++|++|+|.+++
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP----RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   75 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT----TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC----CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            356899999996  899999999999999999999754    4799999999999999998 99999999999999986

>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=99.49  E-value=6.4e-14  Score=111.13  Aligned_cols=72  Identities=25%  Similarity=0.383  Sum_probs=66.6

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .++|||+|||+++|+++|+++|++||.|..+.+..    ++|||||+|.+.++|.+|+. |+|..++|+.|.|.+++
T Consensus         8 ~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~----~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1           8 VKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK----IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE----CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc----ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            47899999999999999999999999998887744    35899999999999999999 99999999999999975

>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=99.49  E-value=2.9e-14  Score=114.06  Aligned_cols=76  Identities=17%  Similarity=0.266  Sum_probs=65.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+++|+.+.+.++|||||+|.+.++|++|+...++..++..  .|.||+
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a~   84 (89)
T d1cvja2           7 GVGNIFIKNLDKSIDNKALYDTFSAF-GNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK   84 (89)
T ss_dssp             TTTEEEEESCCSSCCHHHHHHHHHTT-SCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-CCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            45789999999999999999999995 99999999999888899999999999999999988776555443  355544

>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=99.49  E-value=4.5e-14  Score=113.96  Aligned_cols=76  Identities=16%  Similarity=0.219  Sum_probs=64.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .+++|||+|||.++|+++|+++|++| |+|.+|+++++  .+.++|||||+|.+.++|.+|+...+...+...  .|.|+
T Consensus         6 ~s~tlfV~nlp~~~te~~l~~~F~~~-G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a   84 (93)
T d1h2vz_           6 KSCTLYVGNLSFYTTEEQIYELFSKS-GDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD   84 (93)
T ss_dssp             TCCEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHH-CCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            45899999999999999999999996 99999999987  567999999999999999999986665444433  47776


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        85 ~   85 (93)
T d1h2vz_          85 A   85 (93)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.48  E-value=3.2e-14  Score=110.31  Aligned_cols=66  Identities=21%  Similarity=0.254  Sum_probs=58.8

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +|||+|||+++|+++|+++|++| |+|.+++++++  +++++|||||+|.+.++|++|+...+..+.+.
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~-G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~~~l~Gr   68 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKF-GEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKEHKLNGK   68 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCCCCBTTB
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhh-ccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCCCEECCC
Confidence            58999999999999999999995 99999999987  57799999999999999999998766554443

>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=99.48  E-value=4.1e-14  Score=110.97  Aligned_cols=74  Identities=16%  Similarity=0.287  Sum_probs=61.9

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ++|||+|||.++|+++|+++|++| |.|.+|+++++  .+.++|||||+|.+.++|++|+...+...++..  .|.||+
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~-G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSI-GEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHh-CCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            689999999999999999999995 99999999987  567999999999999999999876555444333  355553

>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=99.48  E-value=2.1e-14  Score=116.18  Aligned_cols=77  Identities=18%  Similarity=0.310  Sum_probs=63.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhc-Cc--eeccCchhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHT-EF--YILHNPSIA  425 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~-~~--~~~~~~~i~  425 (437)
                      .+++|||+|||+++++++|+++|++| |.|.+|+|+++   +|.++|||||+|.+.++|.+|+... +.  +.++...|.
T Consensus         7 ~~~~l~V~nLp~~~~e~~l~~~F~~~-G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1           7 TTSKILVRNIPFQANQREIRELFSTF-GELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             CCCCEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHh-CCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            45799999999999999999999995 99999999876   5679999999999999999998754 43  222333577


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      ||+.
T Consensus        86 ~A~~   89 (94)
T d2cpha1          86 WADS   89 (94)
T ss_dssp             ECCC
T ss_pred             EcCC
Confidence            7753

>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=99.48  E-value=4.1e-14  Score=110.45  Aligned_cols=66  Identities=20%  Similarity=0.181  Sum_probs=59.3

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +|||+|||+++|+++|+++|++| |.|.+++++.+ .++++|||||+|.+.++|++|+...+...++.
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~-G~v~~~~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~l~g   68 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEF-GTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDG   68 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHH-SCEEEEEESCSSCCCSCCEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             EEEEECCCCCCCHHHHHHHHHHh-CCCeEEEEEEeeccccceeEEEEECCHHHHHHHHHHhCCCEECC
Confidence            69999999999999999999996 99999999988 77899999999999999999998766554444

>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=99.48  E-value=3.3e-14  Score=115.20  Aligned_cols=76  Identities=17%  Similarity=0.200  Sum_probs=67.4

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCC-eeEEEEeeCCC---CCceEEEEEEcCHHHHHHHHH-hc--CeEeeeeeeEEec
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQ-VVDCRICGDPN---SVLRFAFIEFTDEEGARAALN-LA--GTMLGFYPVRVLP  329 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~-I~~vri~~d~~---~s~GfaFVeF~~~e~A~~Al~-ln--g~~l~Gr~L~V~~  329 (437)
                      +.|||+|||.++|+++|+++|++||+ |.++++..+..   .++|||||+|.+.++|..|++ |+  +..++|++|.|.+
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            57999999999999999999999996 89999987753   368999999999999999998 85  4556899999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        82 A~p   84 (96)
T d2disa1          82 AEP   84 (96)
T ss_dssp             SCS
T ss_pred             cCC
Confidence            863

>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=99.48  E-value=2.3e-14  Score=113.66  Aligned_cols=75  Identities=16%  Similarity=0.193  Sum_probs=65.7

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeE-EEEeeCCC-CCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVD-CRICGDPN-SVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~-vri~~d~~-~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      ...+|||+|||+++++++|+++|+.||.+.. +.+..+.. .++|||||+|.+.++|.+|++ ||+..++|++|+|..
T Consensus         8 ~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l   85 (86)
T d2cqpa1           8 GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   85 (86)
T ss_dssp             SSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3467999999999999999999999999866 45555443 359999999999999999998 999999999999975

>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=99.48  E-value=4.8e-14  Score=112.57  Aligned_cols=76  Identities=16%  Similarity=0.165  Sum_probs=63.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |+|.+|++++|  +|+++|||||+|.+.++|++|+...++..++..  .|.||
T Consensus         6 ~~~~l~V~nL~~~~t~~~l~~~F~~~-G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_           6 EGWILFVTSIHEEAQEDEIQEKFCDY-GEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             -CEEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHc-CCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            35799999999999999999999995 99999999987  578999999999999999999876555443333  36665


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        85 ~   85 (88)
T d1rk8a_          85 F   85 (88)
T ss_dssp             E
T ss_pred             c
Confidence            3

>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=99.48  E-value=1.8e-14  Score=115.83  Aligned_cols=77  Identities=23%  Similarity=0.427  Sum_probs=67.5

Q ss_pred             CCcEEEEecCCccchHHHHHH----HHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEec
Q 013726          255 IRRTVYVSDIDQQVTEEQLAA----LFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLP  329 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~----~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~  329 (437)
                      +.+||||+|||+.+|+++|++    +|++||.|.+|++..+ ..++|||||+|.+.++|.+|++ |+|..++|+.|.|.+
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~~-~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~   80 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRS-LKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY   80 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCHH-HHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEeee-ccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            358999999999999998865    5799999999988543 1257999999999999999998 999999999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        81 ak~   83 (91)
T d1nu4a_          81 AKT   83 (91)
T ss_dssp             CSS
T ss_pred             eCC
Confidence            863

>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=99.48  E-value=3.9e-14  Score=115.62  Aligned_cols=72  Identities=17%  Similarity=0.104  Sum_probs=66.9

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++++++|+++|++||.|.+|.+..     +|||||+|.+.++|.+|++ |||..+.|+.|.|.+.+
T Consensus        14 ~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          14 SDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-----DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             CSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-----TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc-----cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            457899999999999999999999999999999864     3899999999999999998 99999999999998865

>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=99.47  E-value=4.2e-14  Score=116.10  Aligned_cols=75  Identities=28%  Similarity=0.481  Sum_probs=63.4

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~~  428 (437)
                      .++|||+|||+++|+++|+++|++| |.|.+|+|+++  +|+++|||||+|.+.++|++|+...+..+.+.+ .|.+++
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~-G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g~~~~G~~l~V~~a~   95 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAV-GKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTGQRLLGVPIIVQASQ   95 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTT-SCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTTEEETTEEEEEEEHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCC-CeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCCCEECCEEEEEEECC
Confidence            4799999999999999999999994 99999999997  578999999999999999999986555554443 245444

>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=99.47  E-value=5.1e-14  Score=109.29  Aligned_cols=69  Identities=20%  Similarity=0.259  Sum_probs=61.9

Q ss_pred             EEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          259 VYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       259 LfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      |||+|||+++++++|+++|++|| +..+++.    .++|||||+|.+.++|.+|+. |||..++|++|.|.++++
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~----~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~~   70 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVD----KYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQPT   70 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEE----TTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECCS
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeec----ccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeCC
Confidence            79999999999999999999999 5555553    346899999999999999998 999999999999999863

>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=99.47  E-value=5.5e-14  Score=114.53  Aligned_cols=76  Identities=13%  Similarity=0.232  Sum_probs=64.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCch--hhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS--IAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~--i~~~  427 (437)
                      .+++|||+|||+++|+++|+++|++| |.|.+|++++|  ++.++|||||+|.+.++|++|+...+...++...  |.||
T Consensus         7 ~~~~lfV~nL~~~~t~~~l~~~F~~~-g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_           7 GSGRLFVRNLSYTSSEEDLEKLFSAY-GPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             SCEEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHhc-CCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            45789999999999999999999995 99999999987  5779999999999999999999876655554433  4454


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus        86 ~   86 (99)
T d1whwa_          86 T   86 (99)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.47  E-value=4.7e-14  Score=116.83  Aligned_cols=76  Identities=21%  Similarity=0.186  Sum_probs=68.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe--eeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML--GFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l--~Gr~L~V~~s~  331 (437)
                      ...+|||+|||+.+|+++|+++|++||.|.+|.+..++  ++|||||+|.+.++|.+|+. |+|..+  .|+.|.|.+++
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~--~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET--TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC--CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            44679999999999999999999999999999998765  47999999999999999999 999988  57889998876


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        84 ~   84 (108)
T d2adba1          84 L   84 (108)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.46  E-value=2.3e-14  Score=117.58  Aligned_cols=79  Identities=18%  Similarity=0.171  Sum_probs=68.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEE-EEeeCCC-CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDC-RICGDPN-SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~v-ri~~d~~-~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      +....+|||+|||+++|+++|+++|..||.|..+ .+..+.. .++|||||+|.+.++|.+|+++++..|+|+.|.|.++
T Consensus         5 ~~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~i~V~~~   84 (103)
T d2cpya1           5 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGREAFVHVV   84 (103)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEEEEEEEE
T ss_pred             CCCceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcEEEEEEC
Confidence            3456789999999999999999999999998764 4444433 3699999999999999999999999999999999886


