Citrus Sinensis ID: 027939

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210------
Protein Sequence
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYKGNTDGGNNDQGINNDGLMQNGNGYHSYKQQPEQGGNEY
Secondary Structure (PSIPRED)
cccccEEEEEccHHHHHHHHHHHcccccccccEEEEEccccccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccEEEEEEEccHHHHHHHHHHHcccccccccEEEEEcccccHHHHHHHHHccccccccccccEEEEccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
MQVGNVYVQFREEEQAARALKSLSgrfyagrpiivdfspvtdfreATCRQYEentcnrggycnfmhlKRISRDLRRQLFGRYrrrhsrsrsrsrspyrhrshedrshsghgrryddrdkyyesrsrrhrstspshrrgrsrspggrryhspvregseERRAKIEQWNREREQQEEAYkgntdggnndqginndglmqngngyhsykqqpeqggney
Flexible Loop (DISEMBL)
MQVGNVYVQFREEEQAARALKslsgrfyagrpiivdfspvtdFREATCRQYeentcnrggycnfmhlkrisRDLRRQLfgryrrrhsrsrsrsrspyrhrshedrshsghgrryddrdkyyesrsrrhrstspshrrgrsrspggrryhspvregseerraKIEQWNREREQQeeaykgntdggnnDQGINNDGLMQNGNGyhsykqqpeqggney
Low Complexity Region (SEG)
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISrdlrrqlfgryrrrhsrsrsrsrspyrhrshEDRSHSGHGRRYDDRDKYYEsrsrrhrstspshrrgrsrspggrryhspVREGSEERRAKIEQWNrereqqeeAYKgntdggnndqginndgLMQNGNGYHSYKQQPEQGGNEY
Disordered region (IsUnstruct)
*****VYVQF*******RALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGR***************************************************************************************************************************************
Disordered Region (DISOPRED)
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQ*******************************************************************************************************************************************
Disordered Region (DISEMBL)
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGRY********************************DDRDKY*****************************************KIEQWNREREQQEEAYKGNTDGGNNDQGINNDGLMQNGNGYHSYK**********
Disordered Region (DISPRO)
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGRYRR**********************************************************************************************************************HS************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGxxxxxxxxxxxxxxxxxxxxxYKGNTDGGNNDQGINNDGLMQNGNGYHSYKQQPEQGGNEY
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	216	2.2.26 [Sep-21-2011]
Q9ZQW8	290	Splicing factor U2af smal	yes	no	0.800	0.596	0.593	1e-43
Q9FMY5	283	Splicing factor U2af smal	yes	no	0.722	0.551	0.560	2e-37
Q9S709	296	Splicing factor U2af smal	no	no	0.763	0.557	0.564	2e-32
Q6AUG0	304	Splicing factor U2af smal	yes	no	0.361	0.256	0.756	2e-31
Q7TP17	220	Splicing factor U2AF 26 k	yes	no	0.509	0.5	0.481	2e-24
Q8BGJ9	220	Splicing factor U2AF 26 k	yes	no	0.509	0.5	0.481	2e-24
Q9D883	239	Splicing factor U2AF 35 k	no	no	0.356	0.322	0.636	2e-23
Q01081	240	Splicing factor U2AF 35 k	yes	no	0.356	0.320	0.636	2e-23
A1A4K8	237	Splicing factor U2AF 35 k	yes	no	0.356	0.324	0.636	2e-23
Q3T127	220	Splicing factor U2AF 26 k	no	no	0.356	0.35	0.623	9e-23

>sp|Q9ZQW8|U2AFA_ORYSJ Splicing factor U2af small subunit A OS=Oryza sativa subsp. japonica GN=U2AF35A PE=2 SV=1

 Score =  176 bits (445), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 108/182 (59%), Positives = 126/182 (69%), Gaps = 9/182 (4%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            +GNVYVQFREE+QAARAL++L+GR+Y+GRPIIV+FSPV+DFREATCRQYEEN+CNRGGY
Sbjct: 108 MIGNVYVQFREEDQAARALQALTGRYYSGRPIIVEFSPVSDFREATCRQYEENSCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFG---RYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGR------ 112
           CNFMH+K I RDLR++LFG   R RR HS  RSRS SPY +R   DR  S   R      
Sbjct: 168 CNFMHVKEIGRDLRKRLFGHLHRSRRSHSHGRSRSPSPYHYRRDYDRRSSSRSRDHDDYY 227

Query: 113 RYDDRDKYYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQ 172
           R    D Y     R       S+    SR     R  SPVR+GSEERRA+IEQWNRERE 
Sbjct: 228 RGGSHDYYRGGSRRSSERHRSSYDSDGSRRRHRSRTRSPVRDGSEERRAQIEQWNREREA 287

Query: 173 QE 174
            +
Sbjct: 288 AQ 289

Necessary for the splicing of pre-mRNA.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9FMY5|U2AFB_ARATH Splicing factor U2af small subunit B OS=Arabidopsis thaliana GN=U2AF35B PE=2 SV=1

 Score =  155 bits (392), Expect = 2e-37,   Method: Compositional matrix adjust.
 Identities = 106/189 (56%), Positives = 126/189 (66%), Gaps = 33/189 (17%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            +GNVYV F+EE+ AA AL++L GRFY+GRPII DFSPVTDFREATCRQYEEN+CNRGGY
Sbjct: 108 MIGNVYVLFKEEDHAAAALQALQGRFYSGRPIIADFSPVTDFREATCRQYEENSCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSR-----------------SRSRSRSPYRHRSHED 104
           CNFMH+K+ISR+LRR+LFGRYRR + R                 SR R R   R     D
Sbjct: 168 CNFMHVKQISRELRRKLFGRYRRSYRRGSRSRSRSISPRRKREHSRERERGDVR-----D 222

Query: 105 RSHSGHGRRYDDR-DKYYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKI 163
           R   G+G+R  DR +++      R R  SP     RSRSP        VREGSEERRA+I
Sbjct: 223 RDRHGNGKRSSDRSERHDRDGGGRRRHGSPK----RSRSPRN------VREGSEERRARI 272

Query: 164 EQWNREREQ 172
           EQWNRER++
Sbjct: 273 EQWNRERDE 281

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9S709|U2AFA_ARATH Splicing factor U2af small subunit A OS=Arabidopsis thaliana GN=U2AF35A PE=1 SV=1

 Score =  139 bits (350), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 101/179 (56%), Positives = 120/179 (67%), Gaps = 14/179 (7%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            +GNVYVQF+EE+QAA AL++L GRFY+GRPII DFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 108 MIGNVYVQFKEEDQAAAALQALQGRFYSGRPIIADFSPVTDFREATCRQYEENNCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSR-----SPYRHRSHEDRSHSGHGRRYDD 116
           CNFMH+K +SR+LRR+LFGRYRR + R           SP   R ++ R  S     + D
Sbjct: 168 CNFMHVKLVSRELRRKLFGRYRRSYRRGSRSRSRSRSISPRNKRDNDRRDPSHREFSHRD 227

Query: 117 RDKYYESRSRRHRSTSPSHRRGRSRSPGGRRYHSP--------VREGSEERRAKIEQWN 167
           RD+ +       RS+  S R+ R  S  GRR  SP         REGSEERRA+IEQWN
Sbjct: 228 RDREFYRHGSGKRSSERSERQERDGS-RGRRQASPKRGGSPGGGREGSEERRARIEQWN 285

Necessary for the splicing of pre-mRNA.

Arabidopsis thaliana (taxid: 3702)

>sp|Q6AUG0|U2AFB_ORYSJ Splicing factor U2af small subunit B OS=Oryza sativa subsp. japonica GN=U2AF35B PE=2 SV=1

 Score =  135 bits (341), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 59/78 (75%), Positives = 71/78 (91%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            +GNVYVQFREEEQA  A  +L GRFY+GRPIIV++SPVTDFREATCRQ+EEN+CNRGGY
Sbjct: 108 MIGNVYVQFREEEQAVAAHNALQGRFYSGRPIIVEYSPVTDFREATCRQFEENSCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLF 79
           CNFMH+K+I R+LRR+L+
Sbjct: 168 CNFMHVKQIGRELRRKLY 185

Necessary for the splicing of pre-mRNA.

Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q7TP17|U2AF4_RAT Splicing factor U2AF 26 kDa subunit OS=Rattus norvegicus GN=U2af1l4 PE=2 SV=1

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 66/137 (48%), Positives = 81/137 (59%), Gaps = 27/137 (19%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYE 122
           NFMHL+ ISR+LRRQL+GR          R RSP        RSH+GH            
Sbjct: 170 NFMHLRPISRNLRRQLYGR--------GPRHRSP-------PRSHTGH------------ 202

Query: 123 SRSRRHRSTSPSHRRGR 139
               R+R  SP HR GR
Sbjct: 203 RPRERNRRRSPDHRHGR 219

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Rattus norvegicus (taxid: 10116)

>sp|Q8BGJ9|U2AF4_MOUSE Splicing factor U2AF 26 kDa subunit OS=Mus musculus GN=U2af1l4 PE=1 SV=1

 Score =  112 bits (280), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 66/137 (48%), Positives = 81/137 (59%), Gaps = 27/137 (19%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYE 122
           NFMHL+ ISR+LRRQL+GR          R RSP        RSH+GH            
Sbjct: 170 NFMHLRPISRNLRRQLYGR--------GPRHRSP-------PRSHTGH------------ 202

Query: 123 SRSRRHRSTSPSHRRGR 139
               R+R  SP HR GR
Sbjct: 203 RPRERNRRRSPDHRHGR 219

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. It can functionally substitute for U2AF1 in constitutive splicing and enhancer-dependent splicing. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Mus musculus (taxid: 10090)

>sp|Q9D883|U2AF1_MOUSE Splicing factor U2AF 35 kDa subunit OS=Mus musculus GN=U2af1 PE=1 SV=4

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 49/77 (63%), Positives = 61/77 (79%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SPVTDFREA CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLF 79
           NFMHLK ISR+LRR+L+
Sbjct: 170 NFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Mus musculus (taxid: 10090)

>sp|Q01081|U2AF1_HUMAN Splicing factor U2AF 35 kDa subunit OS=Homo sapiens GN=U2AF1 PE=1 SV=3

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 49/77 (63%), Positives = 61/77 (79%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SPVTDFREA CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLF 79
           NFMHLK ISR+LRR+L+
Sbjct: 170 NFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Homo sapiens (taxid: 9606)

>sp|A1A4K8|U2AF1_BOVIN Splicing factor U2AF 35 kDa subunit OS=Bos taurus GN=U2AF1 PE=2 SV=1

 Score =  108 bits (271), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 49/77 (63%), Positives = 61/77 (79%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SPVTDFREA CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSPVTDFREACCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLF 79
           NFMHLK ISR+LRR+L+
Sbjct: 170 NFMHLKPISRELRRELY 186

Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Recruits U2 snRNP to the branch point. Directly mediates interactions between U2AF2 and proteins bound to the enhancers and thus may function as a bridge between U2AF2 and the enhancer complex to recruit it to the adjacent intron.

Bos taurus (taxid: 9913)

>sp|Q3T127|U2AF4_BOVIN Splicing factor U2AF 26 kDa subunit OS=Bos taurus GN=U2AF1L4 PE=2 SV=1

 Score =  107 bits (266), Expect = 9e-23,   Method: Compositional matrix adjust.
 Identities = 48/77 (62%), Positives = 60/77 (77%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
           VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct: 110 VGNVYVKFRREEDAERAVVELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query: 63  NFMHLKRISRDLRRQLF 79
           NFMHL+ ISRDLRRQL+
Sbjct: 170 NFMHLRPISRDLRRQLY 186

RNA-binding protein that function as a pre-mRNA splicing factor. Plays a critical role in both constitutive and enhancer-dependent splicing by mediating protein-protein interactions and protein-RNA interactions required for accurate 3'-splice site selection. Acts by enhancing the binding of U2AF2 to weak pyrimidine tracts. Also participates in the regulation of alternative pre-mRNA splicing. Activates exon 5 skipping of PTPRC during T-cell activation; an event reversed by GFI1. Binds to RNA at the AG dinucleotide at the 3'-splice site.