Q ss_pred             C
Q 013726          331 K  331 (437)
Q Consensus       331 ~  331 (437)
                      .
T Consensus        85 ~   85 (103)
T d2cpya1          85 T   85 (103)
T ss_dssp             C
T ss_pred             C
Confidence            4

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.46  E-value=2e-14  Score=112.27  Aligned_cols=67  Identities=16%  Similarity=0.292  Sum_probs=59.4

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++|||+|||.++|+++|+++|++| |.|.+++|++|  +|+++|||||+|.+.++|++|+......+.+.
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~~~i~Gr   69 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQF-GEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSRHELDSK   69 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTT-SCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTTCCCSSC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHh-CCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCCCEECCe
Confidence            479999999999999999999995 99999999998  57799999999999999999998765555443

>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=99.46  E-value=7.4e-14  Score=108.33  Aligned_cols=68  Identities=21%  Similarity=0.326  Sum_probs=60.7

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ++|||+|||+++++++|+++|++ ||.|..++++.+.+..+|||||+|.+.++|++|+.....++..++
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~-~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~~~~~~i~g~~   68 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKH-CGPIIHVDVADSLKKNFRFARIEFARYDGALAAITKTHKVVGQNE   68 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGG-GSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHTTTTCEETTEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHhc-CCceEEEEEEeeccccceEEEEEEcchHHhHHHHHhcCcEECCEE
Confidence            58999999999999999999999 599999999999777789999999999999999987766655543

>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=99.46  E-value=9e-14  Score=112.09  Aligned_cols=78  Identities=12%  Similarity=0.181  Sum_probs=65.9

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ...++|||+|||+++|+++|+++|++| |+|.+|++..+.+.++|||||+|.+.++|.+|+...+...+...  .|.||.
T Consensus         9 ~~~~~l~v~nLp~~~t~~~L~~~F~~~-G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~   87 (93)
T d2cq3a1           9 STPKRLHVSNIPFRFRDPDLRQMFGQF-GKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   87 (93)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHGGGT-SCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhc-ceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            345799999999999999999999995 99999999999777899999999999999999876555444433  466665


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      +
T Consensus        88 ~   88 (93)
T d2cq3a1          88 A   88 (93)
T ss_dssp             S
T ss_pred             c
Confidence            4

>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=99.46  E-value=7.6e-14  Score=113.41  Aligned_cols=74  Identities=23%  Similarity=0.275  Sum_probs=67.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeee--eeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGF--YPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~G--r~L~V~~s~  331 (437)
                      +.++|||+|||+++|+++|+++|++||.|..|++.++    ++||||+|.+.++|.+|++ |++..+.|  ++|+|.+++
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~----~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc----ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            4689999999999999999999999999999999765    4799999999999999999 99999987  489999986


Q ss_pred             C
Q 013726          332 T  332 (437)
Q Consensus       332 ~  332 (437)
                      .
T Consensus        92 ~   92 (97)
T d1whya_          92 S   92 (97)
T ss_dssp             C
T ss_pred             C
Confidence            3

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

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

Probab=99.46  E-value=8.3e-14  Score=111.57  Aligned_cols=77  Identities=17%  Similarity=0.316  Sum_probs=65.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|+++++....+|||||+|.+.++|.+|+...+...++..  .|.||..
T Consensus         7 ~~~tl~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~~   85 (90)
T d2cqia1           7 QPRTLYVGNLSRDVTEVLILQLFSQI-GPCKSCKMITEHTSNDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWATT   85 (90)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHHH-SCEEEEEEECCCCSSCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHhc-CCceeeeeecccCccceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcCC
Confidence            35799999999999999999999996 99999999999776799999999999999999886665544433  4777653

>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=99.46  E-value=5.4e-14  Score=111.63  Aligned_cols=74  Identities=16%  Similarity=0.213  Sum_probs=64.0

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .+|||+|||.++|+++|+++|++| |+|.+|+|++|  +|.++|||||+|.+.++|.+|+...+.+.++..  .|.||.
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~-G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSF-GPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSS-SCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhc-CccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            479999999999999999999995 99999999987  578999999999999999999987766555443  456664

>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=99.46  E-value=3.1e-14  Score=111.80  Aligned_cols=71  Identities=23%  Similarity=0.300  Sum_probs=64.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCe-EeeeeeeEEeccC
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGT-MLGFYPVRVLPSK  331 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~-~l~Gr~L~V~~s~  331 (437)
                      .+|||+|||+++|+++|+++|++||.|.++++...    +|||||+|.+.++|.+|++ |||. .++|++|.|.++.
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~----rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~   74 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLLK----SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   74 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEEE----TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEecc----cceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcC
Confidence            36999999999999999999999999987777654    4799999999999999999 9985 6999999999986

>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=99.46  E-value=2.8e-14  Score=114.14  Aligned_cols=77  Identities=14%  Similarity=0.254  Sum_probs=64.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce-eccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY-ILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~-~~~~~-~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |+|.+|++++|  +|.++|||||+|.+.++|.+|+...+.. +.+.+ .|.||
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPF-GDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTT-SCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhC-CeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            34799999999999999999999995 99999999987  5789999999999999999998765544 33333 46666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      +.
T Consensus        83 ~p   84 (89)
T d2cqba1          83 KP   84 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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=99.45  E-value=1.4e-13  Score=109.64  Aligned_cols=76  Identities=24%  Similarity=0.282  Sum_probs=68.7

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h--cCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L--AGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l--ng~~l~Gr~L~V~~  329 (437)
                      ..++++|||+|||+++|+++|+++|++||.|.++++..++    |||||+|.+.++|.+|++ +  ++..+.|++|.|.+
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~~----~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~   80 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKGK----NQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQY   80 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETTT----TEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcccccccccccccc----eEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEE
Confidence            3467899999999999999999999999999999998654    699999999999999987 4  67899999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        81 sk~   83 (88)
T d2cq1a1          81 SNH   83 (88)
T ss_dssp             CSC
T ss_pred             CCC
Confidence            863

>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=99.45  E-value=5.3e-14  Score=115.95  Aligned_cols=74  Identities=14%  Similarity=0.204  Sum_probs=62.7

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      .++|||+|||+++|+++|+++|++| |.|..+.|++|  .+.++|||||+|.+.++|++|+...+..+.+.+ .+.||
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~-G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~~~l~G~~i~V~~a   96 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQW-GKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARPHSIDGRVVEPKRA   96 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSS-CCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCSEEETTEEEEEECC
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhh-CcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCCCeECCEEEEEEEC
Confidence            4799999999999999999999995 99999999988  457999999999999999999987666554433 24444

>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=99.45  E-value=8.2e-14  Score=111.34  Aligned_cols=73  Identities=16%  Similarity=0.160  Sum_probs=63.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccCC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSKT  332 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~~  332 (437)
                      .+++|||+|||+++++++|+++|++|| +..+.+..    .+|||||+|.+.++|.+|++ ||+..++|++|.|.+++.
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~----~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~~   77 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDR----NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPT   77 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEG----GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeec----cCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            457899999999999999999999999 33344422    36899999999999999999 999999999999999853

>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=99.45  E-value=9.3e-14  Score=112.09  Aligned_cols=76  Identities=18%  Similarity=0.210  Sum_probs=64.9

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC--chhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN--PSIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~--~~i~~~~  428 (437)
                      .++|||+|||.++|+++|+++|++| |.|.+++++++  +|.++|||||+|.+.++|.+|+...+.+.++.  ..|.||.
T Consensus         9 ~~tlfV~nLp~~~t~~~l~~~F~~~-G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~   87 (93)
T d1x5ua1           9 DATVYVGGLDEKVSEPLLWELFLQA-GPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   87 (93)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHHTT-SCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHHh-CCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            3799999999999999999999995 99999999987  57899999999999999999997666554333  2577776


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      .
T Consensus        88 ~   88 (93)
T d1x5ua1          88 A   88 (93)
T ss_dssp             T
T ss_pred             C
Confidence            5

>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=99.44  E-value=2.9e-13  Score=111.30  Aligned_cols=76  Identities=16%  Similarity=0.136  Sum_probs=68.4

Q ss_pred             ccCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h--cCeEeeeeeeEEec
Q 013726          253 EIIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L--AGTMLGFYPVRVLP  329 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l--ng~~l~Gr~L~V~~  329 (437)
                      ...+++|||+|||+++|+++|+++|++||.|..+++.++    +|+|||+|.+.++|.+|+. |  ++..++|++|+|.+
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~----k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~   87 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNY   87 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec----ceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEE
Confidence            346789999999999999999999999999999999765    4799999999999999998 6  56778999999999


Q ss_pred             cCC
Q 013726          330 SKT  332 (437)
Q Consensus       330 s~~  332 (437)
                      ++.
T Consensus        88 s~~   90 (104)
T d1wexa_          88 STS   90 (104)
T ss_dssp             CSS
T ss_pred             cCC
Confidence            864

>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=99.43  E-value=2.1e-13  Score=106.23  Aligned_cols=68  Identities=16%  Similarity=0.305  Sum_probs=59.3

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      .++|||+|||+++|+++|+++|++| |.|..+.++.+  .+.++|||||+|.+.++|.+|+......+.+.
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~-G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~~~l~Gr   71 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQY-GKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKYHTVNGH   71 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTT-SCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSCCEETTE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHh-ccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCCCEECCE
Confidence            3799999999999999999999995 99999999987  56799999999999999999987655544443

>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=99.42  E-value=1.4e-13  Score=110.06  Aligned_cols=76  Identities=9%  Similarity=0.194  Sum_probs=63.0

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+|||+++|+++|+++|++| |.|..+.+..+  .+.++|||||+|.+.++|++|+...+.+.++..  .|.||.
T Consensus         5 ~~kifV~nLp~~~t~~~l~~~F~~~-G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a~   83 (90)
T d1x5sa1           5 EGKLFVGGLSFDTNEQSLEQVFSKY-GQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   83 (90)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHHH-SCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhcc-ccccceeeccccccccccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            4789999999999999999999996 99999998876  677999999999999999999876554433333  366665


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      +
T Consensus        84 ~   84 (90)
T d1x5sa1          84 K   84 (90)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.42  E-value=3.6e-14  Score=118.47  Aligned_cols=77  Identities=22%  Similarity=0.290  Sum_probs=66.8

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEee-CCC-CCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICG-DPN-SVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~-d~~-~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s~  331 (437)
                      ..++|||+|||+++|+++|+++|+.||.+..+.++. +.. .++|||||+|.+.++|.+|++|||..|+|+.|.|.++.
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR~i~V~~~~   95 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNRFIQVHPIT   95 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTSCBEEEEEC
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCEEEEEEEcC
Confidence            567999999999999999999999999987654433 333 35999999999999999999999999999999998763

>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=99.42  E-value=1e-13  Score=108.56  Aligned_cols=68  Identities=15%  Similarity=0.160  Sum_probs=55.8

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      +||||+|||+++|+++|+++|++| |.|..+.+..+  .|.++|||||+|.+.++|++|+...+...++..
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~-G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~   71 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDI-NVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGY   71 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHT-TCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTTCEETTE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHh-CcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCCCEECCE
Confidence            699999999999999999999995 99998887765  677999999999999999999987666555544

>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=99.42  E-value=1.2e-13  Score=113.40  Aligned_cols=75  Identities=19%  Similarity=0.227  Sum_probs=62.6

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+|||.++|+++|+++|++| |+|.+|+++++  +|.++|||||+|.+.++|.+|+...+...++..  .|.||.
T Consensus         8 ~rtl~V~nLp~~~te~~l~~~f~~~-G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~   86 (104)
T d1p1ta_           8 LRSVFVGNIPYEATEEQLKDIFSEV-GPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             HSCEEEESCCTTSCHHHHHHHHHTT-SCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             CCEEEEECCCCcCCHHHHHHhhhcc-ccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            4689999999999999999999995 99999999886  577999999999999999999877554333332  466654

>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=99.41  E-value=2e-13  Score=111.93  Aligned_cols=77  Identities=10%  Similarity=0.185  Sum_probs=64.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .+++|||+|||+++|+++|+++|++| |.|.++.++.+  +|.++|||||+|.+.++|.+|+...+.+.++..  .|.||
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a   95 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPF-GNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK   95 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGG-SCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhh-ccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            34789999999999999999999996 99999999876  678999999999999999999876555444333  47776


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ..
T Consensus        96 ~~   97 (102)
T d2cpza1          96 RS   97 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.41  E-value=1.7e-13  Score=108.24  Aligned_cols=72  Identities=15%  Similarity=0.188  Sum_probs=60.0

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CC---CcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YH---HSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g---~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      |||+|||.++|+++|+++|++| |+|.+++|+++  .+   .++|||||+|.+.++|.+|+...+...++..  .++||+
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~-G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKV-GAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTT-SCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHh-CCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            7999999999999999999995 99999999987  22   3789999999999999999977665544443  466664

>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=99.41  E-value=9.1e-14  Score=110.46  Aligned_cols=74  Identities=16%  Similarity=0.232  Sum_probs=58.1

Q ss_pred             ccEEEEEcCCccCC-HHHHHHHhhhcCCceEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhh
Q 013726          353 ARTIYCTNIDKKVT-QADVKLFFESVCGEVYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAW  426 (437)
Q Consensus       353 ~~tL~V~NLp~~vt-eedLrelF~~f~G~I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~  426 (437)
                      .++|||+|||+++| +++|+++|++| |.|.+|+|+.+   .+.++|||||+|.+.++|.+|+.. +...++..  .|.|
T Consensus         4 ~~~l~V~nLp~~~t~ed~l~~~F~~~-G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~-n~~~~~gr~l~V~~   81 (86)
T d2ghpa3           4 GREIMIRNLSTELLDENLLRESFEGF-GSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQM-NRSLLGNREISVSL   81 (86)
T ss_dssp             TTEEEEEEECTTTCCHHHHHHHHGGG-SCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGG-TTEEETTEEEEEEE
T ss_pred             CCEEEEECCCCCcccHHHHHHHHHhh-hhccceeeecccCCccccceeeeEEECCHHHHHHHHhc-CCCEECCEEEEEEE
Confidence            47999999999986 55699999995 99999999765   567999999999999999999974 44443332  3555


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      |+
T Consensus        82 a~   83 (86)
T d2ghpa3          82 AD   83 (86)
T ss_dssp             CC
T ss_pred             cC
Confidence            43

>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=99.41  E-value=4.2e-13  Score=115.69  Aligned_cols=76  Identities=18%  Similarity=0.314  Sum_probs=64.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCce-eccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFY-ILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~-~~~~~-~i~~~  427 (437)
                      ..++|||+|||.++|+++|+++|++| |.|.+|+|+++  ++.++|||||+|.+.++|.+|+...+.. +.+.+ .|.||
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~-G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERY-GPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHH-SCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhh-ccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            45789999999999999999999996 99999999987  5679999999999999999999865543 33333 46666


Q ss_pred             h
Q 013726          428 E  428 (437)
Q Consensus       428 ~  428 (437)
                      .
T Consensus       120 ~  120 (139)
T d1u6fa1         120 A  120 (139)
T ss_dssp             S
T ss_pred             C
Confidence            4

>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=99.41  E-value=2.2e-13  Score=109.11  Aligned_cols=76  Identities=29%  Similarity=0.276  Sum_probs=68.4

Q ss_pred             ccCCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-h--cCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-L--AGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-l--ng~~l~Gr~L~V~  328 (437)
                      ...+++|||+|||.. +|++||.++|++||.|.+|++..++    ++|||+|.+.++|..|++ +  ++..++|++|.|.
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k----~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~   80 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI----NEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVH   80 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS----SCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc----eEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEE
Confidence            346789999999986 8999999999999999999998765    599999999999999997 5  6888999999999


Q ss_pred             ccCC
Q 013726          329 PSKT  332 (437)
Q Consensus       329 ~s~~  332 (437)
                      +++.
T Consensus        81 ~s~~   84 (89)
T d1x4da1          81 LSQK   84 (89)
T ss_dssp             EECC
T ss_pred             ECCC
Confidence            9863

>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=99.40  E-value=1.2e-13  Score=106.26  Aligned_cols=65  Identities=23%  Similarity=0.242  Sum_probs=56.6

Q ss_pred             EEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          355 TIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       355 tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      +|||+|||+++|+++|+++|++| |.|..+.+..+  .+.++|||||+|.+.++|++|+...+..+..
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~-G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~~~l~g   67 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQF-GKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHFHEINN   67 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTT-SCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSSCCBTT
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHh-CCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCCCEECC
Confidence            58999999999999999999995 99999998876  5679999999999999999999855444433

>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=99.39  E-value=5e-13  Score=109.26  Aligned_cols=78  Identities=17%  Similarity=0.255  Sum_probs=64.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC-c-hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN-P-SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~-~-~i~~~~  428 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..+++..+ .+.++|||||+|.+.++|++|+...++..+.. | .+.|++
T Consensus        17 ~~~~lfV~nLp~~~te~~L~~~F~~~-G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          17 DPTNLYISNLPLSMDEQELENMLKPF-GQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHTTTTT-SCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhc-ccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            34799999999999999999999995 99999998887 66799999999999999999987655544433 3 345555


Q ss_pred             hh
Q 013726          429 EF  430 (437)
Q Consensus       429 ~~  430 (437)
                      .+
T Consensus        96 Pl   97 (101)
T d1x5oa1          96 PL   97 (101)
T ss_dssp             CB
T ss_pred             Cc
Confidence            43

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=2.2e-13  Score=111.26  Aligned_cols=75  Identities=19%  Similarity=0.191  Sum_probs=67.7

Q ss_pred             ccCCcEEEEecCCcc-chHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH---hcCeEeeeeeeEEe
Q 013726          253 EIIRRTVYVSDIDQQ-VTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN---LAGTMLGFYPVRVL  328 (437)
Q Consensus       253 ~~~~rtLfVgNLp~~-~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~---lng~~l~Gr~L~V~  328 (437)
                      ....++|||+|||.+ +|+++|.++|++||.|.++++..++    |||||+|.+.++|.+|++   +++..++|+.|.|.
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~k----~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~   90 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRMK----SQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   90 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETTT----TEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeecC----CcEEEEecchHHHHHHHHHHhcCCceECCEEEEEE
Confidence            456789999999985 8999999999999999999998654    799999999999999986   68889999999999


Q ss_pred             ccC
Q 013726          329 PSK  331 (437)
Q Consensus       329 ~s~  331 (437)
                      +++
T Consensus        91 ~s~   93 (99)
T d1x4fa1          91 LSE   93 (99)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            985

>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=99.39  E-value=6.2e-15  Score=118.15  Aligned_cols=75  Identities=21%  Similarity=0.334  Sum_probs=65.4

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCC-------CCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEec
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDP-------NSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLP  329 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~-------~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~  329 (437)
                      |+|||+|||+++|+++|+++|++||.+..+.+....       ..++|||||+|.+.++|.+|++|||..+.|+.|+|..
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~r   81 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIRR   81 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCBC
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEECC
Confidence            789999999999999999999999988766654221       2368999999999999999999999999999999986


Q ss_pred             cC
Q 013726          330 SK  331 (437)
Q Consensus       330 s~  331 (437)
                      .+
T Consensus        82 ~k   83 (90)
T d1u2fa_          82 PH   83 (90)
T ss_dssp             TT
T ss_pred             CC
Confidence            54

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.39  E-value=4.1e-13  Score=111.74  Aligned_cols=74  Identities=16%  Similarity=0.283  Sum_probs=61.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      .+++|||+|||.++|+++|+++|++| |.|.+|++..+ +.++|||||+|.+.++|.+|+...++..+...  .|.|+
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~-G~v~~i~~~~~-~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   81 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKY-GPIRQIRVGNT-PETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYY   81 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTT-SCEEEEEEECS-TTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhc-CCeEeeccccc-CCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            35799999999999999999999995 99999999764 56789999999999999999876665444433  35554

>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=99.37  E-value=3.4e-13  Score=106.29  Aligned_cols=74  Identities=19%  Similarity=0.331  Sum_probs=61.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec---cCchhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL---HNPSIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~---~~~~i~~~~  428 (437)
                      ++++|||+|||.++|+++|+++|++| |.|.+|++.++   .+|||||+|.+.++|.+|+...+++.+   +...|.||+
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~-G~i~~v~~~~~---~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQF-PGFKEVRLVPN---RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTS-TTEEEEEECTT---TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccC-ccEEEeeeecc---cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            45899999999999999999999995 99999999875   367999999999999999887766433   223677775


Q ss_pred             h
Q 013726          429 E  429 (437)
Q Consensus       429 ~  429 (437)
                      +
T Consensus        83 k   83 (83)
T d2b0ga1          83 K   83 (83)
T ss_dssp             C
T ss_pred             C
Confidence            3

>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=99.37  E-value=3.5e-13  Score=106.00  Aligned_cols=73  Identities=19%  Similarity=0.281  Sum_probs=60.0