Bos taurus (taxid: 9913)

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	216
255573032	322	U2 snrnp auxiliary factor, small subunit	0.958	0.642	0.723	7e-65
13278055	310	CDNA sequence BC003883 [Mus musculus]	0.930	0.648	0.674	9e-61
449443402	326	PREDICTED: splicing factor U2af small su	0.787	0.521	0.786	5e-56
356572520	314	PREDICTED: splicing factor U2af small su	0.902	0.621	0.641	5e-56
356505320	314	PREDICTED: splicing factor U2af small su	0.902	0.621	0.636	1e-55
294463000	334	unknown [Picea sitchensis]	0.884	0.571	0.576	2e-54
356543538	315	PREDICTED: splicing factor U2af small su	0.847	0.580	0.737	1e-52
297818960	277	hypothetical protein ARALYDRAFT_323163 [	0.773	0.602	0.668	1e-51
388521171	327	unknown [Medicago truncatula]	0.851	0.562	0.639	5e-50
116788026	312	unknown [Picea sitchensis]	0.902	0.625	0.619	1e-47

>gi|255573032|ref|XP_002527446.1| U2 snrnp auxiliary factor, small subunit, putative [Ricinus communis] gi|223533181|gb|EEF34938.1| U2 snrnp auxiliary factor, small subunit, putative [Ricinus communis]

 Score =  252 bits (644), Expect = 7e-65,   Method: Compositional matrix adjust.
 Identities = 152/210 (72%), Positives = 166/210 (79%), Gaps = 3/210 (1%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEE A  AL++LSGRFYAGRPII DFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 108 MVGNVYVQFREEEDAENALRNLSGRFYAGRPIIADFSPVTDFREATCRQYEENACNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHS--GHGRRYDDRDK 119
           CNFMHLKRI R+LR QLFGRYRRR S S SRSRS  RHRSHE+  H   G GRRYDD D+
Sbjct: 168 CNFMHLKRIGRELRHQLFGRYRRRRSHSHSRSRSLQRHRSHEEYYHVGRGSGRRYDDEDR 227

Query: 120 YYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYK- 178
           Y  SRSRR+RS SP   R RSRSPG RR  SPVREGSEERRA+I QWN+E+EQQ+E  K 
Sbjct: 228 YRGSRSRRYRSISPDQSRRRSRSPGLRRNRSPVREGSEERRARIAQWNKEKEQQQETAKQ 287

Query: 179 GNTDGGNNDQGINNDGLMQNGNGYHSYKQQ 208
            NTD GNN  G+ ++G  QNGN  H Y+QQ
Sbjct: 288 VNTDSGNNTSGVGDNGYKQNGNKDHGYQQQ 317

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|13278055|gb|AAH03883.1| CDNA sequence BC003883 [Mus musculus]

 Score =  238 bits (608), Expect = 9e-61,   Method: Compositional matrix adjust.
 Identities = 141/209 (67%), Positives = 156/209 (74%), Gaps = 8/209 (3%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEE A  AL++LSGRFYAGRPIIVDFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 108 MVGNVYVQFREEEHAGEALRNLSGRFYAGRPIIVDFSPVTDFREATCRQYEENVCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHS--GHGRRYDDRDK 119
           CNFMHLK+ISR+LRRQLFG  R R   SRSRSRSP  HR H DR H   G+GRR DDR++
Sbjct: 168 CNFMHLKKISRELRRQLFG--RYRRRHSRSRSRSPQAHRGHGDRPHGGRGYGRRDDDRNQ 225

Query: 120 YYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYKG 179
            Y  + RR RS SP H RGRSRSP GRR  SPVRE SEERRAKI QWNRE+EQ   A  G
Sbjct: 226 RYHDKGRRPRSRSPGH-RGRSRSPPGRRDRSPVRENSEERRAKIAQWNREKEQ---ADTG 281

Query: 180 NTDGGNNDQGINNDGLMQNGNGYHSYKQQ 208
           N D  ++    + +G   NG  Y+ + QQ
Sbjct: 282 NNDVNHDVTDNHANGFQDNGEDYYDHPQQ 310

Source: Mus musculus

Species: Mus musculus

Genus: Mus

Family: Muridae

Order: Rodentia

Class: Mammalia

Phylum: Chordata

Superkingdom: Eukaryota

>gi|449443402|ref|XP_004139466.1| PREDICTED: splicing factor U2af small subunit A-like [Cucumis sativus] gi|449510609|ref|XP_004163713.1| PREDICTED: splicing factor U2af small subunit A-like [Cucumis sativus]

 Score =  223 bits (567), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 136/173 (78%), Positives = 148/173 (85%), Gaps = 3/173 (1%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEEQAA AL++LSGRFYAGRPIIVDFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 108 MVGNVYVQFREEEQAANALRNLSGRFYAGRPIIVDFSPVTDFREATCRQYEENMCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHS--GHGRRYDDRDK 119
           CNFMHLKRI R+LR +LF  YRRRHS SRSRSRSPYRHRS+E+RS+   GH RRYD+RD 
Sbjct: 168 CNFMHLKRIGRELRHELFAMYRRRHSHSRSRSRSPYRHRSYEERSYGKHGHSRRYDERDA 227

Query: 120 YYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQ 172
           Y+ESRSRRHR+TSP HR       G +   SPVREGSEERRAKIEQWN+EREQ
Sbjct: 228 YHESRSRRHRTTSPGHRSRSRSPRGRKN-RSPVREGSEERRAKIEQWNKEREQ 279

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356572520|ref|XP_003554416.1| PREDICTED: splicing factor U2af small subunit B-like [Glycine max]

 Score =  223 bits (567), Expect = 5e-56,   Method: Compositional matrix adjust.
 Identities = 127/198 (64%), Positives = 147/198 (74%), Gaps = 3/198 (1%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREE+ AA AL +L+GRFY+GRPIIVDFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 112 MVGNVYVQFREEDHAANALMNLTGRFYSGRPIIVDFSPVTDFREATCRQYEENVCNRGGY 171

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYY 121
           CNFMHLK+ISRDLRR+LFGR RR + RS SRS+SP R+R+H +  HSG G    D D+ +
Sbjct: 172 CNFMHLKKISRDLRRKLFGRNRRWNGRSGSRSKSPPRNRNHGEHLHSGRGSGRRDFDRSH 231

Query: 122 ESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYKGNT 181
               RR RS SP +R  RSRSP GR    P+RE S ERRAKIEQWNRE+EQ E + K NT
Sbjct: 232 GHHGRRPRSRSPRYRGKRSRSPVGRDRSPPIRENSAERRAKIEQWNREKEQGETSNKNNT 291

Query: 182 DGGNNDQGINNDGLMQNG 199
              ++ Q      + QNG
Sbjct: 292 KSNDDYQ---EQSVAQNG 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356505320|ref|XP_003521439.1| PREDICTED: splicing factor U2af small subunit B-like [Glycine max]

 Score =  222 bits (565), Expect = 1e-55,   Method: Compositional matrix adjust.
 Identities = 126/198 (63%), Positives = 145/198 (73%), Gaps = 3/198 (1%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREE+ AA AL +L+GRFY+GRPIIVDFSPVTDFREATCRQYEEN CNRGGY
Sbjct: 112 MVGNVYVQFREEDHAANALMNLTGRFYSGRPIIVDFSPVTDFREATCRQYEENVCNRGGY 171

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYY 121
           CNFMHLK+ISRDLRR+LFGR RR + RS SRSRSP R+R+H + SHSG G    D D+ +
Sbjct: 172 CNFMHLKKISRDLRRKLFGRNRRWNGRSGSRSRSPPRNRNHGENSHSGRGSGRRDFDRSH 231

Query: 122 ESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYKGNT 181
               RR RS SP +R  RSRSP GR    P+RE S ERRAKIEQWNRE+EQ +    GN 
Sbjct: 232 GPHGRRPRSRSPRYRGKRSRSPVGRDRSPPIRESSAERRAKIEQWNREKEQGD---TGNM 288

Query: 182 DGGNNDQGINNDGLMQNG 199
           +   +        + QNG
Sbjct: 289 NNSKSSDDYQEQSVAQNG 306

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|294463000|gb|ADE77038.1| unknown [Picea sitchensis]

 Score =  217 bits (553), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 136/236 (57%), Positives = 151/236 (63%), Gaps = 45/236 (19%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEE AA AL++L+GRFYAGR IIVDFSPVTDFREATCRQYEENTCNRGGY
Sbjct: 108 MVGNVYVQFREEEHAAAALQALTGRFYAGRAIIVDFSPVTDFREATCRQYEENTCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRR--------------------RHSRSRSRSRS------ 95
           CNFMHLK+ISR+LRRQLFGRYRR                    RH     R R       
Sbjct: 168 CNFMHLKKISRELRRQLFGRYRRYGHGYSRSRSRSLSPGLSVERHRGYDDRPRGGRGYDD 227

Query: 96  -PYRHRSHEDRSHSGHGR-RYDDRD--KYYESR-SRRHRSTSPSHRRGRSRSPGGRRYHS 150
            PY  R ++DR H G G  R ++RD   Y++ R  RR RS SP HR+GRSRS   +R  S
Sbjct: 228 RPYGGRGYDDRPHGGRGFGRKNERDYPGYHDDRHGRRPRSRSPGHRQGRSRSHSPKRNRS 287

Query: 151 PVREGSEERRAKIEQWNREREQQEEAYKGNTDGGNNDQGINNDGLMQNGNGYHSYK 206
           PVREGS ERRAKIEQWNREREQ   +   N               MQNG G HSY+
Sbjct: 288 PVREGSAERRAKIEQWNREREQAAASSDANQS-------------MQNG-GAHSYQ 329

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356543538|ref|XP_003540217.1| PREDICTED: splicing factor U2af small subunit A-like [Glycine max]

 Score =  211 bits (538), Expect = 1e-52,   Method: Compositional matrix adjust.
 Identities = 138/187 (73%), Positives = 150/187 (80%), Gaps = 4/187 (2%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEE AA A+++L+GRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY
Sbjct: 108 MVGNVYVQFREEEHAANAVRNLTGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRD--K 119
           CNFMHLKRISR+LRRQLFG+   RHSRSRSRS    RHRSHE+RSH  H R+YDDRD   
Sbjct: 168 CNFMHLKRISRELRRQLFGKSHGRHSRSRSRSPY--RHRSHEERSHRSHSRKYDDRDHHH 225

Query: 120 YYESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEAYKG 179
              SR  R  S      R RSRSPGGRR+HSPVR+GSEERRA+IEQWNRERE QE  YK 
Sbjct: 226 ESRSRRHRSTSPRHRRGRSRSRSPGGRRHHSPVRDGSEERRARIEQWNREREDQEPGYKV 285

Query: 180 NTDGGNN 186
           N +  NN
Sbjct: 286 NAEEINN 292

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297818960|ref|XP_002877363.1| hypothetical protein ARALYDRAFT_323163 [Arabidopsis lyrata subsp. lyrata] gi|297323201|gb|EFH53622.1| hypothetical protein ARALYDRAFT_323163 [Arabidopsis lyrata subsp. lyrata]

 Score =  208 bits (529), Expect = 1e-51,   Method: Compositional matrix adjust.
 Identities = 117/175 (66%), Positives = 125/175 (71%), Gaps = 8/175 (4%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEEQA  AL +L GRFYAGRPIIVDFSPVTDFREATCRQYEE TC RGGY
Sbjct: 108 MVGNVYVQFREEEQAGNALHNLQGRFYAGRPIIVDFSPVTDFREATCRQYEEETCKRGGY 167

Query: 62  CNFMHLKRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYY 121
           CNFMHLK IS  LRRQL+GRY+ RH    SRSRSPYRHRSH+DRSH  H R     D   
Sbjct: 168 CNFMHLKSISSGLRRQLYGRYKNRH--IHSRSRSPYRHRSHDDRSHERHSRSRRYDDDDD 225

Query: 122 ESRSRRHRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQEEA 176
           +  SR       S      R        SPVR+GSEERRAKIEQWNRE+E+QE A
Sbjct: 226 DGESRSRSRRYRSRSPSGRRQK------SPVRDGSEERRAKIEQWNREKEEQENA 274

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388521171|gb|AFK48647.1| unknown [Medicago truncatula]

 Score =  202 bits (515), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 126/197 (63%), Positives = 145/197 (73%), Gaps = 13/197 (6%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQ++EE+ AA AL +L+GRFY+GRPIIV FSPVTDFREATCRQYEEN CNRGGY
Sbjct: 122 MVGNVYVQYKEEDHAANALMNLTGRFYSGRPIIVGFSPVTDFREATCRQYEENVCNRGGY 181

Query: 62  CNFMHLKRISRDLRRQLFGRYRRR-HSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKY 120
           CNFMHLK+ISRDLR++LFGR  RR + RS SRSRSP R+R++E RS+SG G    D D+ 
Sbjct: 182 CNFMHLKKISRDLRKRLFGRSSRRWNDRSGSRSRSPPRNRNYEGRSYSGRGSGRRDLDRS 241

Query: 121 YESRSRRHRSTSPSHRRGRSRSPGGR-RYHSPV---REGSEERRAKIEQWNREREQQEEA 176
           + S  RR RS SP HR  RSRSP GR R  +PV   RE S ERRA+IEQWNRE+E     
Sbjct: 242 HGSHGRRPRSRSPRHRGRRSRSPVGRDRSPNPVRGERESSVERRARIEQWNREKEV---- 297

Query: 177 YKGNTDGGNNDQGINND 193
                D GN D   NND
Sbjct: 298 ----GDSGNKDNKSNND 310

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|116788026|gb|ABK24730.1| unknown [Picea sitchensis]

 Score =  195 bits (495), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 130/210 (61%), Positives = 142/210 (67%), Gaps = 15/210 (7%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 61
            VGNVYVQFREEEQAA AL+SL GRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY
Sbjct: 108 MVGNVYVQFREEEQAANALRSLQGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGY 167