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEE-EEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRL-RLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v-~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      |||+|||+++|+++|+++|++| |.|.++ +++++  +|+++|||||+|.+.++|++|+...+...++..  .|.||.+
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~-G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a~~   78 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAF-GVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYAFK   78 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTT-SCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEESCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHh-CceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEecC
Confidence            7999999999999999999995 999765 77776  577999999999999999999976665444443  4666654

>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=99.36  E-value=4.2e-13  Score=108.57  Aligned_cols=75  Identities=17%  Similarity=0.188  Sum_probs=62.6

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCc-eEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhcC--c-ee-ccCchhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGE-VYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHTE--F-YI-LHNPSIA  425 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~-I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~~--~-~~-~~~~~i~  425 (437)
                      ++|||+|||.++|+++|+++|++| |+ |..++++++   .++++|||||+|.+.++|.+|+...+  . .+ .+...|.
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~-g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~   80 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKV-TEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVD   80 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHH-STTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHh-CCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEE
Confidence            589999999999999999999996 95 999999887   36799999999999999999886543  2 22 3445688


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      ||..
T Consensus        81 ~A~p   84 (96)
T d2disa1          81 WAEP   84 (96)
T ss_dssp             ESCS
T ss_pred             EcCC
Confidence            9865

>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=99.36  E-value=3.1e-13  Score=103.41  Aligned_cols=63  Identities=14%  Similarity=0.203  Sum_probs=56.1

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      |||+|||.++|+++|+++|++| |.|..+++.++  .+.++|||||+|.+.++|++|+...++..+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~-G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~~   65 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPY-GKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKASGV   65 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTT-SCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHHHTC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhh-ccccccccccccccccccceeEEEECCHHHHHHHHHHhCCCEE
Confidence            7999999999999999999995 99999999887  567999999999999999999876654433

>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=99.36  E-value=5.2e-14  Score=113.28  Aligned_cols=75  Identities=11%  Similarity=0.144  Sum_probs=61.9

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      ...+|||+|||+++|+++|+++|++| |.|.++++..+ +|+++|||||+|.+.++|++|+...+..+.+.+ .|.||
T Consensus        12 ~~~~ifV~nL~~~~te~~l~~~F~~~-G~i~~~~v~~~~~g~~kg~afv~F~~~e~a~~Al~~~g~~~~g~~i~V~~a   88 (91)
T d1fjeb1          12 TPFNLFIGNLNPNKSVAELKVAISEL-FAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKALELTGLKVFGNEIKLEKP   88 (91)
T ss_dssp             SSEEEEEECCCTTSCHHHHHHHHHHH-HHHHTCCCCEEEEETTTTEEEEEESSHHHHHHHHHGGGEEETTEEEEEECC
T ss_pred             CCcEEEEeCccCcchHHHHHHHHhcC-CcEEEeeeeecCCCCccEEeEEeeCCHHHHHHHHhcCCcEECCEEEEEEec
Confidence            45799999999999999999999996 99999988766 788999999999999999999975544444433 35544

>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=99.35  E-value=5.5e-13  Score=109.27  Aligned_cols=76  Identities=16%  Similarity=0.198  Sum_probs=61.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc---CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD---YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd---~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      +..+|||+|||+++|+++|+++|++| | |..++++.+   .+.++|||||+|.+.++|++++......+.+.. .|.||
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~-g-~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~~~~~gr~l~V~~a   91 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGL-N-ISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTS-C-EEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGTCEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHh-c-cccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            45899999999999999999999995 8 778877765   456899999999999999988876555554443 46666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      ++
T Consensus        92 ~~   93 (104)
T d1wi8a_          92 DQ   93 (104)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>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=99.34  E-value=1.1e-12  Score=105.80  Aligned_cols=62  Identities=16%  Similarity=0.301  Sum_probs=56.2

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcC
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTE  415 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~  415 (437)
                      .++|||+|||+++|+++|+++|++| |.|.++.+..+  .+.++|||||+|.+.++|.+|+...+
T Consensus         8 ~~tlfV~nLp~~~te~~l~~~f~~~-G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~   71 (98)
T d1x4ha1           8 GKTVFIRNLSFDSEEEALGEVLQQF-GDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAAS   71 (98)
T ss_dssp             CCCEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHC
T ss_pred             CCEEEEcCCCCcCCHHHHHHHHhcc-ccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcc
Confidence            4799999999999999999999995 99999999887  55699999999999999999987654

>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=99.32  E-value=2.1e-13  Score=108.79  Aligned_cols=74  Identities=16%  Similarity=0.170  Sum_probs=59.7

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCchhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPSIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i~~~~~  429 (437)
                      .+++|||+|||.++|+++|+++|++| |.|.+|++..   .++|||||+|.+.++|++|+...+.+..+...+.||.+
T Consensus         4 ~s~~lfV~nLp~~~te~~L~~~F~~~-G~v~~v~~~~---~~~gfafV~f~~~~~a~~a~~~~~~i~g~~l~v~~a~~   77 (88)
T d1wf0a_           4 GSSGVFVGRCTGDMTEDELREFFSQY-GDVMDVFIPK---PFRAFAFVTFADDQIAQSLCGEDLIIKGISVHISNAEP   77 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTT-SCCCEEECCS---SCCSCCEEECSCHHHHHHTTTCEEEETTEEEEEECCCC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHc-CCceEEEEee---ccCceEEEEECCHHHHHHHHhCCCEECCEEeEEEeCCC
Confidence            46899999999999999999999995 9999998764   36789999999999999998754433333334666643

>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=99.31  E-value=1.7e-12  Score=105.27  Aligned_cols=73  Identities=18%  Similarity=0.360  Sum_probs=62.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||..+++++|+++|++| |.|.+|+++++    +|||||+|.+.++|.+|+...+...+...  .|.|+++
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~f-G~i~~v~i~~~----kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak~   91 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSPF-GQIMEIRVFPE----KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKE   91 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHH-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHh-CCceEEEEEec----ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            34789999999999999999999996 99999999976    56999999999999999877666555444  4777754

>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=99.30  E-value=8.6e-13  Score=108.00  Aligned_cols=74  Identities=15%  Similarity=0.125  Sum_probs=59.8

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~~~  427 (437)
                      ...+|||+|||+++|++||+++|+.+ | +..+.++++ .+..+|||||+|.+.++|++|+...+..+.+.. .|.|+
T Consensus        14 ~~~~v~v~nLp~~~te~dl~~~F~~~-~-~~~v~~~~~~~g~~~G~afVeF~~~~~a~~Al~~~~~~i~gR~I~V~~s   89 (102)
T d1weza_          14 TGHCVHMRGLPYRATENDIYNFFSPL-N-PMRVHIEIGPDGRVTGEADVEFATHEDAVAAMAKDKANMQHRYVELFLN   89 (102)
T ss_dssp             SSCEEEEESCCTTCCHHHHHHSSCSC-C-CSEEEEEESSSSCEEEEEEEECSSSHHHHHHHTTSSCCSSSSCCEEEEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHhcc-C-cceeeeEEecCCcceEEEEEEECCHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            45799999999999999999999984 7 456777766 778999999999999999999986555555543 24443

>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=99.30  E-value=2.7e-12  Score=105.75  Aligned_cols=75  Identities=13%  Similarity=0.068  Sum_probs=66.5

Q ss_pred             CCcEEEEecCCccch-----HHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEe
Q 013726          255 IRRTVYVSDIDQQVT-----EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVL  328 (437)
Q Consensus       255 ~~rtLfVgNLp~~~t-----ee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~  328 (437)
                      ...+|||+||+.++.     .++|+++|+.||.|.++++.+.    +|||||+|.+.++|.+|++ |||..++|++|+|.
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~   79 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS----FKRVRINFSNPLSAADARLRLHKTEFLGKEMKLY   79 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT----TTEEEEECSSTTHHHHHHHTSTTSEETTEECEEE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecC----CCEEEEEECCHHHHHHHHHHhcccccCCCEeEEe
Confidence            457899999999863     3569999999999999999754    5799999999999999999 99999999999999


Q ss_pred             ccCCC
Q 013726          329 PSKTA  333 (437)
Q Consensus       329 ~s~~~  333 (437)
                      +++..
T Consensus        80 ~a~~~   84 (104)
T d1weya_          80 FAQTL   84 (104)
T ss_dssp             CCCCS
T ss_pred             ecccC
Confidence            98643

>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=99.30  E-value=1.1e-12  Score=104.89  Aligned_cols=71  Identities=7%  Similarity=0.257  Sum_probs=60.1

Q ss_pred             ccEEEEEcCCccCCHHHH---HHHhhhcCCceEEEEEeccC--C---CcceEEEEEeCCHHHHHHHHhhcCceeccCchh
Q 013726          353 ARTIYCTNIDKKVTQADV---KLFFESVCGEVYRLRLLGDY--H---HSTRIAFVEFVMVIASSTLFIHTEFYILHNPSI  424 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedL---relF~~f~G~I~~v~i~kd~--g---~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~i  424 (437)
                      .++|||+|||++++++||   +++|++| |.|.+|.++++.  +   ..+|||||+|.+.++|.+|+...++..++...|
T Consensus         8 ~n~vyV~nLp~~~t~~~l~~~~e~F~~~-G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~l   86 (89)
T d2cpia1           8 KNLVFVVGLSQRLADPEVLKRPEYFGKF-GKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNNVVVDGRTL   86 (89)
T ss_dssp             SSCEEEEEECTTTCCHHHHHSTTTTTTT-SCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTTEEETTEEE
T ss_pred             cCEEEEECCCCccCHHHHHHHHHHhccc-CCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCCCEECCEEE
Confidence            478999999999999999   6789995 999999999872  2   256999999999999999998877766655443

>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=99.29  E-value=3.9e-12  Score=104.30  Aligned_cols=70  Identities=17%  Similarity=0.078  Sum_probs=58.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ...+|||+|||+++|++||+++|+++ |.|..+.++.+  .+.++|||||+|.+.++|++|+.....++.+..
T Consensus        14 ~~~~v~v~nLP~~~te~dI~~~F~~~-g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~~~i~gR~   85 (104)
T d1wg5a_          14 NDGFVRLRGLPFGCSKEEIVQFFSGL-EIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHKERIGHRY   85 (104)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHTTTC-CEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTTCCSSSSC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhc-CCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCCCEEcceE
Confidence            34689999999999999999999995 99888655554  667999999999999999999986555555443

>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=99.29  E-value=1.9e-12  Score=102.33  Aligned_cols=70  Identities=16%  Similarity=0.055  Sum_probs=58.3