Query: 62  CNFMHLKRISRD-LRRQLFGRYRRRHSRSRSRSRSPY----RHRSHEDRS-HSGHGRRYD 115
           CNFMHLK+ISR+  RR      R  HSRSRSRS SP+    +HR H+DR  H G G    
Sbjct: 168 CNFMHLKKISRELRRRLFGRYRRYSHSRSRSRSASPHKDHEKHRHHDDRPRHGGRGYDRR 227

Query: 116 DRDKYYES-RSRRHRSTSP-SHRRGRSRSPGGRRYHSPVREGSEERRAKIEQWNREREQQ 173
                 +  R RR RS SP  HRRGRSRS   RR  SP+REGS ERRAKIEQWNRE+E Q
Sbjct: 228 YDVDDRDGHRGRRTRSRSPGGHRRGRSRSHSPRRNRSPIREGSAERRAKIEQWNREKEAQ 287

Query: 174 EEAYKGNTDGGNNDQGINNDGLMQNGNGYH 203
             +   N         + N G   N  GY+
Sbjct: 288 ASSTIAN-------HPMQNGGAYSNPQGYY 310

Source: Picea sitchensis

Species: Picea sitchensis

Genus: Picea

Family: Pinaceae

Order: Coniferales

Class: Coniferopsida

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	216
TAIR|locus:2196929	296	ATU2AF35A [Arabidopsis thalian	0.319	0.233	0.811	2.4e-35
TAIR|locus:2165447	283	U2AF35B [Arabidopsis thaliana	0.754	0.575	0.458	6e-32
GENEDB_PFALCIPARUM|PF11_0200	294	PF11_0200 "U2 snRNP auxiliary	0.314	0.231	0.558	1.3e-25
UNIPROTKB|Q8IIH4	294	PF11_0200 "U2 snRNP auxiliary	0.314	0.231	0.558	1.3e-25
DICTYBASE|DDB_G0285077	471	u2af1 "CCHC-type zinc finger-c	0.300	0.138	0.676	1.3e-23
UNIPROTKB|F1PU17	220	U2AF1L4 "Uncharacterized prote	0.319	0.313	0.594	2e-21
UNIPROTKB|F1RM65	232	U2AF1L4 "Uncharacterized prote	0.319	0.297	0.594	2e-21
MGI|MGI:2678374	220	U2af1l4 "U2 small nuclear RNA	0.319	0.313	0.594	2e-21
RGD|1305600	220	U2af1l4 "U2 small nuclear RNA	0.319	0.313	0.594	2e-21
UNIPROTKB|Q3T127	220	U2AF1L4 "Splicing factor U2AF	0.319	0.313	0.594	2.5e-21

TAIR|locus:2196929 ATU2AF35A [Arabidopsis thaliana (taxid:3702)]

 Score = 321 (118.1 bits), Expect = 2.4e-35, Sum P(2) = 2.4e-35
 Identities = 56/69 (81%), Positives = 64/69 (92%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             +GNVYVQF+EE+QAA AL++L GRFY+GRPII DFSPVTDFREATCRQYEEN CNRGGYC
Sbjct:   109 IGNVYVQFKEEDQAAAALQALQGRFYSGRPIIADFSPVTDFREATCRQYEENNCNRGGYC 168

Query:    63 NFMHLKRIS 71
             NFMH+K +S
Sbjct:   169 NFMHVKLVS 177

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0048573 "photoperiodism, flowering" evidence=RCA;IMP

GO:0007067 "mitosis" evidence=RCA

TAIR|locus:2165447 U2AF35B [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 78/170 (45%), Positives = 90/170 (52%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             +GNVYV F+EE+ AA AL++L GRFY+GRPII DFSPVTDFREATCRQYEEN+CNRGGYC
Sbjct:   109 IGNVYVLFKEEDHAAAALQALQGRFYSGRPIIADFSPVTDFREATCRQYEENSCNRGGYC 168

Query:    63 NFMHLKRISXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXEDRSHSGHGRRYD--DRDKY 120
             NFMH+K+IS                                 R HS    R D  DRD++
Sbjct:   169 NFMHVKQISRELRRKLFGRYRRSYRRGSRSRSRSISPR--RKREHSRERERGDVRDRDRH 226

Query:   121 YEXXXXXXXXXXXXXXXXXXXXXXXXXXXXX---VREGSEERRAKIEQWN 167
                                               VREGSEERRA+IEQWN
Sbjct:   227 GNGKRSSDRSERHDRDGGGRRRHGSPKRSRSPRNVREGSEERRARIEQWN 276

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

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

GO:0005634 "nucleus" evidence=ISM;IEA;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0048573 "photoperiodism, flowering" evidence=IMP

GO:0009640 "photomorphogenesis" evidence=RCA

GO:0009793 "embryo development ending in seed dormancy" evidence=RCA

GO:0009845 "seed germination" evidence=RCA

GO:0009909 "regulation of flower development" evidence=RCA

GO:0009933 "meristem structural organization" evidence=RCA

GO:0010162 "seed dormancy process" evidence=RCA

GO:0010182 "sugar mediated signaling pathway" evidence=RCA

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=RCA

GO:0016567 "protein ubiquitination" evidence=RCA

GO:0019915 "lipid storage" evidence=RCA

GO:0050826 "response to freezing" evidence=RCA

GENEDB_PFALCIPARUM|PF11_0200 PF11_0200 "U2 snRNP auxiliary factor, small subunit, putative" [Plasmodium falciparum (taxid:5833)]

 Score = 246 (91.7 bits), Expect = 1.3e-25, Sum P(2) = 1.3e-25
 Identities = 38/68 (55%), Positives = 55/68 (80%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             +GNVY+++  E+ A +A+  L+GRFYAG+P+ ++++PVTDFREA CRQ+ E  C RGGYC
Sbjct:   110 IGNVYIKYTHEDYAEKAVNELNGRFYAGKPLQIEYTPVTDFREARCRQFVEGQCRRGGYC 169

Query:    63 NFMHLKRI 70
             NFMH+K +
Sbjct:   170 NFMHIKHV 177

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISS

GO:0005686 "U2 snRNP" evidence=ISS

UNIPROTKB|Q8IIH4 PF11_0200 "U2 snRNP auxiliary factor, small subunit, putative" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 246 (91.7 bits), Expect = 1.3e-25, Sum P(2) = 1.3e-25
 Identities = 38/68 (55%), Positives = 55/68 (80%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             +GNVY+++  E+ A +A+  L+GRFYAG+P+ ++++PVTDFREA CRQ+ E  C RGGYC
Sbjct:   110 IGNVYIKYTHEDYAEKAVNELNGRFYAGKPLQIEYTPVTDFREARCRQFVEGQCRRGGYC 169

Query:    63 NFMHLKRI 70
             NFMH+K +
Sbjct:   170 NFMHIKHV 177

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISS

GO:0005686 "U2 snRNP" evidence=ISS

DICTYBASE|DDB_G0285077 u2af1 "CCHC-type zinc finger-containing protein" [Dictyostelium discoideum (taxid:44689)]

 Score = 254 (94.5 bits), Expect = 1.3e-23, Sum P(2) = 1.3e-23
 Identities = 44/65 (67%), Positives = 54/65 (83%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV++++E+ A  ++K L GRFY GRPII +FSPVTDF EA CRQY+  TCNRGG+C
Sbjct:   111 VGNVYVKYQKEDDANESIKGLKGRFYDGRPIISEFSPVTDFTEARCRQYDIGTCNRGGFC 170

Query:    63 NFMHL 67
             NFMHL
Sbjct:   171 NFMHL 175

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005686 "U2 snRNP" evidence=ISS

GO:0000398 "mRNA splicing, via spliceosome" evidence=ISS

GO:0046872 "metal ion binding" evidence=IEA

UNIPROTKB|F1PU17 U2AF1L4 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 230 (86.0 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 41/69 (59%), Positives = 52/69 (75%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct:   110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query:    63 NFMHLKRIS 71
             NFMHL+ IS
Sbjct:   170 NFMHLRPIS 178

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|F1RM65 U2AF1L4 "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 230 (86.0 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 41/69 (59%), Positives = 52/69 (75%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct:   110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query:    63 NFMHLKRIS 71
             NFMHL+ IS
Sbjct:   170 NFMHLRPIS 178

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

MGI|MGI:2678374 U2af1l4 "U2 small nuclear RNA auxiliary factor 1-like 4" [Mus musculus (taxid:10090)]

 Score = 230 (86.0 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 41/69 (59%), Positives = 52/69 (75%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct:   110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query:    63 NFMHLKRIS 71
             NFMHL+ IS
Sbjct:   170 NFMHLRPIS 178

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0046872 "metal ion binding" evidence=IEA

RGD|1305600 U2af1l4 "U2 small nuclear RNA auxiliary factor 1-like 4" [Rattus norvegicus (taxid:10116)]

 Score = 230 (86.0 bits), Expect = 2.0e-21, Sum P(2) = 2.0e-21
 Identities = 41/69 (59%), Positives = 52/69 (75%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct:   110 VGNVYVKFRREEDAERAVAELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query:    63 NFMHLKRIS 71
             NFMHL+ IS
Sbjct:   170 NFMHLRPIS 178

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0016607 "nuclear speck" evidence=IEA

UNIPROTKB|Q3T127 U2AF1L4 "Splicing factor U2AF 26 kDa subunit" [Bos taurus (taxid:9913)]

 Score = 229 (85.7 bits), Expect = 2.5e-21, Sum P(2) = 2.5e-21
 Identities = 41/69 (59%), Positives = 52/69 (75%)

Query:     3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC 62
             VGNVYV+FR EE A RA+  L+ R++ G+ +  + SPVTDFRE+ CRQYE   C RGG+C
Sbjct:   110 VGNVYVKFRREEDAERAVVELNNRWFNGQAVHAELSPVTDFRESCCRQYEMGECTRGGFC 169

Query:    63 NFMHLKRIS 71
             NFMHL+ IS
Sbjct:   170 NFMHLRPIS 178

GO:0016607 "nuclear speck" evidence=IEA

GO:0008380 "RNA splicing" evidence=IEA

GO:0006397 "mRNA processing" evidence=IEA

GO:0005681 "spliceosomal complex" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

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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!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: fgenesh1_pm.C_scaffold_5000707 annotation not avaliable (277 aa) (Arabidopsis lyrata)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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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	216
cd12539	103	cd12539, RRM_U2AF35B, RNA recognition motif in spl	7e-20
cd12287	102	cd12287, RRM_U2AF35_like, RNA recognition motif in	1e-12
cd12540	105	cd12540, RRM_U2AFBPL, RNA recognition motif in U2	4e-09
cd12538	104	cd12538, RRM_U2AF35, RNA recognition motif in U2 s	2e-08
cd12285	85	cd12285, RRM3_RBM39_like, RNA recognition motif 3	2e-07
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	6e-07
cd12232	89	cd12232, RRM3_U2AF65, RNA recognition motif 3 foun	7e-07
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	5e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	5e-05
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	5e-05
cd12374	85	cd12374, RRM_UHM_SPF45_PUF60, RNA recognition moti	1e-04
smart00361	70	smart00361, RRM_1, RNA recognition motif	2e-04
cd12647	96	cd12647, RRM_UHM_SPF45, RNA recognition motif in U	3e-04
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	7e-04
smart00360	73	smart00360, RRM, RNA recognition motif	7e-04
TIGR01642	509	TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, la	0.002
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	0.002
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	0.003

>gnl|CDD|240983 cd12539, RRM_U2AF35B, RNA recognition motif in splicing factor U2AF 35 kDa subunit B (U2AF35B)

 Score = 80.5 bits (199), Expect = 7e-20
 Identities = 29/37 (78%), Positives = 33/37 (89%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           VGNVYV+FR+EE AA ALK+L GRFY GRPIIV+FSP
Sbjct: 67  VGNVYVKFRDEEHAAAALKALQGRFYDGRPIIVEFSP 103

This subgroup corresponds to the RRM of U2AF35B, also termed zinc finger CCCH domain-containing protein 60 (C3H60), which is one of the small subunits of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF). It has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. Members in this family are mainly found in plant. They show high sequence homology to vertebrates U2AF35 that directly binds to the 3' splice site of the conserved AG dinucleotide and performs multiple functions in the splicing process in a substrate-specific manner. U2AF35B contains two N-terminal zinc fingers, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal arginine/serine (SR)-rich domain. In contrast to U2AF35, U2AF35B has a plant-specific conserved C-terminal region containing SERE motif(s), which may have an important function specific to higher plants. . Length = 103

>gnl|CDD|240733 cd12287, RRM_U2AF35_like, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35) and similar proteins

 Score = 61.5 bits (150), Expect = 1e-12
 Identities = 21/36 (58%), Positives = 28/36 (77%)

Query: 4   GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           GNVYV+F  EE A  AL++L+GR+YAGRP+  + SP
Sbjct: 67  GNVYVKFETEEDAEAALQALNGRYYAGRPLYPELSP 102

This subfamily corresponds to the RRM in U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF) which has been implicated in the recruitment of U2 snRNP to pre-mRNAs. It is a highly conserved heterodimer composed of large and small subunits; this family includes the small subunit of U2AF (U2AF35 or U2AF1) and U2AF 35 kDa subunit B (U2AF35B or C3H60). U2AF35 directly binds to the 3' splice site of the conserved AG dinucleotide and performs multiple functions in the splicing process in a substrate-specific manner. It promotes U2 snRNP binding to the branch-point sequences of introns through association with the large subunit of U2AF (U2AF65 or U2AF2). Although the biological role of U2AF35B remains unclear, it shows high sequence homolgy to U2AF35, which contains two N-terminal zinc fingers, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal arginine/serine (SR) -rich segment interrupted by glycines. In contrast to U2AF35, U2AF35B has a plant-specific conserved C-terminal region containing SERE motif(s), which may have an important function specific to higher plants. . Length = 102

>gnl|CDD|240984 cd12540, RRM_U2AFBPL, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 1 (U2AFBPL) and similar proteins

 Score = 51.9 bits (125), Expect = 4e-09
 Identities = 19/36 (52%), Positives = 27/36 (75%)

Query: 4   GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           GNVYVQ++ EE+A  A K  +GR+YAG+ +  +FSP
Sbjct: 70  GNVYVQYQSEEEALAAFKMFNGRWYAGKQLTCEFSP 105

This subgroup corresponds to the RRM of U2AFBPL, a human homolog of the imprinted mouse gene U2afbp-rs, which encodes a U2 small nuclear ribonucleoprotein auxiliary factor 35 kDa subunit-related protein 1 (U2AFBPL), also termed CCCH type zinc finger, RNA-binding motif and serine/arginine rich protein 1 (U2AF1RS1), or U2 small nuclear RNA auxiliary factor 1-like 1 (U2AF1L1). Although the biological role of U2AFBPL remains unclear, it shows high sequence homology to splicing factor U2AF 35 kDa subunit (U2AF35 or U2AF1) that directly binds to the 3' splice site of the conserved AG dinucleotide and performs multiple functions in the splicing process in a substrate-specific manner. Like U2AF35, U2AFBPL contains two N-terminal zinc fingers, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal arginine/serine (SR)-rich domain. . Length = 105

>gnl|CDD|240982 cd12538, RRM_U2AF35, RNA recognition motif in U2 small nuclear ribonucleoprotein auxiliary factor U2AF 35 kDa subunit (U2AF35)

 Score = 50.0 bits (120), Expect = 2e-08
 Identities = 19/37 (51%), Positives = 27/37 (72%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SP
Sbjct: 68  VGNVYVKFRREEDAEKAVNDLNNRWFNGQPIYAELSP 104

This subgroup corresponds to the RRM of U2AF35, also termed U2AF1, which is one of the small subunits of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF). It has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF35 directly binds to the 3' splice site of the conserved AG dinucleotide and performs multiple functions in the splicing process in a substrate-specific manner. It promotes U2 snRNP binding to the branch-point sequences of introns through association with the large subunit of U2AF, U2AF65 (also termed U2AF2). U2AF35 contains two N-terminal zinc fingers, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal arginine/serine (SR)-rich segment interrupted by glycines. U2AF35 binds both U2AF65 and the pre-mRNA through its RRM domain. . Length = 104

>gnl|CDD|240731 cd12285, RRM3_RBM39_like, RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins

 Score = 46.8 bits (112), Expect = 2e-07
 Identities = 13/36 (36%), Positives = 24/36 (66%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
          G VYV+F+  E A + +++L+GR++ GR I  ++  
Sbjct: 50 GVVYVKFKTVEAAQKCIQALNGRWFDGRQITAEYVD 85

This subfamily corresponds to the RRM3 of RBM39, also termed hepatocellular carcinoma protein 1, or RNA-binding region-containing protein 2, or splicing factor HCC1, ia 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|233503 TIGR01642, U2AF_lg, U2 snRNP auxilliary factor, large subunit, splicing factor

 Score = 48.7 bits (116), Expect = 6e-07
 Identities = 24/96 (25%), Positives = 29/96 (30%), Gaps = 3/96 (3%)

Query: 68  KRISRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYESRSRR 127
               R+  R           R RSR RS +R R    R  S    R D R +       R
Sbjct: 5   PDREREKSRGRDRDRSSERPRRRSRDRSRFRDRHRRSRERS---YREDSRPRDRRRYDSR 61

Query: 128 HRSTSPSHRRGRSRSPGGRRYHSPVREGSEERRAKI 163
              +       RSR    RR  S        RR + 
Sbjct: 62  SPRSLRYSSVRRSRDRPRRRSRSVRSIEQHRRRLRD 97

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

>gnl|CDD|240678 cd12232, RRM3_U2AF65, RNA recognition motif 3 found in U2 large nuclear ribonucleoprotein auxiliary factor U2AF 65 kDa subunit (U2AF65) and similar proteins

 Score = 45.6 bits (109), Expect = 7e-07
 Identities = 13/34 (38%), Positives = 22/34 (64%)

Query: 2  QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIV 35
           VG V+V+F + E A +A  +L+GR + GR ++ 
Sbjct: 55 GVGKVFVEFADVEDAQKAQLALAGRKFDGRTVVA 88

This subfamily corresponds to the RRM3 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 = 89

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

 Score = 43.0 bits (101), Expect = 5e-05
 Identities = 22/73 (30%), Positives = 24/73 (32%), Gaps = 6/73 (8%)

Query: 71  SRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYESRSRRHRS 130
            RD  R+   R  R  SR R R R   R       S     R    R         +HR 
Sbjct: 34  FRDRHRRSRERSYREDSRPRDRRRYDSRSPRSLRYSSVRRSRDRPRRRSRSVRSIEQHR- 92

Query: 131 TSPSHRRGRSRSP 143
                RR R RSP
Sbjct: 93  -----RRLRDRSP 100

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

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

 Score = 40.0 bits (94), Expect = 5e-05
 Identities = 12/33 (36%), Positives = 20/33 (60%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVD 36
          G  +V+F   E A +AL++L+G+   GR + V 
Sbjct: 40 GFAFVEFESPEDAEKALEALNGKELDGRKLKVS 72

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

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

 Score = 39.4 bits (93), Expect = 5e-05
 Identities = 15/35 (42%), Positives = 24/35 (68%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G  +V+F  EE A +A++ L+G  + GRP+ VD+S
Sbjct: 22 GFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDYS 56

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

>gnl|CDD|240820 cd12374, RRM_UHM_SPF45_PUF60, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 39.1 bits (92), Expect = 1e-04
 Identities = 11/34 (32%), Positives = 24/34 (70%)

Query: 6  VYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
          ++V+F + ++A +A+++L+GRF+ GR +   F  
Sbjct: 52 IFVEFSDADEAIKAVRALNGRFFGGRKVTARFYD 85

This subfamily corresponds to the RRM found in UHM domain of 45 kDa-splicing factor (SPF45 or RBM17), poly(U)-binding-splicing factor PUF60 (FIR or Hfp or RoBP1 or Siah-BP1), and similar proteins. SPF45 is an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. PUF60 is an essential splicing factor that functions as a poly-U RNA-binding protein required to reconstitute splicing in depleted nuclear extracts. Its function is enhanced through interaction with U2 auxiliary factor U2AF65. PUF60 also controls human c-myc gene expression by binding and inhibiting the transcription factor far upstream sequence element (FUSE)-binding-protein (FBP), an activator of c-myc promoters. PUF60 contains two central RRMs and a C-terminal UHM domain. . Length = 85

>gnl|CDD|214637 smart00361, RRM_1, RNA recognition motif

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 15/33 (45%), Positives = 22/33 (66%)

Query: 1  MQVGNVYVQFREEEQAARALKSLSGRFYAGRPI 33
           + GNVY+ F   E AARA+  L+GR++ GR +
Sbjct: 35 HKRGNVYITFERSEDAARAIVDLNGRYFDGRLV 67

Length = 70

>gnl|CDD|241091 cd12647, RRM_UHM_SPF45, RNA recognition motif in UHM domain of 45 kDa-splicing factor (SPF45) and similar proteins

 Score = 38.4 bits (90), Expect = 3e-04
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 6  VYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR 44
          ++V+F   E A +A+  L+GRF+ GR +   F     FR
Sbjct: 54 IFVEFERVESAIKAVVDLNGRFFGGRTVKASFYDEERFR 92

This subgroup corresponds to the RRM of SPF45, also termed RNA-binding motif protein 17 (RBM17), an RNA-binding protein consisting of an unstructured N-terminal region, followed by a G-patch motif and a C-terminal U2AF (U2 auxiliary factor) homology motifs (UHM) that harbors a RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain) and an Arg-Xaa-Phe sequence motif. SPF45 regulates alternative splicing of the apoptosis regulatory gene FAS (also known as CD95). It induces exon 6 skipping in FAS pre-mRNA through the UHM domain that binds to tryptophan-containing linear peptide motifs (UHM ligand motifs, ULMs) present in the 3' splice site-recognizing factors U2AF65, SF1 and SF3b155. . Length = 96

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

 Score = 39.9 bits (93), Expect = 7e-04
 Identities = 20/77 (25%), Positives = 22/77 (28%), Gaps = 4/77 (5%)

Query: 84  RRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYY--ESRSRRHRSTSPSHRRGRSR 141
           R   R+ +R     R RS          RR  DRD Y     RSR          RG   
Sbjct: 7   RGRLRNDTRRSDKGRERSRRRSRSRDRSRRRRDRDYYRGRRGRSRSRSPNRYYRPRGDRS 66

Query: 142 SPGGRRYHSPVREGSEE 158
                R     R   E 
Sbjct: 67  YRRDDR--RSGRNTKEP 81

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|214636 smart00360, RRM, RNA recognition motif

 Score = 36.8 bits (86), Expect = 7e-04
 Identities = 14/32 (43%), Positives = 22/32 (68%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIV 35
          G  +V+F  EE A +AL++L+G+   GRP+ V
Sbjct: 42 GFAFVEFESEEDAEKALEALNGKELDGRPLKV 73

Length = 73

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

 Score = 38.7 bits (90), Expect = 0.002
 Identities = 27/103 (26%), Positives = 35/103 (33%), Gaps = 7/103 (6%)

Query: 71  SRDLRRQLFGRYRRRHSRSRSRSRSPYRHRSHEDRSHSGHGRRYDDRDKYYESRSRRHRS 130
            RD   +   R  R  SR R R R        ED S     RRYD R       S   RS
Sbjct: 16  DRDRSSERPRRRSRDRSRFRDRHRRSRERSYRED-SRPRDRRRYDSRSPRSLRYSSVRRS 74

Query: 131 TSPSHRRGRSRSPGGRRYH-----SPVREGSEERRAKIEQWNR 168
                RR RS     +        SP  +  ++ + +   W+ 
Sbjct: 75  RDRPRRRSRSVRSIEQHRRRLRDRSPSNQWRKDDKKRS-LWDI 116

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

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

 Score = 38.3 bits (89), Expect = 0.002
 Identities = 26/87 (29%), Positives = 33/87 (37%), Gaps = 3/87 (3%)

Query: 90  RSRSRSPYRHRSHEDRSHSG-HGRRYDDRDKYYESRSRRHRSTSPSHRRGRSRSPGGRRY 148
           R R R   R R+   RS  G    R   R +  +   RR        RRGRSRS    RY
Sbjct: 1   RYRDRERGRLRNDTRRSDKGRERSR--RRSRSRDRSRRRRDRDYYRGRRGRSRSRSPNRY 58

Query: 149 HSPVREGSEERRAKIEQWNREREQQEE 175
           + P  + S  R  +    N +    E 
Sbjct: 59  YRPRGDRSYRRDDRRSGRNTKEPLTEA 85

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

 Score = 35.3 bits (82), Expect = 0.003
 Identities = 15/35 (42%), Positives = 19/35 (54%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G  YV F  EE A RAL+      + GR I V+F+
Sbjct: 42 GFGYVTFALEEDAKRALEEKKKTKFGGRKIHVEFA 76