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEE-EEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCch
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYR-LRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS  423 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~-v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~  423 (437)
                      .++|||+|||++++++||+++|+.+ |.|.. +.+..+ .+.++|+|||+|.+.++|++|+...+...++...
T Consensus         9 ~~~l~v~nLp~~~~~~di~~~F~~~-~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~   80 (86)
T d2cqpa1           9 PTIIKVQNMPFTVSIDEILDFFYGY-QVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRK   80 (86)
T ss_dssp             SEEEEEESCCTTCCHHHHHHHTTTS-CCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhhc-ccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCCCEECCEE
Confidence            4689999999999999999999995 98866 455554 7789999999999999999999876665555443

>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=99.28  E-value=3.4e-12  Score=105.05  Aligned_cols=72  Identities=19%  Similarity=0.265  Sum_probs=59.5

Q ss_pred             ccEEEEEcCCc-cCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDK-KVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~-~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      +++|||+|||+ .+|+++|+++|++| |.|.+|+|.++.   +|||||+|.+.++|.+|+...+...++..  .|.|++
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~f-G~I~~v~i~~~~---kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVY-GDVQRVKILFNK---KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHH-TCEEEEEECCTT---SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhc-cccceEEEEecc---cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            47999999965 59999999999996 999999998863   68999999999999999987766544433  466653

>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=99.28  E-value=2.7e-12  Score=101.99  Aligned_cols=62  Identities=15%  Similarity=0.143  Sum_probs=53.9

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ++|||+|||+++|+++|+++|++| |.|.++++.+|     |||||+|.+.++|++|+...+...++.
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~-G~v~~~~i~~~-----g~afV~f~~~~~a~~Ai~~l~g~~~~g   62 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREA-GDVCYADVYRD-----GTGVVEFVRKEDMTYAVRKLDNTKFRS   62 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGG-SCEEEEEECTT-----SEEEEEESSHHHHHHHHHHHTTCBCCC
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhh-ccccccccccc-----ceeeEEeCCHHHHHHHHHHhCCCEECC
Confidence            379999999999999999999995 99999998764     799999999999999987656554443

>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=99.27  E-value=8.5e-13  Score=107.56  Aligned_cols=77  Identities=17%  Similarity=0.138  Sum_probs=64.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ++++|||+|||.++|+++|+++|++| |.|..+.+..+  .|+++|||||+|.+.++|.+|+...+.+.++..  .|.||
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~-G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   95 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARF-QEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG   95 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHH-HHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhc-cceeeEEeecccccccccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            45899999999999999999999996 99999988776  678999999999999999999987665544433  46666


Q ss_pred             hh
Q 013726          428 EE  429 (437)
Q Consensus       428 ~~  429 (437)
                      .+
T Consensus        96 k~   97 (102)
T d2cpxa1          96 KN   97 (102)
T ss_dssp             CC
T ss_pred             CC
Confidence            53

>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=99.27  E-value=5e-12  Score=101.96  Aligned_cols=75  Identities=17%  Similarity=0.235  Sum_probs=61.8

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      .++|||+|||+++|+++|+++|++| |.|..+.+..+ +.++|||||+|.+.++|++|+...+.+.+...  .|+||..
T Consensus        14 ~~~l~V~nLp~~~t~~~l~~~F~~~-G~v~~~~~~~~-~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~~   90 (95)
T d1x4aa1          14 DCRIYVGNLPPDIRTKDIEDVFYKY-GAIRDIDLKNR-RGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS   90 (95)
T ss_dssp             SSEEEEESCCTTCCHHHHHHHHGGG-SCEEEEEECCS-SSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHhcC-CceEEEEeccc-ccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEeccC
Confidence            4689999999999999999999996 99999997654 45789999999999999999876555444333  4777754

>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=99.26  E-value=3.5e-12  Score=103.52  Aligned_cols=76  Identities=16%  Similarity=0.149  Sum_probs=60.5

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceE--------EEEEecc--CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVY--------RLRLLGD--YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~--------~v~i~kd--~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ..++|||+|||..+|+++|+++|++| |.|.        .+.+.++  .++++|||||+|.+.++|.+|+...+.+.+..
T Consensus         7 ~~~~i~V~nLp~~~te~~l~~~F~~~-G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g   85 (101)
T d2cpea1           7 DNSAIYVQGLNDSVTLDDLADFFKQC-GVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDGKDFQG   85 (101)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHTTT-SCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTTCEETT
T ss_pred             CCCEEEEECCCCcCCHHHHHHHHHHC-ceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCCCEECC
Confidence            45799999999999999999999995 9885        4455555  56799999999999999999988765554444


Q ss_pred             c--hhhhhh
Q 013726          422 P--SIAWLE  428 (437)
Q Consensus       422 ~--~i~~~~  428 (437)
                      .  .|.||.
T Consensus        86 r~i~V~~a~   94 (101)
T d2cpea1          86 SKLKVSLAR   94 (101)
T ss_dssp             EECEEECSS
T ss_pred             EEEEEEEcC
Confidence            3  466654

>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=99.25  E-value=5.6e-12  Score=103.94  Aligned_cols=73  Identities=21%  Similarity=0.327  Sum_probs=60.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||+++++++|+++|++| |+|..|.|.+    ++|||||+|.+.++|.+|+...++..++..  .|.||..
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~f-G~I~~v~l~~----~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~   83 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRF-GSLGRVLLPE----GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTT-SCEEEEECCS----SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEET
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhcc-CCccEEEeec----cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCC
Confidence            45799999999999999999999995 9999998854    467999999999999999877665544444  3566643

>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=99.24  E-value=3.5e-12  Score=105.31  Aligned_cols=65  Identities=12%  Similarity=0.110  Sum_probs=57.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      +..+|||+|||+++|+++|+++|++| |.|.+|.+..+.  .+|||||+|.+.++|.+|+...+...+
T Consensus         6 ~~~~v~V~NL~~~vte~~L~~~F~~~-G~i~~~~i~~~~--~~g~aFV~f~~~e~A~~Ai~~ln~~~l   70 (108)
T d2adba1           6 PVLRIIVENLFYPVTLDVLHQIFSKF-GTVLKIITFTKN--NQFQALLQYADPVSAQHAKLSLDGQNI   70 (108)
T ss_dssp             CEEEEESCSCCSTTHHHHHHHHHTTT-SCEEEEEEEEET--TEEEEEEEESCHHHHHHHHHHHHSCCS
T ss_pred             CeEEEEEeCcCCCCCHHHHHHHHccC-CcEEEEEEEeeC--CCCeEEEEECCHHHHHHHHHHHCCCEe
Confidence            45789999999999999999999995 999999998763  589999999999999999877666544

>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=99.24  E-value=4.2e-12  Score=103.77  Aligned_cols=70  Identities=19%  Similarity=0.061  Sum_probs=58.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEE-EEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccCc
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYR-LRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP  422 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~-v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~  422 (437)
                      ..++|||+|||+++|+++|+++|+.+ |.|.. +.+..+ .|.++|||||+|.+.++|++|+.....++.+..
T Consensus         7 ~~~~v~v~nLp~~~t~~~l~~~F~~~-g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~~~i~gr~   78 (103)
T d2cpya1           7 AKVCAHITNIPFSITKMDVLQFLEGI-PVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHRKKLNGRE   78 (103)
T ss_dssp             CCCEEEEESCCTTSCHHHHHHHTTTS-CCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCSEEETTEE
T ss_pred             CceEEEEeCCCCCCCHHHHhhhhccc-ceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCCCeECCcE
Confidence            34789999999999999999999995 98876 455554 778999999999999999999986555555543

>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=99.23  E-value=1e-11  Score=98.51  Aligned_cols=74  Identities=20%  Similarity=0.258  Sum_probs=59.1

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec---cCchhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL---HNPSIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~---~~~~i~~~~  428 (437)
                      ++++|||+|||.++|+++|+++|+++ |.|..+.+..+  +.+|||||+|.+.++|.+|+...+.+.+   +...|.|++
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~-G~v~~~~~~~~--~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSN-GGVVKGFKFFQ--KDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTT-SCCEEEEEECS--SSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhcc-CCEEEEEEeee--cccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            35799999999999999999999995 99988876553  4578999999999999999877666543   222455543

>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=99.23  E-value=1.4e-12  Score=107.43  Aligned_cols=74  Identities=19%  Similarity=0.295  Sum_probs=67.6

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC-CceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS-VLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~-s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      ..++|++++.++++++|+++|++||+|.+|+++++... ++|||||+|.+.++|.+|+. |||..++|++|.|.++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEEC
Confidence            35788999999999999999999999999999876543 69999999999999999999 9999999999999875

>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=99.23  E-value=6.2e-12  Score=101.86  Aligned_cols=73  Identities=8%  Similarity=0.182  Sum_probs=61.3

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccC----chhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN----PSIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~----~~i~~  426 (437)
                      .++++|||+|||+++|+++|+++|++| |+|..+++.++    +|||||+|.+.++|.+|+...+...+..    ..|.|
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~-G~i~~~~~~~~----~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~   89 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRF-GSIRTIDHVKG----DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDF   89 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTT-SCEEEEEECSS----SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhh-cccceEeeecc----ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEe
Confidence            346899999999999999999999995 99999999865    5699999999999999988766655432    35777


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      |+
T Consensus        90 ak   91 (97)
T d1whya_          90 AK   91 (97)
T ss_dssp             CC
T ss_pred             CC
Confidence            65

>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=99.23  E-value=8.3e-12  Score=98.97  Aligned_cols=71  Identities=11%  Similarity=0.241  Sum_probs=60.0

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+|||.++++++|+++|++| |+|.+|++.++    +|||||+|.+.++|.+|+...+...++..  .|+||.
T Consensus         8 ~~~l~V~nLp~~~~~~~l~~~F~~~-G~i~~i~~~~~----k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~   80 (86)
T d2cpja1           8 RSRLFVGNLPPDITEEEMRKLFEKY-GKAGEVFIHKD----KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   80 (86)
T ss_dssp             TTEEEEESCCTTCCHHHHHHHTSTT-CCCSEEEEETT----TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHh-CCceEeeeecc----cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            3689999999999999999999995 99999999876    45999999999999999887776555443  356654

>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=99.22  E-value=7e-12  Score=101.25  Aligned_cols=75  Identities=21%  Similarity=0.253  Sum_probs=61.3

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLEE  429 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~~  429 (437)
                      ..++|||+|||+++|+++|+++|++| |.|..++   ..+.++|||||+|.+.++|++|+...+...++..  .|.|+.+
T Consensus        15 ~~~~l~V~nL~~~~te~~l~~~F~~~-g~v~~~~---~~~~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a~~   90 (96)
T d1fjca_          15 AARTLLAKNLSFNITEDELKEVFEDA-LEIRLVS---QDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGE   90 (96)
T ss_dssp             GGGEEEEESCCSSCCHHHHHHHHCSE-EEECCEE---ETTEEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEECSS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhc-ccceeee---ecCccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEeCC
Confidence            45899999999999999999999996 9886654   4677899999999999999999987666544443  4666654


Q ss_pred             h
Q 013726          430 F  430 (437)
Q Consensus       430 ~  430 (437)
                      -
T Consensus        91 k   91 (96)
T d1fjca_          91 K   91 (96)
T ss_dssp             S
T ss_pred             C
Confidence            3

>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=99.20  E-value=4.9e-12  Score=101.17  Aligned_cols=76  Identities=20%  Similarity=0.349  Sum_probs=60.4

Q ss_pred             ccEEEEEcCCccCCHHHHHH----HhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCce-eccCc-hhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKL----FFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFY-ILHNP-SIAW  426 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLre----lF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~-~~~~~-~i~~  426 (437)
                      +++|||+|||.++|++||++    +|++| |+|.+|++.+ ++.++|||||+|.+.++|.+|+...+.. +.+.+ .|.|
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~-G~i~~i~~~~-~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~   80 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRF-GQILDILVSR-SLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY   80 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGG-SCEEEEECCH-HHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhccc-ccccceEEee-eccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            47999999999999999864    68885 9999998865 3557899999999999999999765544 33333 4777


Q ss_pred             hhhh
Q 013726          427 LEEF  430 (437)
Q Consensus       427 ~~~~  430 (437)
                      |+.=
T Consensus        81 ak~~   84 (91)
T d1nu4a_          81 AKTD   84 (91)
T ss_dssp             CSSC
T ss_pred             eCCC
Confidence            7653

>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=99.20  E-value=7.2e-12  Score=104.15  Aligned_cols=69  Identities=16%  Similarity=0.171  Sum_probs=57.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEec--cCCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG--DYHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~k--d~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      ...+|||+|||+++|++||+++|+.+ |.+..+.++.  +.|.++|||||+|.+.++|++|+.....++.+.
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~-g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~~~i~gR   87 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKL-DIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHKQYMGNR   87 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSS-CBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCSBCSTTS
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhc-cccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCCCcCCCE
Confidence            45799999999999999999999994 9887643333  378899999999999999999998655555544

>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=99.18  E-value=1.6e-11  Score=97.46  Aligned_cols=58  Identities=21%  Similarity=0.208  Sum_probs=52.4

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH  413 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~  413 (437)
                      .++++|||+|||.++|+++|+++|++| |.|.++++.++.    |||||+|.+.++|++|+..
T Consensus         6 ~Ps~~l~V~nLp~~~t~~~L~~~f~~~-G~i~~v~~~~~~----~~afV~f~~~e~A~~a~~~   63 (88)
T d2cq1a1           6 APSRVLHIRKLPGEVTETEVIALGLPF-GKVTNILMLKGK----NQAFLELATEEAAITMVNY   63 (88)
T ss_dssp             SCCSEEEEESCCTTCCHHHHHHTTTTT-SCEEEEEEETTT----TEEEEEESSHHHHHHHHHH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhcc-cccccccccccc----eEEEEEeCCHHHHHHHHHH
Confidence            456899999999999999999999995 999999998764    5999999999999888764

>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=99.18  E-value=1.5e-11  Score=99.90  Aligned_cols=69  Identities=16%  Similarity=0.279  Sum_probs=57.3

Q ss_pred             ccEEEEEcCC-ccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          353 ARTIYCTNID-KKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       353 ~~tL~V~NLp-~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      .++|||+||| ..+++++|+++|++| |.|.+++|      ++|||||+|.+.++|++|+...+...+...  .|+|+.
T Consensus        15 ~~~lfV~nL~~~~~~~~~L~~~F~~~-G~i~~~~i------~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          15 NSRVFIGNLNTLVVKKSDVEAIFSKY-GKIVGCSV------HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             CCCEEEEEECTTTCCHHHHHHSSTTS-SCEEEEEE------ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHhhc-CCEEEEEE------eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            4689999997 578899999999995 99999998      368999999999999999987776544443  466764

>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=99.18  E-value=2.9e-11  Score=98.24  Aligned_cols=69  Identities=9%  Similarity=0.118  Sum_probs=57.5

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhh
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWL  427 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~  427 (437)
                      ..+|||+|||++++++||+++|++| |+|.++.+.+     +|||||+|.+.++|++|+...+...++..  .+.|+
T Consensus        15 ~~~i~V~Nlp~~~~~~~L~~~F~~~-G~v~~~~i~~-----~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~   85 (98)
T d1wg4a_          15 DFRVLVSGLPPSGSWQDLKDHMREA-GDVCYADVQK-----DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYI   85 (98)
T ss_dssp             SCEEEEECCCSSCCHHHHHHHHTTS-SCEEEEEEET-----TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHhh-cccccccccc-----cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEE
Confidence            4689999999999999999999995 9999999864     47999999999999999987665544433  34444

>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=99.17  E-value=3.4e-11  Score=98.58  Aligned_cols=73  Identities=16%  Similarity=0.216  Sum_probs=58.4

Q ss_pred             ccccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhc---CceeccCc-hhhh
Q 013726          351 MCARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHT---EFYILHNP-SIAW  426 (437)
Q Consensus       351 ~~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~---~~~~~~~~-~i~~  426 (437)
                      .++++|||+|||..+|++||+++|++| |.|.++++.++    +|+|||+|.+.++|.+|+...   ...+...+ .|.|
T Consensus        13 ~ps~~l~v~nlp~~~te~~l~~~F~~f-G~I~~~~~~~~----k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~   87 (104)
T d1wexa_          13 SVSPVVHVRGLCESVVEADLVEALEKF-GTICYVMMMPF----KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNY   87 (104)
T ss_dssp             CCCSEEEEESCCSSCCHHHHHHHHTTT-SCEEEEEEETT----TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHhhhhc-ccceEEEEEec----ceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEE
Confidence            356899999999999999999999995 99999999865    559999999999998887643   33333333 4666


Q ss_pred             hh
Q 013726          427 LE  428 (437)
Q Consensus       427 ~~  428 (437)
                      ++
T Consensus        88 s~   89 (104)
T d1wexa_          88 ST   89 (104)
T ss_dssp             CS
T ss_pred             cC
Confidence            53

>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=99.15  E-value=2.3e-11  Score=99.49  Aligned_cols=63  Identities=19%  Similarity=0.362  Sum_probs=57.0

Q ss_pred             cCCcEEEEec--CCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEe
Q 013726          254 IIRRTVYVSD--IDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTML  320 (437)
Q Consensus       254 ~~~rtLfVgN--Lp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l  320 (437)
                      .++++|+|+|  ||.++|+++|+++|++||.|..|++..+    +|||||+|.+.++|.+|+. |||..+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~----k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN----KPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT----CSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC----ccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            4567899965  9999999999999999999999998765    4699999999999999999 999887

>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=99.14  E-value=3.3e-11  Score=93.76  Aligned_cols=70  Identities=14%  Similarity=0.161  Sum_probs=57.2

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|++  +|+++|+++|++| |+|.++++.++    +|||||+|.+.++|.+|+...+...+...  .|.||+
T Consensus         4 ~~~ti~V~~~~--~te~~L~~~F~~~-G~I~~v~~~~~----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1           4 KGNTLYVYGED--MTPTLLRGAFSPF-GNIIDLSMDPP----RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   75 (79)
T ss_dssp             CCCEEEEECSS--CCHHHHHHHHSTT-CCCSCEEEETT----TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEECCC--CCHHHHHHHHhcc-CccceeeeccC----CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            34799999996  8999999999995 99999999865    45999999999999999877665444433  466664

>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=99.14  E-value=4.1e-11  Score=94.54  Aligned_cols=72  Identities=13%  Similarity=0.124  Sum_probs=59.6

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hhhhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SIAWLE  428 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i~~~~  428 (437)
                      ..++|||+|||.++|+++|+++|++| |.|..+.+.+    ++|||||+|.+.++|.+|+...+.+.++..  .|.||.
T Consensus         7 ~~k~l~V~nLp~~~te~~l~~~F~~~-g~i~~~~~~~----~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1           7 SVKILYVRNLMLSTSEEMIEKEFNNI-KPGAVERVKK----IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTT-STTCEEEEEE----CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHhhccc-ceeeeEEEcc----ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            34799999999999999999999995 9998887743    567999999999999999987776555444  366664

>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=99.13  E-value=8e-11  Score=92.47  Aligned_cols=72  Identities=21%  Similarity=0.221  Sum_probs=61.6

Q ss_pred             CCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeee-eEEeccC
Q 013726          255 IRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYP-VRVLPSK  331 (437)
Q Consensus       255 ~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~-L~V~~s~  331 (437)
                      +.+.|+|+++|++++++.| +.|++||.|.++++..+    +|||||+|.++++|.+||++||..++|+. |.|.+..
T Consensus         3 ~~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~~----~~~~fV~f~~~~~A~~Al~~nG~~~~g~~~vgV~~~~   75 (81)
T d1wwha1           3 DDTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSNT----GNWMHIRYQSKLQARKALSKDGRIFGESIMIGVKPCI   75 (81)
T ss_dssp             GGGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECSS----SSEEEEEESSHHHHHHHHTTTTCEETTTEECEEEECC
T ss_pred             cccEEEEECCChHHHHHHH-HHHHhhhhhheEEecCC----CCEEEEEEcccHHHHHHHhcCCCeECCcEEEEEEeCC
Confidence            3467999999999997655 57999999999988544    47999999999999999999999999974 5687753

>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=99.11  E-value=2.5e-11  Score=101.13  Aligned_cols=73  Identities=19%  Similarity=0.171  Sum_probs=62.7

Q ss_pred             cCCcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCH-HHHHHHHH-hcCeEeeeeeeEEecc
Q 013726          254 IIRRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDE-EGARAALN-LAGTMLGFYPVRVLPS  330 (437)
Q Consensus       254 ~~~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~-e~A~~Al~-lng~~l~Gr~L~V~~s  330 (437)
                      .....+||||||+++|+++|+++|++||+|.+|.++.+    +|||||.|.++ ++|.+|+. +++..+.++.+.|.+.
T Consensus         9 ~g~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~----kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~   83 (113)
T d1owxa_           9 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWE   83 (113)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEE
T ss_pred             CCCeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC----CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEe
Confidence            34567899999999999999999999999999999855    58999999985 77888888 9999888777666654

>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=99.10  E-value=2e-11  Score=95.39  Aligned_cols=71  Identities=17%  Similarity=0.151  Sum_probs=57.0

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc-eeccC--chhhhhhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF-YILHN--PSIAWLEE  429 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~-~~~~~--~~i~~~~~  429 (437)
                      ++|||+|||.++|+++|+++|++| |.|.++++.+    ++|||||+|.+.++|.+|+...++ +.++.  ..|+||.+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~-G~i~~~~~~~----~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~   75 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDR-KLPLAGQVLL----KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVS   75 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHT-TCCCSSCEEE----ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHh-CcEEEeEEec----ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCC
Confidence            579999999999999999999995 9998777665    467999999999999999976654 43332  24666653