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	216
KOG2202	260	consensus U2 snRNP splicing factor, small subunit,	100.0
KOG0147	549	consensus Transcriptional coactivator CAPER (RRM s	98.98
smart00361	70	RRM_1 RNA recognition motif.	98.83
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.65
KOG1548	382	consensus Transcription elongation factor TAT-SF1	98.47
KOG0107	195	consensus Alternative splicing factor SRp20/9G8 (R	98.07
smart00360	71	RRM RNA recognition motif.	97.58
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	97.56
smart00362	72	RRM_2 RNA recognition motif.	97.53
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	97.51
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	97.49
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	97.47
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	97.47
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	97.41
smart00356	27	ZnF_C3H1 zinc finger.	97.23
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	97.1
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	97.01
KOG4207	256	consensus Predicted splicing factor, SR protein su	97.0
PF00642	27	zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and si	96.92
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	96.88
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	96.76
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	96.65
COG0724	306	RNA-binding proteins (RRM domain) [General functio	96.49
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	96.43
COG5175	480	MOT2 Transcriptional repressor [Transcription]	96.4
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	96.22
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	95.96
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	95.74
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	95.74
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	95.56
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	95.51
PLN03120	260	nucleic acid binding protein; Provisional	95.4
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	95.36
KOG0127	678	consensus Nucleolar protein fibrillarin NOP77 (RRM	95.18
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	95.1
KOG0108	435	consensus mRNA cleavage and polyadenylation factor	94.99
KOG4208	214	consensus Nucleolar RNA-binding protein NIFK [Gene	94.89
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	94.63
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	94.5
KOG0114	124	consensus Predicted RNA-binding protein (RRM super	94.27
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	94.04
KOG4206	221	consensus Spliceosomal protein snRNP-U1A/U2B [RNA	93.38
KOG0109	346	consensus RNA-binding protein LARK, contains RRM a	93.33
KOG4660	549	consensus Protein Mei2, essential for commitment t	92.75
KOG0111	298	consensus Cyclophilin-type peptidyl-prolyl cis-tra	92.66
KOG0121	153	consensus Nuclear cap-binding protein complex, sub	92.53
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	91.52
PLN03121	243	nucleic acid binding protein; Provisional	91.51
KOG0148	321	consensus Apoptosis-promoting RNA-binding protein	91.44
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	91.3
KOG0415	479	consensus Predicted peptidyl prolyl cis-trans isom	91.12
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	90.96
KOG0105	241	consensus Alternative splicing factor ASF/SF2 (RRM	90.62
KOG0123	369	consensus Polyadenylate-binding protein (RRM super	90.14
KOG0130	170	consensus RNA-binding protein RBM8/Tsunagi (RRM su	89.39
PLN03213	759	repressor of silencing 3; Provisional	88.94
KOG0110	725	consensus RNA-binding protein (RRM superfamily) [G	88.77
KOG0124	544	consensus Polypyrimidine tract-binding protein PUF	87.37
KOG0117	506	consensus Heterogeneous nuclear ribonucleoprotein	86.65
KOG2068	327	consensus MOT2 transcription factor [Transcription	86.47
KOG2494	331	consensus C3H1-type Zn-finger protein [Transcripti	85.96
KOG1040	325	consensus Polyadenylation factor I complex, subuni	85.8
KOG4209	231	consensus Splicing factor RNPS1, SR protein superf	85.32
KOG0125	376	consensus Ataxin 2-binding protein (RRM superfamil	85.14
KOG0106	216	consensus Alternative splicing factor SRp55/B52/SR	84.83
KOG0131	203	consensus Splicing factor 3b, subunit 4 [RNA proce	84.57
KOG0145	360	consensus RNA-binding protein ELAV/HU (RRM superfa	83.51
KOG4212	608	consensus RNA-binding protein hnRNP-M [RNA process	82.75
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	80.04

>KOG2202 consensus U2 snRNP splicing factor, small subunit, and related proteins [RNA processing and modification]

Probab=100.00  E-value=5.7e-35  Score=259.02  Aligned_cols=95  Identities=61%  Similarity=1.091  Sum_probs=87.8

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceecccccCcCCCCCCCCcccccCCCHHHHHHHHh
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFG   80 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~Lf~   80 (216)
                      ||+|||||+|..+++|++|++.||+|||+|+||+|||+|||+|+||||+||+.+.|++|++|||||++.++++|.+.|+.
T Consensus       108 hl~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~~pvT~~rea~C~~~e~~~C~rG~~CnFmH~k~~sr~L~r~l~~  187 (260)
T KOG2202|consen  108 HLVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAELSPVTDFREAICGQFERTECSRGGACNFMHVKRLSRSLRRELYG  187 (260)
T ss_pred             hhhhhhhhhcccHHHHHHHHHHHcCccccCCcceeeecCcCchhhhhhcccccccCCCCCcCcchhhhhhhHHHHHHhhh
Confidence            89999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhccC-CCCCCCCCC
Q 027939           81 RYRRRH-SRSRSRSRS   95 (216)
Q Consensus        81 ~~~~~~-~~~~~~s~s   95 (216)
                      .+.+.+ .++++++++
T Consensus       188 ~~~~~~~~~sra~~~~  203 (260)
T KOG2202|consen  188 RQRKRYPRRSRARARE  203 (260)
T ss_pred             hhhccccccccccccc
Confidence            976655 444444443

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

Probab=98.98  E-value=2.8e-10  Score=110.26  Aligned_cols=42  Identities=38%  Similarity=0.722  Sum_probs=40.5

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      |+|||+|.++++|..|+++||||||+||.|+|.|.|+++|..
T Consensus       491 g~VYvrc~s~~~A~~a~~alhgrWF~gr~Ita~~~~~~~Y~~  532 (549)
T KOG0147|consen  491 GCVYVRCPSAEAAGTAVKALHGRWFAGRMITAKYLPLERYHS  532 (549)
T ss_pred             ceEEEecCcHHHHHHHHHHHhhhhhccceeEEEEeehhhhhh
Confidence            999999999999999999999999999999999999999853

>smart00361 RRM_1 RNA recognition motif

Probab=98.83  E-value=4.5e-09  Score=74.56  Aligned_cols=36  Identities=42%  Similarity=0.835  Sum_probs=33.9

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      |+.|++||.|.++++|.+|++.|||+||+|++|.|+
T Consensus        35 ~~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361       35 HKRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             CCcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            568999999999999999999999999999999874

>PF13893 RRM_5: RNA recognition motif

Probab=98.65  E-value=5.4e-08  Score=65.55  Aligned_cols=35  Identities=37%  Similarity=0.787  Sum_probs=33.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      |.+||+|.+.++|..|++.|||.+|.|++|.++|+
T Consensus        22 ~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~a   56 (56)
T PF13893_consen   22 GFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSYA   56 (56)
T ss_dssp             TEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            88999999999999999999999999999999985

(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 ....

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

Probab=98.47  E-value=1.6e-07  Score=87.83  Aligned_cols=46  Identities=28%  Similarity=0.555  Sum_probs=42.1

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cCCCcccc
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTDFREA   46 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PVtdF~eA   46 (216)
                      |..|.|-|.|.+.++|+.||+.|+||||+||+|+|+++ .-|.|...
T Consensus       312 hPdGvvtV~f~n~eeA~~ciq~m~GR~fdgRql~A~i~DG~t~~~~e  358 (382)
T KOG1548|consen  312 HPDGVVTVSFRNNEEADQCIQTMDGRWFDGRQLTASIWDGKTKFQTE  358 (382)
T ss_pred             CCCceeEEEeCChHHHHHHHHHhcCeeecceEEEEEEeCCcceeeee
Confidence            78899999999999999999999999999999999998 66777544

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

Probab=98.07  E-value=2.8e-05  Score=67.65  Aligned_cols=38  Identities=29%  Similarity=0.496  Sum_probs=36.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|+.||+|++..+|++|+..|+|+-|+|..|.|||+.
T Consensus        46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE~S~   83 (195)
T KOG0107|consen   46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVELST   83 (195)
T ss_pred             CCCceEEeccCcccHHHHHhhcCCccccCceEEEEeec
Confidence            46999999999999999999999999999999999986

>smart00360 RRM RNA recognition motif

Probab=97.58  E-value=0.00011  Score=47.34  Aligned_cols=34  Identities=41%  Similarity=0.736  Sum_probs=31.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      .|.+||+|.+.++|..|++.|++..|.|+.|.++
T Consensus        38 ~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360       38 KGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            5899999999999999999999999999999863

>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=97.56  E-value=0.00017  Score=46.97  Aligned_cols=35  Identities=43%  Similarity=0.831  Sum_probs=33.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|.+||.|.+.++|..|++.|++.+|.|+.|.+.+
T Consensus        40 ~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~~   74 (74)
T cd00590          40 KGFAFVEFEDEEDAEKALEALNGKELGGRPLRVEF   74 (74)
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEeC
Confidence            68999999999999999999999999999998864

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).

>smart00362 RRM_2 RNA recognition motif

Probab=97.53  E-value=0.00016  Score=46.82  Aligned_cols=35  Identities=37%  Similarity=0.710  Sum_probs=32.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      ..|.+||.|.+.++|+.|++.|+|..|.|++|.++
T Consensus        38 ~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362       38 SKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            35899999999999999999999999999999863

>PF14259 RRM_6: RNA recognition motif (a

Probab=97.51  E-value=0.00015  Score=49.73  Aligned_cols=32  Identities=41%  Similarity=0.620  Sum_probs=30.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPII   34 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~   34 (216)
                      .|.+||+|.++++|..|++.++|.+|.|+.|.
T Consensus        39 ~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen   39 RGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             CCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            58999999999999999999999999999984

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 ....

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=97.49  E-value=0.0003  Score=61.67  Aligned_cols=36  Identities=28%  Similarity=0.499  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++||..|||.++.|++|.+++.
T Consensus        45 ~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a   80 (352)
T TIGR01661        45 LGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYA   80 (352)
T ss_pred             ceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEee
Confidence            589999999999999999999999999999999986

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

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

Probab=97.47  E-value=0.00019  Score=58.27  Aligned_cols=37  Identities=30%  Similarity=0.462  Sum_probs=34.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|++|++.|||..++|++|.+++.
T Consensus        75 ~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         75 SRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            3699999999999999999999999999999999874

>PF00076 RRM_1: RNA recognition motif

Probab=97.47  E-value=0.00018  Score=48.18  Aligned_cols=33  Identities=39%  Similarity=0.655  Sum_probs=30.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeE
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPII   34 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~   34 (216)
                      ..|.+||+|.+.++|++|++.|+|--++|++|.
T Consensus        38 ~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen   38 SKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             ccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            358899999999999999999999999999984

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=97.41  E-value=0.00037  Score=64.28  Aligned_cols=36  Identities=28%  Similarity=0.543  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++||+.|||..+.+++|.+++.
T Consensus       149 rGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a  184 (346)
T TIGR01659       149 FGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYA  184 (346)
T ss_pred             CcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecc
Confidence            489999999999999999999999999999999985

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).

>smart00356 ZnF_C3H1 zinc finger

Probab=97.23  E-value=0.00021  Score=42.01  Aligned_cols=26  Identities=23%  Similarity=0.732  Sum_probs=23.3

Q ss_pred             cccceecccccCcCCCCCCCCccccc
Q 027939           43 FREATCRQYEENTCNRGGYCNFMHLK   68 (216)
Q Consensus        43 F~eA~Crq~~~g~C~RGg~CNFmHvk   68 (216)
                      +++.+|..|..|.|.+|..|.|+|..
T Consensus         2 ~k~~~C~~~~~g~C~~g~~C~~~H~~   27 (27)
T smart00356        2 YKTELCKFFKRGYCPYGDRCKFAHPL   27 (27)
T ss_pred             CCCCcCcCccCCCCCCCCCcCCCCcC
Confidence            56779999999999999999999963

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

Probab=97.10  E-value=0.00061  Score=64.53  Aligned_cols=36  Identities=33%  Similarity=0.642  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|++||.|.++++|.+|+..|||.+|+|++|.|.+.
T Consensus       326 ~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a  361 (562)
T TIGR01628       326 RGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALA  361 (562)
T ss_pred             CCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEec
Confidence            589999999999999999999999999999999985

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

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

Probab=97.01  E-value=0.0017  Score=65.56  Aligned_cols=74  Identities=23%  Similarity=0.349  Sum_probs=61.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceecccccCcCCCCCCCCcccccCCCHHH----HHHH
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDL----RRQL   78 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L----~~~L   78 (216)
                      .|++||+|.++++|..|+++|+|--.+|..|.+.+++  .=..++-+    -+|+.-..|+=|||+.+|-+.    .++|
T Consensus       560 mGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~--~k~~~~~g----K~~~~kk~~tKIlVRNipFeAt~rEVr~L  633 (725)
T KOG0110|consen  560 MGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISE--NKPASTVG----KKKSKKKKGTKILVRNIPFEATKREVRKL  633 (725)
T ss_pred             cceeEEEecCHHHHHHHHHHhcCceecCceEEEEecc--Cccccccc----cccccccccceeeeeccchHHHHHHHHHH
Confidence            3999999999999999999999999999999999999  22222222    578888889999999998654    5577


Q ss_pred             Hhhh
Q 027939           79 FGRY   82 (216)
Q Consensus        79 f~~~   82 (216)
                      |..|
T Consensus       634 F~aF  637 (725)
T KOG0110|consen  634 FTAF  637 (725)
T ss_pred             Hhcc
Confidence            7775

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

Probab=97.00  E-value=0.0037  Score=56.28  Aligned_cols=36  Identities=28%  Similarity=0.573  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|+.||.|.+..+|++|+.+|.|+-.+|+-|.|+|.
T Consensus        55 RgFaFVrf~~k~daedA~damDG~~ldgRelrVq~a   90 (256)
T KOG4207|consen   55 RGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMA   90 (256)
T ss_pred             cceeEEEeeecchHHHHHHhhcceeeccceeeehhh
Confidence            699999999999999999999999999999988774

>PF00642 zf-CCCH: Zinc finger C-x8-C-x5-C-x3-H type (and similar); InterPro: IPR000571 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule

Probab=96.92  E-value=0.00022  Score=43.61  Aligned_cols=25  Identities=32%  Similarity=0.769  Sum_probs=19.4

Q ss_pred             cccceeccccc-CcCCCCCCCCcccc
Q 027939           43 FREATCRQYEE-NTCNRGGYCNFMHL   67 (216)
Q Consensus        43 F~eA~Crq~~~-g~C~RGg~CNFmHv   67 (216)
                      |+..+|..|.. |.|+.|..|+|+|.
T Consensus         1 ~k~~~C~~f~~~g~C~~G~~C~f~H~   26 (27)
T PF00642_consen    1 YKTKLCRFFMRTGTCPFGDKCRFAHG   26 (27)
T ss_dssp             TTSSB-HHHHHTS--TTGGGSSSBSS
T ss_pred             CccccChhhccCCccCCCCCcCccCC
Confidence            56789998876 99999999999996

Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents C-x8-C-x5-C-x3-H (CCCH) type Zinc finger (Znf) domains. Proteins containing CCCH Znf domains include Znf proteins from eukaryotes involved in cell cycle or growth phase-related regulation, e.g. human TIS11B (butyrate response factor 1), a probable regulatory protein involved in regulating the response to growth factors, and the mouse TTP growth factor-inducible nuclear protein, which has the same function. The mouse TTP protein is induced by growth factors. Another protein containing this domain is the human splicing factor U2AF 35kDa subunit, which plays a critical role in both constitutive and enhancer-dependent splicing by mediating essential protein-protein interactions and protein-RNA interactions required for 3' splice site selection. It has been shown that different CCCH-type Znf proteins interact with the 3'-untranslated region of various mRNA [, ]. This type of Znf is very often present in two copies. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003676 nucleic acid binding, 0008270 zinc ion binding; PDB: 1M9O_A 1RGO_A 2CQE_A 2FC6_A 2D9M_A 2E5S_A 2RHK_C 2D9N_A 3D2S_A 3D2Q_C ....