>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=99.09  E-value=4.4e-11  Score=95.10  Aligned_cols=70  Identities=11%  Similarity=0.136  Sum_probs=55.4

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCch--hhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS--IAWL  427 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~--i~~~  427 (437)
                      .+++|||+|||++++++||+++|++| | +..+.+    +..+|||||+|.+.++|++|+...+.+.++...  ++|+
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~-G-~~~~~~----~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a   75 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDY-D-LKYCYV----DRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQ   75 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-C-CCCEEE----EGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhc-C-ceeeee----eccCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            35799999999999999999999995 9 333443    345789999999999999999887776555543  4444

>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=99.05  E-value=2.5e-10  Score=87.93  Aligned_cols=66  Identities=12%  Similarity=0.043  Sum_probs=54.0

Q ss_pred             EEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCch--hhhh
Q 013726          356 IYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNPS--IAWL  427 (437)
Q Consensus       356 L~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~~--i~~~  427 (437)
                      |||+|||+++++++|+++|++| | +..+.+.    +++|||||+|.+.++|.+|+...+.+.++...  ++|+
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~-g-~~~~~~~----~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a   68 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDY-E-LKYCFVD----KYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQ   68 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTS-C-EEEEEEE----TTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             CEEeCCCCcCCHHHHHHHHhcc-c-ccceeec----ccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEe
Confidence            7999999999999999999996 8 5555543    46789999999999999999888876665543  4444

>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=99.04  E-value=1.7e-10  Score=93.63  Aligned_cols=73  Identities=16%  Similarity=0.186  Sum_probs=57.2

Q ss_pred             ccccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh--cCc-eeccC-chhh
Q 013726          351 MCARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH--TEF-YILHN-PSIA  425 (437)
Q Consensus       351 ~~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~--~~~-~~~~~-~~i~  425 (437)
                      ..+++|||+|||.+ +|+++|.++|++| |.|.++++.++    +|||||+|.+.++|.+|+.+  .+. .+.+. ..|.
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~f-G~V~~v~~~~~----k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~   90 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPY-GKIKNYILMRM----KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   90 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTT-SCCSEEEEETT----TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccc-cceeEEEEeec----CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEE
Confidence            45689999999985 8999999999995 99999999865    45999999999999888752  232 22323 3466


Q ss_pred             hhh
Q 013726          426 WLE  428 (437)
Q Consensus       426 ~~~  428 (437)
                      |+.
T Consensus        91 ~s~   93 (99)
T d1x4fa1          91 LSE   93 (99)
T ss_dssp             EEC
T ss_pred             EcC
Confidence            654

>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=99.04  E-value=2.9e-10  Score=92.32  Aligned_cols=76  Identities=18%  Similarity=0.196  Sum_probs=65.5

Q ss_pred             cCCcEEEEecC--Cccch---------HHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEee
Q 013726          254 IIRRTVYVSDI--DQQVT---------EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLG  321 (437)
Q Consensus       254 ~~~rtLfVgNL--p~~~t---------ee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~  321 (437)
                      ...++|+|+|+  |.++.         +++|++.|++||.|..|++..+  .++|+|||+|.+.++|.+|+. |||..++
T Consensus         6 ~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~   83 (99)
T d2dita1           6 RHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFG   83 (99)
T ss_dssp             CSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEET
T ss_pred             CCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEEC
Confidence            46789999999  65432         3689999999999999988655  357999999999999999999 9999999


Q ss_pred             eeeeEEeccC
Q 013726          322 FYPVRVLPSK  331 (437)
Q Consensus       322 Gr~L~V~~s~  331 (437)
                      |++|.|.+..
T Consensus        84 gr~i~v~~~~   93 (99)
T d2dita1          84 GRQITAQAWD   93 (99)
T ss_dssp             TEECEEEECC
T ss_pred             CEEEEEEEeC
Confidence            9999999863

>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=99.02  E-value=1.9e-10  Score=91.65  Aligned_cols=73  Identities=12%  Similarity=0.170  Sum_probs=58.1

Q ss_pred             ccccEEEEEcCCcc-CCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhh---cCceeccCc-hhh
Q 013726          351 MCARTIYCTNIDKK-VTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIH---TEFYILHNP-SIA  425 (437)
Q Consensus       351 ~~~~tL~V~NLp~~-vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~---~~~~~~~~~-~i~  425 (437)
                      ..+++|||+|||.. +|++||+++|++| |.|.++.+.++.+    +|||+|++.++|.+|+..   ....+.+.+ .|.
T Consensus         6 ~~sr~v~v~nl~~~~~t~~eL~~lF~~f-G~I~~i~i~~~k~----~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~   80 (89)
T d1x4da1           6 ETRRVVHIMDFQRGKNLRYQLLQLVEPF-GVISNHLILNKIN----EAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVH   80 (89)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGG-SCEEEEEECSSSS----CEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CCCcEEEEECCCCCcCCHHHHHHHHHhh-CCeEEEEeeccce----EEEEEEcchhhHHHHHHHHhhCCCccCCceEEEE
Confidence            45689999999986 8999999999996 9999999987644    999999999999888763   233334433 466


Q ss_pred             hhh
Q 013726          426 WLE  428 (437)
Q Consensus       426 ~~~  428 (437)
                      |+.
T Consensus        81 ~s~   83 (89)
T d1x4da1          81 LSQ   83 (89)
T ss_dssp             EEC
T ss_pred             ECC
Confidence            664

>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=99.01  E-value=2.3e-10  Score=93.30  Aligned_cols=64  Identities=13%  Similarity=0.192  Sum_probs=55.7

Q ss_pred             ccccEEEEEc--CCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceec
Q 013726          351 MCARTIYCTN--IDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYIL  419 (437)
Q Consensus       351 ~~~~tL~V~N--Lp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~  419 (437)
                      .++++|+|.|  ||.++|+++|+++|++| |.|+.+++.++    +|||||+|.+.++|.+|+..++++.+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~-G~i~~i~~~~~----k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKC-GLVDALLMPPN----KPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHH-SCEEEEECCTT----CSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhh-CcccEEeeccC----ccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            3457899966  99999999999999996 99999998875    45999999999999999988887544

>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=99.01  E-value=7.7e-12  Score=99.67  Aligned_cols=75  Identities=19%  Similarity=0.241  Sum_probs=57.3

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEec-------cCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc-hhh
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLG-------DYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP-SIA  425 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~k-------d~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~-~i~  425 (437)
                      ++|||+|||+++|+++|+++|+++ |.|..+.+..       +.+.++|||||+|.+.++|++|+......+...+ .|.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~-g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQ-MRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDGIIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHH-HTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSSCCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhh-CcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCCcEECCEEEEEC
Confidence            689999999999999999999996 9887776643       2456899999999999999888874444433332 244


Q ss_pred             hhhh
Q 013726          426 WLEE  429 (437)
Q Consensus       426 ~~~~  429 (437)
                      ++.+
T Consensus        81 r~k~   84 (90)
T d1u2fa_          81 RPHD   84 (90)
T ss_dssp             CTTC
T ss_pred             CCCC
Confidence            4433

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

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

Probab=98.98  E-value=3.7e-10  Score=92.44  Aligned_cols=77  Identities=16%  Similarity=0.114  Sum_probs=65.7

Q ss_pred             CCcEEEEecC--Cc--------cchHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeE
Q 013726          255 IRRTVYVSDI--DQ--------QVTEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTM  319 (437)
Q Consensus       255 ~~rtLfVgNL--p~--------~~tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~  319 (437)
                      +++.|.++|+  |.        ....++|++.|++||.|.+|.+.+++..    ..|++||+|.+.++|.+|+. |+|..
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr~   82 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGRK   82 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSCC
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCCE
Confidence            4678999999  33        2345689999999999999999876543    36899999999999999999 99999


Q ss_pred             eeeeeeEEeccC
Q 013726          320 LGFYPVRVLPSK  331 (437)
Q Consensus       320 l~Gr~L~V~~s~  331 (437)
                      ++||.|.+.+..
T Consensus        83 f~gR~v~v~f~~   94 (104)
T d1o0pa_          83 FANRVVVTKYCD   94 (104)
T ss_dssp             SSSSCCEEEEEC
T ss_pred             ECCeEEEEEEcC
Confidence            999999998863

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.91  E-value=7.1e-11  Score=96.98  Aligned_cols=67  Identities=12%  Similarity=0.073  Sum_probs=58.9

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEecc-CCCcceEEEEEeCCHHHHHHHHhhcCceeccC
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGD-YHHSTRIAFVEFVMVIASSTLFIHTEFYILHN  421 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd-~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~  421 (437)
                      +.++|++++..+++++|+++|++| |+|.+|+|+++ .++++|||||+|.+.++|.+|+...++...+.
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~-G~I~~v~I~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lng~~~~g   95 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKY-GEVEEMNVCDNLGDHLVGNVYVKFRREEDAEKAVIDLNNRWFNG   95 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHT-CCEEEEEECCSSSSSSEEEEEEEESCHHHHHHHHHHHTTCEETT
T ss_pred             chHHhhhhhhhhhHHHHHHHhccC-CCEEEEEeecCCCCCEeeEEEEEEechhHHHHHHHHHCCCEECC
Confidence            568899999999999999999995 99999999987 77899999999999999999988766544443

>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=98.87  E-value=1.8e-09  Score=89.52  Aligned_cols=70  Identities=13%  Similarity=0.282  Sum_probs=54.0

Q ss_pred             cccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCH-HHHHHHHhhcCc--eeccCchhhh
Q 013726          352 CARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMV-IASSTLFIHTEF--YILHNPSIAW  426 (437)
Q Consensus       352 ~~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~-e~A~kal~~~~~--~~~~~~~i~~  426 (437)
                      ....+||+|||+++|+++|+++|++| |+|.+|+|+++    +|||||.|.+. ++|.+|+...+.  +.+....+.|
T Consensus        10 g~~~~fvgnL~~~~tee~Lk~~F~~f-G~V~~v~i~~~----kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          10 GCLLKFSGDLDDQTCREDLHILFSNH-GEIKWIDFVRG----AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCSS-CCEEEEECCTT----CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             CCeEEEECCCCCCCCHHHHHHHHHhc-CChheEEEecC----CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            34677999999999999999999995 99999999865    56999999985 677666555543  3334434444

>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=98.86  E-value=8.5e-10  Score=90.40  Aligned_cols=73  Identities=5%  Similarity=0.100  Sum_probs=60.7

Q ss_pred             cccEEEEEcCCccC-C----HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceeccCc--hh
Q 013726          352 CARTIYCTNIDKKV-T----QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILHNP--SI  424 (437)
Q Consensus       352 ~~~tL~V~NLp~~v-t----eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~~~--~i  424 (437)
                      .+++|||+||+.++ +    +++|+++|++| |.|.++++.+.    +|||||+|.+.++|.+|+...+++.+...  .|
T Consensus         4 ~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~-G~i~~~~~~k~----~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v   78 (104)
T d1weya_           4 GSSGLIACVANDDVFSESETRAKFESLFRTY-DKDTTFQYFKS----FKRVRINFSNPLSAADARLRLHKTEFLGKEMKL   78 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTT-CSSCEEEEETT----TTEEEEECSSTTHHHHHHHTSTTSEETTEECEE
T ss_pred             CCceEEEEeCCchhcCcHHHHHHHHHHhccc-ccceEEEEecC----CCEEEEEECCHHHHHHHHHHhcccccCCCEeEE
Confidence            45799999999886 3    35699999995 99999999864    55999999999999999999998776654  47


Q ss_pred             hhhhh
Q 013726          425 AWLEE  429 (437)
Q Consensus       425 ~~~~~  429 (437)
                      .||+.
T Consensus        79 ~~a~~   83 (104)
T d1weya_          79 YFAQT   83 (104)
T ss_dssp             ECCCC
T ss_pred             eeccc
Confidence            77753

>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=98.63  E-value=4.1e-08  Score=76.55  Aligned_cols=58  Identities=5%  Similarity=0.064  Sum_probs=48.3

Q ss_pred             ccEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCc
Q 013726          353 ARTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEF  416 (437)
Q Consensus       353 ~~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~  416 (437)
                      .+.|+|.++|++.+++.| ++|++ ||+|.++++.++    +|||||+|.+.++|.+||.....
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~-~G~I~~~~~~~~----~~~~fV~f~~~~~A~~Al~~nG~   61 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQ-YGNILKHVMSNT----GNWMHIRYQSKLQARKALSKDGR   61 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHT-TSCEEEEEECSS----SSEEEEEESSHHHHHHHHTTTTC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHh-hhhhheEEecCC----CCEEEEEEcccHHHHHHHhcCCC
Confidence            478999999999986555 57999 499999988643    57999999999999999975443

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

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

Probab=98.58  E-value=3.6e-08  Score=79.63  Aligned_cols=70  Identities=16%  Similarity=0.196  Sum_probs=56.8

Q ss_pred             cccEEEEEcC--CccCC---------HHHHHHHhhhcCCceEEEEEeccCCCcceEEEEEeCCHHHHHHHHhhcCceecc
Q 013726          352 CARTIYCTNI--DKKVT---------QADVKLFFESVCGEVYRLRLLGDYHHSTRIAFVEFVMVIASSTLFIHTEFYILH  420 (437)
Q Consensus       352 ~~~tL~V~NL--p~~vt---------eedLrelF~~f~G~I~~v~i~kd~g~srGfAFVeF~s~e~A~kal~~~~~~~~~  420 (437)
                      .+++|+|+||  |.++.         ++||++.|++| |.|..|.+..+  +++|+|||+|.+.++|.+|+...++....
T Consensus         7 ~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~-G~V~~v~~~~~--~~~G~~fV~f~~~e~A~~A~~~lng~~~~   83 (99)
T d2dita1           7 HERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKF-GQIRKLLLFDR--HPDGVASVSFRDPEEADYCIQTLDGRWFG   83 (99)
T ss_dssp             SCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGT-SCCSEEEEETT--CTTCEEEEECSCHHHHHHHHHHSTTCEET
T ss_pred             CccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCc-ccEEEEeccCC--CCccEEEEEECCHHHHHHHHHHhCCcEEC
Confidence            4589999999  65432         37899999995 99999988765  45799999999999999999888876666


Q ss_pred             Cchh
Q 013726          421 NPSI  424 (437)
Q Consensus       421 ~~~i  424 (437)
                      ...|
T Consensus        84 gr~i   87 (99)
T d2dita1          84 GRQI   87 (99)
T ss_dssp             TEEC
T ss_pred             CEEE
Confidence            5443

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

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

Probab=98.51  E-value=4.8e-08  Score=79.49  Aligned_cols=69  Identities=16%  Similarity=0.106  Sum_probs=54.4

Q ss_pred             cccEEEEEcC--CccC--------CHHHHHHHhhhcCCceEEEEEeccC----CCcceEEEEEeCCHHHHHHHHhhcCce
Q 013726          352 CARTIYCTNI--DKKV--------TQADVKLFFESVCGEVYRLRLLGDY----HHSTRIAFVEFVMVIASSTLFIHTEFY  417 (437)
Q Consensus       352 ~~~tL~V~NL--p~~v--------teedLrelF~~f~G~I~~v~i~kd~----g~srGfAFVeF~s~e~A~kal~~~~~~  417 (437)
                      ++++|+|+||  |.++        ..+||++.|++| |.|.+|.|+++.    ....|++||+|.+.++|.+|+...++.
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~-G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~Gr   81 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKY-GLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTGR   81 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTT-SCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSSC
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhccc-CceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCCC
Confidence            4689999999  4443        346899999995 999999998862    236789999999999999998776664


Q ss_pred             eccC
Q 013726          418 ILHN  421 (437)
Q Consensus       418 ~~~~  421 (437)
                      ....
T Consensus        82 ~f~g   85 (104)
T d1o0pa_          82 KFAN   85 (104)
T ss_dssp             CSSS
T ss_pred             EECC
Confidence            4433

>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=96.85  E-value=0.0012  Score=51.39  Aligned_cols=54  Identities=20%  Similarity=0.284  Sum_probs=48.8

Q ss_pred             HHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHHhcCeEeeeeeeEEecc
Q 013726          271 EQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALNLAGTMLGFYPVRVLPS  330 (437)
Q Consensus       271 e~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~lng~~l~Gr~L~V~~s  330 (437)
                      .+|.+.|..||+|.-+|++.+      ...|.|.+-++|.+|+.++|..+.|+.|+|...
T Consensus        39 ~~Llq~l~~~GeViLvRFv~d------~mwVTF~dG~SAL~al~l~g~~v~G~~l~It~~   92 (95)
T d1ufwa_          39 TELMQTLGSYGTIVLVRINQG------QMLVTFADSHSALSVLDVDGMKVKGRAVKISGP   92 (95)
T ss_dssp             HHHHHHHHHHSCCSEEEEETT------EEEEECSCSHHHHHHHHGGGSEETTEEEEEECC
T ss_pred             HHHHHHHhhCCeEEEEEEeCC------eEEEEECCcHHHHHHhccCCeEEcceEEEEecC
Confidence            467788999999999999876      689999999999999999999999999999753

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.29  E-value=0.0086  Score=46.63  Aligned_cols=66  Identities=17%  Similarity=0.176  Sum_probs=56.1

Q ss_pred             cEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCC----CceEEEEEEcCHHHHHHHHH-hcCeEeee
Q 013726          257 RTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNS----VLRFAFIEFTDEEGARAALN-LAGTMLGF  322 (437)
Q Consensus       257 rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~----s~GfaFVeF~~~e~A~~Al~-lng~~l~G  322 (437)
                      +.|.|+.||+++|++++.+.+...|.+........+.+    .-.-|||.|.+.++.....+ .+|..+.+
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~F~D   72 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcEEEc
Confidence            57899999999999999999999999888777665533    25689999999999999988 99998743

>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=95.75  E-value=0.016  Score=45.00  Aligned_cols=64  Identities=9%  Similarity=0.114  Sum_probs=49.4

Q ss_pred             cEEEEEcCCccCCHHHHHHHhhhcCCceEEEEEeccC---C-CcceEEEEEeCCHHHHHHHHhhcCcee
Q 013726          354 RTIYCTNIDKKVTQADVKLFFESVCGEVYRLRLLGDY---H-HSTRIAFVEFVMVIASSTLFIHTEFYI  418 (437)
Q Consensus       354 ~tL~V~NLp~~vteedLrelF~~f~G~I~~v~i~kd~---g-~srGfAFVeF~s~e~A~kal~~~~~~~  418 (437)
                      ++|.|+.||+.+||+++.+.++.. |.+.........   + ..-.-|||.|.+.++.......-+++.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~-~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g~~   69 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPM-PEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDGYV   69 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSC-CCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTTCE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCc-CceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCCcE
Confidence            689999999999999999999985 999888776541   1 122479999999999766555544433

>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=95.15  E-value=0.032  Score=41.11  Aligned_cols=61  Identities=18%  Similarity=0.210  Sum_probs=51.6

Q ss_pred             HHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH-hcCeEeeeeeeEEeccC
Q 013726          270 EEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN-LAGTMLGFYPVRVLPSK  331 (437)
Q Consensus       270 ee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~-lng~~l~Gr~L~V~~s~  331 (437)
                      .+.|.+.|+++|.|.++.+..... ..-.|-|...+.++|.-|+. |+...+++++|.|.++.
T Consensus        10 qq~L~~~f~~h~~V~sv~l~~~~d-g~~~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~   71 (73)
T d2dgxa1          10 QQLLQEAFARHGKVKSVELSPHTD-YQLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   71 (73)
T ss_dssp             HHHHHHHHHHHSCEEEEEECSCCS-TTCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             HHHHHHHHHhheeEEEEEEEeccC-CcEEEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEec
Confidence            355777899999999999865433 33589999999999999999 99999999999998864

>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=86.70  E-value=1.2  Score=34.50  Aligned_cols=53  Identities=23%  Similarity=0.332  Sum_probs=44.9

Q ss_pred             CcEEEEecCCccchHHHHHHHHhcCCCeeEEEEeeCCCCCceEEEEEEcCHHHHHHHHH
Q 013726          256 RRTVYVSDIDQQVTEEQLAALFVGCGQVVDCRICGDPNSVLRFAFIEFTDEEGARAALN  314 (437)
Q Consensus       256 ~rtLfVgNLp~~~tee~L~~~F~~~G~I~~vri~~d~~~s~GfaFVeF~~~e~A~~Al~  314 (437)
                      +.-||.-..|..+...+|.++|+.||.|. |.++.|.     -|||...+.++|..++.
T Consensus        15 RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~-VswIddT-----Sa~V~L~~~e~~~~v~~   67 (100)
T d1whva_          15 RDHVLHVTFPKEWKTSDLYQLFSAFGNIQ-ISWIDDT-----SAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CCSEEEEECCTTCCHHHHHHHHTTTCSCC-CEEEETT-----EEEEECSCHHHHHHHHH
T ss_pred             cceeEEEeCCcccchhHHHHHhcCCCceE-EEEecCc-----eEEEEecCHHHHHHHHH
Confidence            34589999999999999999999999875 4445443     69999999999999987