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

Probab=96.88  E-value=0.0033  Score=57.50  Aligned_cols=37  Identities=43%  Similarity=0.703  Sum_probs=33.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV   40 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPV   40 (216)
                      .|..||+|.++++|.+||. |+|..|.|++|.+.++..
T Consensus       131 kg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~  167 (457)
T TIGR01622       131 KGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQA  167 (457)
T ss_pred             ceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecch
Confidence            5899999999999999996 999999999999998653

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

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

Probab=96.76  E-value=0.0058  Score=57.74  Aligned_cols=37  Identities=27%  Similarity=0.286  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|+.|+..|||.-+.|++|.++++.
T Consensus       313 ~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~  349 (481)
T TIGR01649       313 KETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSK  349 (481)
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence            4899999999999999999999999999999999973

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

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

Probab=96.65  E-value=0.0027  Score=62.84  Aligned_cols=37  Identities=27%  Similarity=0.494  Sum_probs=35.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      +.|+.||.|.+.++|++|++.|||..|.|++|.|++.
T Consensus       268 ~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A  304 (578)
T TIGR01648       268 IRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA  304 (578)
T ss_pred             ecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            4689999999999999999999999999999999997

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.

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

Probab=96.49  E-value=0.0041  Score=48.67  Aligned_cols=38  Identities=34%  Similarity=0.616  Sum_probs=35.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|..|+..|+|-+|.|++|.+.+..
T Consensus       156 ~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         156 SRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             cCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            46999999999999999999999999999999999964

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

Probab=96.43  E-value=0.0042  Score=56.85  Aligned_cols=37  Identities=38%  Similarity=0.630  Sum_probs=34.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.+.++|.+|++.|||-.+.|++|.+.|.-
T Consensus       228 ~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~a~  264 (457)
T TIGR01622       228 KGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGYAQ  264 (457)
T ss_pred             ceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEEcc
Confidence            5899999999999999999999999999999999953

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.

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=96.40  E-value=0.003  Score=60.25  Aligned_cols=62  Identities=27%  Similarity=0.660  Sum_probs=52.7

Q ss_pred             EEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceecccccC-cCCCCCCCCcccccCCCHH
Q 027939            6 VYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEEN-TCNRGGYCNFMHLKRISRD   73 (216)
Q Consensus         6 VYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~g-~C~RGg~CNFmHvk~~sr~   73 (216)
                      |||.|.+.|+|+.||.++.|-+.+||.|.|.|-- |.|    |..|..+ .|+- ..|=|||--.+-.+
T Consensus       168 vYITy~~kedAarcIa~vDgs~~DGr~lkatYGT-TKY----CtsYLRn~~CpN-p~CMyLHEpg~e~D  230 (480)
T COG5175         168 VYITYSTKEDAARCIAEVDGSLLDGRVLKATYGT-TKY----CTSYLRNAVCPN-PDCMYLHEPGPEKD  230 (480)
T ss_pred             EEEEecchHHHHHHHHHhccccccCceEeeecCc-hHH----HHHHHcCCCCCC-CCeeeecCCCcccc
Confidence            7999999999999999999999999999999965 554    8888776 5775 57999997666543

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

Probab=96.22  E-value=0.0067  Score=56.16  Aligned_cols=36  Identities=14%  Similarity=0.318  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.+.++|..|+..|||-.+.|+.|.+++.
T Consensus       337 ~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a  372 (509)
T TIGR01642       337 KGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA  372 (509)
T ss_pred             CeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            589999999999999999999999999999999985

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=95.96  E-value=0.011  Score=54.59  Aligned_cols=37  Identities=27%  Similarity=0.546  Sum_probs=32.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfsP   39 (216)
                      .|..||+|.+.++|++||+.||+..+.|  ++|.|.|.-
T Consensus       235 kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~~a~  273 (346)
T TIGR01659       235 RGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVRLAE  273 (346)
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEECC
Confidence            4899999999999999999999999877  688877754

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).

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

Probab=95.74  E-value=0.013  Score=55.63  Aligned_cols=37  Identities=32%  Similarity=0.580  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|+..||+-.+.|++|.+.++.
T Consensus        42 ~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~   78 (562)
T TIGR01628        42 LGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQ   78 (562)
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeeccc
Confidence            4899999999999999999999999999999998863

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

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

Probab=95.74  E-value=0.012  Score=55.01  Aligned_cols=36  Identities=36%  Similarity=0.617  Sum_probs=33.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|. ||+|+++++|.+|+..|||..+.|++|.|..-.
T Consensus       116 kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~  151 (369)
T KOG0123|consen  116 KGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFE  151 (369)
T ss_pred             eee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeecc
Confidence            577 999999999999999999999999999997654

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

Probab=95.56  E-value=0.012  Score=54.53  Aligned_cols=35  Identities=26%  Similarity=0.556  Sum_probs=32.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|--||-|...++|+.||..|||.|.++|.|....
T Consensus       104 KGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNW  138 (321)
T KOG0148|consen  104 KGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNW  138 (321)
T ss_pred             cceeEEeccchHHHHHHHHHhCCeeeccceeeccc
Confidence            47889999999999999999999999999998544

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=95.51  E-value=0.025  Score=49.67  Aligned_cols=36  Identities=36%  Similarity=0.700  Sum_probs=32.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfs   38 (216)
                      .|..||+|.+.++|+.|++.|||..+.|  .+|.+.+.
T Consensus       131 ~g~~fv~f~~~~~A~~ai~~l~g~~~~g~~~~i~v~~a  168 (352)
T TIGR01661       131 KGVGFIRFDKRDEADRAIKTLNGTTPSGCTEPITVKFA  168 (352)
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEEEC
Confidence            5899999999999999999999999988  67777775

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

>PLN03120 nucleic acid binding protein; Provisional

Probab=95.40  E-value=0.022  Score=51.78  Aligned_cols=36  Identities=25%  Similarity=0.366  Sum_probs=33.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|+.||.|.++++|+.|+. |||..+.|++|.++..+
T Consensus        43 ~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~   78 (260)
T PLN03120         43 SQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE   78 (260)
T ss_pred             CCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence            4899999999999999995 99999999999999875

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

Probab=95.36  E-value=0.023  Score=53.78  Aligned_cols=37  Identities=22%  Similarity=0.412  Sum_probs=33.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHh--cCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL--SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L--NGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++.|  |+-.+.|++|.++|+.
T Consensus        38 k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~   76 (481)
T TIGR01649        38 KRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYST   76 (481)
T ss_pred             CCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecC
Confidence            378999999999999999974  7899999999999974

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=95.18  E-value=0.024  Score=56.70  Aligned_cols=45  Identities=31%  Similarity=0.619  Sum_probs=40.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe-ccCCCcccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF-SPVTDFREA   46 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf-sPVtdF~eA   46 (216)
                      |.|+.||+|....+|++|++.|||--++||+|-|.+ ++-..|..+
T Consensus       157 lcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDWAV~Kd~ye~t  202 (678)
T KOG0127|consen  157 LCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDWAVDKDTYEDT  202 (678)
T ss_pred             ccceEEEEEeeHHHHHHHHHhccCceecCceeEEeeeccccccccc
Confidence            679999999999999999999999999999999998 476677554

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

Probab=95.10  E-value=0.021  Score=57.06  Aligned_cols=36  Identities=31%  Similarity=0.502  Sum_probs=34.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      ..|..||.|.++++|..|++.|||..+.|+.|.+..
T Consensus       148 skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~r  183 (612)
T TIGR01645       148 HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR  183 (612)
T ss_pred             cCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecc
Confidence            369999999999999999999999999999999975

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.

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

Probab=94.99  E-value=0.026  Score=54.37  Aligned_cols=39  Identities=31%  Similarity=0.604  Sum_probs=36.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccC
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV   40 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPV   40 (216)
                      ..|+.|+.|.++++|+.|+..|||.-|.||+|.++|-.-
T Consensus        59 ~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   59 PKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYASN   97 (435)
T ss_pred             cCceeeEecCchhhHHHHHHhcCCcccCCceEEeecccc
Confidence            469999999999999999999999999999999998653

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

Probab=94.89  E-value=0.03  Score=49.86  Aligned_cols=39  Identities=21%  Similarity=0.314  Sum_probs=36.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVT   41 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVt   41 (216)
                      .|..||+|++++.|.-|...||+=.|-|+.|.|-|+|-.
T Consensus        92 KgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vmppe  130 (214)
T KOG4208|consen   92 KGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVMPPE  130 (214)
T ss_pred             CceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEeCch
Confidence            578999999999999999999999999999999999855

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

Probab=94.63  E-value=0.029  Score=51.95  Aligned_cols=33  Identities=21%  Similarity=0.364  Sum_probs=30.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      .|+.||.|.++++|..|| +|||-.|.|++|.+.
T Consensus       223 kg~afVeF~~~e~A~~Al-~l~g~~~~g~~l~v~  255 (509)
T TIGR01642       223 KNFAFLEFRTVEEATFAM-ALDSIIYSNVFLKIR  255 (509)
T ss_pred             CCEEEEEeCCHHHHhhhh-cCCCeEeeCceeEec
Confidence            489999999999999999 699999999999875

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

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

Probab=94.50  E-value=0.061  Score=53.47  Aligned_cols=35  Identities=31%  Similarity=0.352  Sum_probs=30.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccC-CeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYA-GRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYa-GR~I~aEf   37 (216)
                      .|+.||+|.++++|++||+.||+..+. |+.|.+..
T Consensus        99 RGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~  134 (578)
T TIGR01648        99 RGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCI  134 (578)
T ss_pred             cceEEEEeCCHHHHHHHHHHcCCCeecCCccccccc
Confidence            589999999999999999999999884 78776543

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.

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

Probab=94.27  E-value=0.056  Score=44.42  Aligned_cols=37  Identities=24%  Similarity=0.338  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||-|++..+|.+|+..|+|-.++++.|.|-|+.
T Consensus        57 rGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq   93 (124)
T KOG0114|consen   57 RGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ   93 (124)
T ss_pred             CceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence            5899999999999999999999999999999999874

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

Probab=94.04  E-value=0.076  Score=53.20  Aligned_cols=37  Identities=14%  Similarity=0.207  Sum_probs=34.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|+.||.|.+.++|.+|+..|||-.++|+.|.+...
T Consensus       245 sKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kA  281 (612)
T TIGR01645       245 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKC  281 (612)
T ss_pred             cCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEec
Confidence            3689999999999999999999999999999999874

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.

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

Probab=93.38  E-value=0.077  Score=47.44  Aligned_cols=37  Identities=32%  Similarity=0.676  Sum_probs=35.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      |+|-.+|-|.+++.|..|+.+|+|--|=|+++.+.|.
T Consensus        51 mRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriqyA   87 (221)
T KOG4206|consen   51 MRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQYA   87 (221)
T ss_pred             ccCceEEEecChhHHHHHHHHhcCCcccCchhheecc
Confidence            7899999999999999999999999999999999995

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

Probab=93.33  E-value=0.06  Score=50.51  Aligned_cols=37  Identities=24%  Similarity=0.475  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .+.+||+|.-.++|..|++.|+++-|.|+++++++|-
T Consensus       112 kdy~fvh~d~~eda~~air~l~~~~~~gk~m~vq~st  148 (346)
T KOG0109|consen  112 KDYAFVHFDRAEDAVEAIRGLDNTEFQGKRMHVQLST  148 (346)
T ss_pred             cceeEEEEeeccchHHHHhcccccccccceeeeeeec
Confidence            4789999999999999999999999999999999974

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

Probab=92.75  E-value=0.055  Score=53.70  Aligned_cols=36  Identities=39%  Similarity=0.499  Sum_probs=32.8

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      |-.|.|||.|-++.+|+.|+++||++-++|+.|.+.
T Consensus       110 ~~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~~  145 (549)
T KOG4660|consen  110 NKRGIVFVEFYDVRDAERALKALNRREIAGKRIKRP  145 (549)
T ss_pred             ccCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcCC
Confidence            346899999999999999999999999999999843

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

Probab=92.66  E-value=0.095  Score=47.92  Aligned_cols=37  Identities=35%  Similarity=0.546  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-c
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-P   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-P   39 (216)
                      +|+.||.|...|+|++||..||+--.-||.|.+.|- |
T Consensus        52 RgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~AkP   89 (298)
T KOG0111|consen   52 RGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLAKP   89 (298)
T ss_pred             cceeEEEeeccchhHHHhhcCchhhhcceeEEEeecCC
Confidence            699999999999999999999999999999999996 5

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

Probab=92.53  E-value=0.14  Score=43.38  Aligned_cols=45  Identities=36%  Similarity=0.660  Sum_probs=38.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceeccc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQY   51 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~   51 (216)
                      -|+.||.|-..++|+.|++.|||--.+-++|.+.+.+  -|.|.  +||
T Consensus        78 CGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~--GF~eG--RQy  122 (153)
T KOG0121|consen   78 CGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDA--GFVEG--RQY  122 (153)
T ss_pred             cceEEEEEecchhHHHHHHHhccCcccccceeeeccc--cchhh--hhh
Confidence            4899999999999999999999999999999999865  45443  454

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

Probab=91.52  E-value=0.27  Score=48.36  Aligned_cols=44  Identities=32%  Similarity=0.449  Sum_probs=38.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc-CCeeeEEEeccCCCcccceecccc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY-AGRPIIVDFSPVTDFREATCRQYE   52 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY-aGR~I~aEfsPVtdF~eA~Crq~~   52 (216)
                      +|-.||.|.+.++|+.||+.||+--+ .||.|-|-.|      .|.||+|.
T Consensus       125 RGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igvc~S------van~RLFi  169 (506)
T KOG0117|consen  125 RGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGVCVS------VANCRLFI  169 (506)
T ss_pred             cceEEEEeecHHHHHHHHHHhhCccccCCCEeEEEEe------eecceeEe
Confidence            58899999999999999999999644 8999998775      68999985

>PLN03121 nucleic acid binding protein; Provisional

Probab=91.51  E-value=0.28  Score=44.42  Aligned_cols=35  Identities=20%  Similarity=0.260  Sum_probs=32.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      |+.||.|.++++|+.|+ .|||--+.+++|.++.++
T Consensus        45 gfAfVtF~d~~aaetAl-lLnGa~l~d~~I~It~~~   79 (243)
T PLN03121         45 CTAYVTFKDAYALETAV-LLSGATIVDQRVCITRWG   79 (243)
T ss_pred             eEEEEEECCHHHHHHHH-hcCCCeeCCceEEEEeCc
Confidence            78999999999999998 899999999999988764

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

Probab=91.44  E-value=0.23  Score=46.33  Aligned_cols=36  Identities=22%  Similarity=0.428  Sum_probs=34.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .+|..||+|.+.|.|+.||..|||--.+|.+|.|..
T Consensus       199 ~qGYaFVrF~tkEaAahAIv~mNntei~G~~VkCsW  234 (321)
T KOG0148|consen  199 DQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVRCSW  234 (321)
T ss_pred             ccceEEEEecchhhHHHHHHHhcCceeCceEEEEec
Confidence            468999999999999999999999999999999976

>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes

Probab=91.30  E-value=0.34  Score=38.22  Aligned_cols=37  Identities=38%  Similarity=0.541  Sum_probs=29.0

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccC
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPV   40 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPV   40 (216)
                      |-..|+|.+.+.|+.|.+-|+|.--=|..|.+.|.|.
T Consensus        40 ~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~~~   76 (90)
T PF11608_consen   40 GTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFSPK   76 (90)
T ss_dssp             T-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS--
T ss_pred             CEEEEEeCCHHHHHHHHHhhcccccccceEEEEEcCC
Confidence            5689999999999999999999999999999999975

Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.

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

Probab=91.12  E-value=0.2  Score=48.36  Aligned_cols=68  Identities=22%  Similarity=0.433  Sum_probs=52.7

Q ss_pred             eEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cCCC--ccccee---cccccCcCCCCCCCCcccccCCCH
Q 027939            5 NVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTD--FREATC---RQYEENTCNRGGYCNFMHLKRISR   72 (216)
Q Consensus         5 NVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PVtd--F~eA~C---rq~~~g~C~RGg~CNFmHvk~~sr   72 (216)
                      -.||+|.+.+++++|+=.|.+=..+-+.|+|.|| .|..  |+.---   ..+-.-.|..+..-+|+|-.++.+
T Consensus       283 yaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk~k~r~k~~~~~~d~~~~d~~~~~~~k~~~kd~~~~  356 (479)
T KOG0415|consen  283 YAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSKVKYRQKGSQKETDHRAKDCVGGPSSKFIHKDQNRP  356 (479)
T ss_pred             eeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhhhhccccccccccchhhhccccCCcccchhccCCCC
Confidence            3689999999999999999999999999999998 4444  432111   112234699999999999988763

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

Probab=90.96  E-value=0.27  Score=43.51  Aligned_cols=38  Identities=24%  Similarity=0.507  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||-|.+.+.|.+|+.+|||.+.+-++|+++|--
T Consensus       138 ~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~  175 (203)
T KOG0131|consen  138 PKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAF  175 (203)
T ss_pred             CCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEE
Confidence            45789999999999999999999999999999999853

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

Probab=90.62  E-value=0.2  Score=44.81  Aligned_cols=38  Identities=24%  Similarity=0.376  Sum_probs=35.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      +..+.||+|++..+|+.||..-+|==|+|-.|.+||--
T Consensus        44 ~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfpr   81 (241)
T KOG0105|consen   44 PPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPR   81 (241)
T ss_pred             CCCeeEEEecCccchhhhhhcccccccCcceEEEEecc
Confidence            45789999999999999999999999999999999953

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

Probab=90.14  E-value=0.36  Score=45.29  Aligned_cols=36  Identities=33%  Similarity=0.624  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|-.||.|.++++|++||+.||.--+.|++|...++
T Consensus        37 lgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s   72 (369)
T KOG0123|consen   37 LGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWS   72 (369)
T ss_pred             cceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehh
Confidence            588999999999999999999999999999998876

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

Probab=89.39  E-value=0.32  Score=41.71  Aligned_cols=38  Identities=24%  Similarity=0.382  Sum_probs=34.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      +.|-..|+|++.++|++|+.+|||--.-|.+|.+.++-
T Consensus       113 ~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw~F  150 (170)
T KOG0130|consen  113 VKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDWCF  150 (170)
T ss_pred             ccceeeeehHhHHHHHHHHHhccchhhhCCceeEEEEE
Confidence            56889999999999999999999999999999988754

>PLN03213 repressor of silencing 3; Provisional

Probab=88.94  E-value=0.45  Score=47.84  Aligned_cols=36  Identities=11%  Similarity=0.333  Sum_probs=32.9

Q ss_pred             cceEEEEeCCH--HHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREE--EQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~e--e~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      +|+.||.|..+  .++.+||..|||--+.|++|.++.-
T Consensus        48 RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKA   85 (759)
T PLN03213         48 RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKA   85 (759)
T ss_pred             CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeec
Confidence            59999999987  6899999999999999999998763

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

Probab=88.77  E-value=0.53  Score=48.23  Aligned_cols=36  Identities=28%  Similarity=0.464  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      +++.||=|.++++|++||..+|+-|++-..|+||++
T Consensus         9 R~F~FiGf~~eeeA~~Ai~~fn~s~i~ts~i~Ve~~   44 (725)
T KOG0110|consen    9 RRFGFIGFKSEEEAQKAIKYFNKSFINTSRITVEFC   44 (725)
T ss_pred             eeeeEeeeccHHHHHHHHHHhhccccccceEEEEeh
Confidence            578999999999999999999999999999999986

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

Probab=87.37  E-value=0.52  Score=45.92  Aligned_cols=37  Identities=30%  Similarity=0.476  Sum_probs=34.3

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      |-.|+.||+|+-+|.|+-|++.|||-..+||-|.+-.
T Consensus       153 kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgr  189 (544)
T KOG0124|consen  153 KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGR  189 (544)
T ss_pred             cccceEEEEEeCcHHHHHHHHHhccccccCccccccC
Confidence            3479999999999999999999999999999999874

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

Probab=86.65  E-value=0.88  Score=44.86  Aligned_cols=40  Identities=35%  Similarity=0.600  Sum_probs=36.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cCCCc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTDF   43 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PVtdF   43 (216)
                      -..||.|.+-++|.+|++.|||.-.+|-+|.|.|- ||.+=
T Consensus       294 DYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLAKP~~k~  334 (506)
T KOG0117|consen  294 DYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLAKPVDKK  334 (506)
T ss_pred             ceeEEeecchHHHHHHHHHhcCceecCceEEEEecCChhhh
Confidence            45799999999999999999999999999999996 77553

>KOG2068 consensus MOT2 transcription factor [Transcription]

Probab=86.47  E-value=0.23  Score=46.67  Aligned_cols=58  Identities=28%  Similarity=0.649  Sum_probs=46.9

Q ss_pred             EEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceeccccc-CcCCCCCCCCcccccC
Q 027939            6 VYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEE-NTCNRGGYCNFMHLKR   69 (216)
Q Consensus         6 VYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~-g~C~RGg~CNFmHvk~   69 (216)
                      |||.|..+++|..||...+|=.++|+.|.|.|-- |.|    |--+.. -.|+... |=|||=.-
T Consensus       128 ~yITy~~~eda~rci~~v~g~~~dg~~lka~~gt-tky----cs~~l~~~~c~~~~-cmylhe~~  186 (327)
T KOG2068|consen  128 VYITYEEEEDADRCIDDVDGFVDDGRALKASLGT-TKY----CSFYLRNDICQNPD-CMYLHEIG  186 (327)
T ss_pred             ccccccchHhhhhHHHHhhhHHhhhhhhHHhhCC-Ccc----hhHHhhhhcccCcc-cccccccc
Confidence            8999999999999999999999999999998842 334    444544 4688766 99999643

>KOG2494 consensus C3H1-type Zn-finger protein [Transcription]

Probab=85.96  E-value=0.25  Score=46.50  Aligned_cols=24  Identities=42%  Similarity=0.946  Sum_probs=18.9

Q ss_pred             ccceecccccCcCCCCCC-CCcccc
Q 027939           44 REATCRQYEENTCNRGGY-CNFMHL   67 (216)
Q Consensus        44 ~eA~Crq~~~g~C~RGg~-CNFmHv   67 (216)
                      ..++||+|..|+|.||.. |-|-|.
T Consensus        36 ~~eVCReF~rn~C~R~d~~CkfaHP   60 (331)
T KOG2494|consen   36 TLEVCREFLRNTCSRGDRECKFAHP   60 (331)
T ss_pred             HHHHHHHHHhccccCCCccccccCC
Confidence            357888888888888886 888886

>KOG1040 consensus Polyadenylation factor I complex, subunit, Yth1 (CPSF subunit) [RNA processing and modification]

Probab=85.80  E-value=0.32  Score=45.52  Aligned_cols=27  Identities=22%  Similarity=0.705  Sum_probs=25.2

Q ss_pred             CcccceecccccCcCCCCCCCCccccc
Q 027939           42 DFREATCRQYEENTCNRGGYCNFMHLK   68 (216)
Q Consensus        42 dF~eA~Crq~~~g~C~RGg~CNFmHvk   68 (216)
                      .+..-+|+-|.+|.|.+|..|+|||..
T Consensus        74 ~~~~~vcK~~l~glC~kgD~C~Flhe~  100 (325)
T KOG1040|consen   74 SRGKVVCKHWLRGLCKKGDQCEFLHEY  100 (325)
T ss_pred             cCCceeehhhhhhhhhccCcCcchhhh
Confidence            788999999999999999999999964

>KOG4209 consensus Splicing factor RNPS1, SR protein superfamily [RNA processing and modification]

Probab=85.32  E-value=1  Score=40.02  Aligned_cols=37  Identities=32%  Similarity=0.407  Sum_probs=35.0

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      |+.|..||.|.+.+.++.|++ |+|--+-|++|.+++.
T Consensus       141 ~~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~~  177 (231)
T KOG4209|consen  141 HPKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTLK  177 (231)
T ss_pred             CcceeEEEecccHhhhHHHhh-cCCcccccccceeeee
Confidence            678999999999999999999 9999999999999884

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

Probab=85.14  E-value=0.89  Score=43.42  Aligned_cols=35  Identities=31%  Similarity=0.390  Sum_probs=33.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|+-||.|++.++|++|-..|||--.-||.|.|..
T Consensus       136 KGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~  170 (376)
T KOG0125|consen  136 KGFGFVTMENPADADRARAELHGTVVEGRKIEVNN  170 (376)
T ss_pred             CccceEEecChhhHHHHHHHhhcceeeceEEEEec
Confidence            58999999999999999999999999999998875

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

Probab=84.83  E-value=0.43  Score=42.44  Aligned_cols=36  Identities=25%  Similarity=0.520  Sum_probs=32.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      +.|+.||.|.++.+|..||..|||.-|.|..|.+|+
T Consensus        34 k~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~   69 (216)
T KOG0106|consen   34 KNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEH   69 (216)
T ss_pred             ecccceeccCchhhhhcccchhcCceecceeeeeec
Confidence            458889999999999999999999999999977666

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

Probab=84.57  E-value=0.85  Score=40.45  Aligned_cols=37  Identities=38%  Similarity=0.470  Sum_probs=33.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      +|..||+|.++|+|+=|++.||+=-.=||||.+.-+.
T Consensus        51 qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen   51 QGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             cceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            6999999999999999999999988889999876643

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

Probab=83.51  E-value=1.3  Score=41.61  Aligned_cols=39  Identities=23%  Similarity=0.501  Sum_probs=35.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cC
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PV   40 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PV   40 (216)
                      -.|--||.|.++++|++|+..|||--.--+.|.+.|- |.
T Consensus        82 SLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPS  121 (360)
T KOG0145|consen   82 SLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPS  121 (360)
T ss_pred             ccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCC
Confidence            3577899999999999999999999999999999995 53

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

Probab=82.75  E-value=1.4  Score=43.80  Aligned_cols=37  Identities=27%  Similarity=0.417  Sum_probs=34.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      +|+.-|+|+++|.+++|++.||---..||+|.|.=.|
T Consensus        86 rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~  122 (608)
T KOG4212|consen   86 RGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH  122 (608)
T ss_pred             CCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence            6899999999999999999999999999999987655

>PF11767 SET_assoc: Histone lysine methyltransferase SET associated; InterPro: IPR024636 The SET domain is a protein-protein interaction domain found in protein lysine methyltransferase enzymes

Probab=80.04  E-value=2.4  Score=31.27  Aligned_cols=30  Identities=17%  Similarity=0.482  Sum_probs=26.0

Q ss_pred             EEEEeCCHHHHHHHHHHhcCcccCCeeeEE
Q 027939            6 VYVQFREEEQAARALKSLSGRFYAGRPIIV   35 (216)
Q Consensus         6 VYVkF~~ee~A~~Av~~LNGRwYaGR~I~a   35 (216)
                      .||-|.+..+|++|..+.+|+-|-+-.|..
T Consensus        36 fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   36 FYIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             EEEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            699999999999999999999887665543

This entry represents a domain of unknown function which is associated with the SET domain and found in histone lysine methyltransferases [].

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	216
1jmt_A	104	X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER		4e-05

>pdb|1JMT|A Chain A, X-Ray Structure Of A Core U2af65U2AF35 HETERODIMER Length = 104

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 19/37 (51%), Positives = 27/37 (72%)
Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SP
Sbjct: 68  VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP 104

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	216
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	1e-12
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	2e-12
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	7e-12
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	9e-12
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	4e-11
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	3e-09
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	3e-05
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	9e-05
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	1e-04
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	1e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-04
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	3e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	4e-04
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	5e-04
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	8e-04

>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 Length = 114

 Score = 61.2 bits (149), Expect = 1e-12
 Identities = 14/42 (33%), Positives = 23/42 (54%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE 45
          GNVYV+      A  A+ +L GR++AG+ I   + P+  +  
Sbjct: 56 GNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHN 97

>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 Length = 104

 Score = 60.3 bits (146), Expect = 2e-12
 Identities = 19/37 (51%), Positives = 27/37 (72%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           VGNVYV+FR EE A +A+  L+ R++ G+PI  + SP
Sbjct: 68  VGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP 104

>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} PDB: 3us5_A 2dny_A Length = 118

 Score = 59.4 bits (144), Expect = 7e-12
 Identities = 10/43 (23%), Positives = 25/43 (58%)

Query: 3   VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE 45
           +  ++V+F    +  +A+++L+GR++AGR ++ +      F  
Sbjct: 71  IVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDN 113

>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 Length = 112

 Score = 58.9 bits (143), Expect = 9e-12
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 4   GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF-SPVTDFR 44
           G   V FR+ E+A   +++L GR++ GR I        TD++
Sbjct: 65  GVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ 106

>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 Length = 105

 Score = 56.7 bits (137), Expect = 4e-11
 Identities = 9/44 (20%), Positives = 21/44 (47%)

Query: 2   QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE 45
             G ++V+F       +A++ L+GR +A R ++  +     +  
Sbjct: 58  GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHR 101

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A Length = 105

 Score = 51.8 bits (124), Expect = 3e-09
 Identities = 12/42 (28%), Positives = 23/42 (54%)

Query: 3  VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR 44
             ++++F   E A +A+  L+GR++ GR +   F  +  FR
Sbjct: 56 AVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFR 97

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens} Length = 110

 Score = 41.2 bits (97), Expect = 3e-05
 Identities = 10/52 (19%), Positives = 14/52 (26%), Gaps = 3/52 (5%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENT 55
          G   V F     A   +K+L      G  I           +   + YE   
Sbjct: 49 GLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI---KGQQRMKYYELIV 97

>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 = 40.7 bits (96), Expect = 9e-05
 Identities = 8/32 (25%), Positives = 17/32 (53%)

Query: 7   YVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
           Y++F+ E  A + L+   G    GR + + ++
Sbjct: 140 YIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT 171

>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 = 39.1 bits (92), Expect = 1e-04
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G  +V F+E   A  AL+S+ G  +  +P+ + ++
Sbjct: 52 GQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA 86

>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 = 38.8 bits (91), Expect = 1e-04
 Identities = 8/35 (22%), Positives = 14/35 (40%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G   V F   ++A  A+  L+ R    R + +   
Sbjct: 58 GEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG 92

>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 = 38.6 bits (90), Expect = 2e-04
 Identities = 10/40 (25%), Positives = 22/40 (55%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREA 46
           V+F E  +A +A + L+   +   P+ ++++P+  F  A
Sbjct: 50 IVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAA 89

>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 = 37.7 bits (88), Expect = 3e-04
 Identities = 8/35 (22%), Positives = 14/35 (40%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G   V F   ++A  A+  L+ R    R + +   
Sbjct: 58 GEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP 92

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens} Length = 127

 Score = 38.3 bits (89), Expect = 4e-04
 Identities = 10/35 (28%), Positives = 19/35 (54%)

Query: 4   GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
           G  Y+ F  +E A   +++  G  + G P+++ FS
Sbjct: 73  GKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFS 107

>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 = 37.2 bits (87), Expect = 5e-04
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          +V++++ EQA +ALK L G    G  + V  S
Sbjct: 54 FVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS 85

>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 = 36.9 bits (86), Expect = 8e-04
 Identities = 8/31 (25%), Positives = 18/31 (58%)

Query: 8   VQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
           + F  +E A +AL  ++G    G+ ++++F 
Sbjct: 72  ITFPNKEIAWQALHLVNGYKLYGKILVIEFG 102

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	216
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.23
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.16
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.16
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.1
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.0
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.73
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.52
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	98.17
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	98.16
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	98.15
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	98.14
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	98.13
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	98.12
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	98.11
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.11
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	98.11
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	98.1
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.1
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.09
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	98.08
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	98.08
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	98.07
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	98.07
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.07
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	98.06
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	98.06
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	98.06
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.05
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	98.04
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	98.03
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	98.03
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.02
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	98.02
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	98.02
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	98.01
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	98.01
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	98.01
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	98.01
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	98.0
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	98.0
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	98.0
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	98.0
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	98.0
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	98.0
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.0
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	97.99
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	97.98
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	97.98
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	97.98
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	97.98
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	97.97
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	97.97
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	97.97
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	97.96
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	97.96
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	97.96
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	97.95
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	97.95
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	97.94
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	97.94
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	97.94
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	97.94
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	97.93
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	97.93
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	97.93
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	97.91
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	97.91
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	97.91
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	97.91
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	97.9
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	97.9
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	97.9
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	97.9
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	97.9
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	97.89
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	97.89
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	97.89
1x5p_A	97	Negative elongation factor E; structure genomics,	97.89
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	97.89
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	97.89
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	97.88
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	97.88
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	97.88
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	97.88
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	97.88
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	97.87
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	97.87
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	97.86
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	97.85
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	97.85
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	97.84
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	97.84
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	97.83
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	97.83
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	97.83
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	97.81
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	97.81
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	97.81
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	97.81
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	97.81
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	97.81
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	97.8
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.79
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	97.79
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	97.78
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	97.78
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	97.77
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	97.76
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	97.74
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	97.74
1x5o_A	114	RNA binding motif, single-stranded interacting pro	97.73
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	97.72
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	97.71
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	97.71
2div_A	99	TRNA selenocysteine associated protein; structural	97.71
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	97.7
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	97.69
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	97.69
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	97.68
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	97.66
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	97.65
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	97.65
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	97.65
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	97.64
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	97.64
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	97.63
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	97.63
2dis_A	109	Unnamed protein product; structural genomics, RRM	97.59
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	97.58
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	97.57
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	97.57
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	97.56
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	97.55
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	97.54
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	96.68
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.51
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	97.5
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	97.49
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	97.48
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	97.47
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	97.47
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	97.46
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	97.46
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	97.44
1x4e_A	85	RNA binding motif, single-stranded interacting pro	97.43
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	97.42
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	97.41
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	97.4
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	97.38
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	97.37
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	97.37
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	97.36
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	97.34
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	97.32
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	97.32
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	97.32
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	97.32
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	97.31
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	97.31
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	97.29
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	97.26
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	97.21
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	97.15
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	97.09
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	97.08
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	97.06
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	97.04
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	97.03
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	96.99
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	96.99
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	96.97
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	96.97
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	96.94
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	96.85
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	96.71
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	96.62
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	96.55
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	96.51
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	96.15
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	96.12
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	95.83
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	95.7
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	94.4
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	94.31
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	94.15
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	94.02
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	93.26
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	93.24
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	93.23
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	92.62
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	92.48
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	92.37
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	92.26
2rhk_C	72	Cleavage and polyadenylation specificity factor su	92.05
3d2q_A	70	Muscleblind-like protein 1; tandem zinc finger dom	91.81
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	91.21
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	91.08
2rhk_C	72	Cleavage and polyadenylation specificity factor su	91.07
2d9m_A	69	Zinc finger CCCH-type domain containing protein 7A	91.01
2d9n_A	77	Cleavage and polyadenylation specificity factor, 3	88.85
2e5s_A	98	Otthump00000018578; ZF-CCCHX2 domain, muscleblind-	88.84
3d2n_A	83	Muscleblind-like protein 1; tandem zinc finger dom	87.86
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	87.61
1m9o_A	77	Tristetraproline; Cys3His type zinc finger, metal	87.21
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	86.53
2cqe_A	98	KIAA1064 protein; CCCH zinc-finger, structural gen	86.4
2rpp_A	89	Muscleblind-like protein 2; zinc finger domain, C3	83.57
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	83.28
2fc6_A	50	Nuclear, target of EGR1, member 1; structure genom	82.6

>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=99.23  E-value=3e-12  Score=99.02  Aligned_cols=44  Identities=23%  Similarity=0.595  Sum_probs=41.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      ..|+|||+|.++++|.+|+++||||||+||+|.|+|+|+++|..
T Consensus        70 ~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~~~~~~f~~  113 (118)
T 3ue2_A           70 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEVYDQERFDN  113 (118)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHT
T ss_pred             ceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcChHhccc
Confidence            35999999999999999999999999999999999999988853

>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=99.16  E-value=1.4e-11  Score=92.70  Aligned_cols=44  Identities=20%  Similarity=0.548  Sum_probs=41.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      ..|+|||+|.++++|.+|+++|||+||+||+|.|+|+++..|..
T Consensus        58 ~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~~~~~~f~~  101 (105)
T 3v4m_A           58 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHR  101 (105)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHT
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEeCHHHHhh
Confidence            46999999999999999999999999999999999999888753

>3s6e_A RNA-binding protein 39; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative, PSI-biology; HET: MSE CIT; 0.95A {Mus musculus} PDB: 2lq5_A

Probab=99.16  E-value=1.2e-11  Score=95.20  Aligned_cols=44  Identities=32%  Similarity=0.637  Sum_probs=41.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      ..|+|||+|.++++|.+|++.|||+||+||+|.|+|+++++|..
T Consensus        54 ~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~v~~~~~~~y~~   97 (114)
T 3s6e_A           54 AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAYVPLPTYHN   97 (114)
T ss_dssp             TTCCEEEECSSHHHHHHHHHHHTTCEETTEECEEEEECHHHHHH
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEEcHHHHHH
Confidence            36999999999999999999999999999999999999988853

>2pe8_A Splicing factor 45; RRM, protein binding; 2.00A {Homo sapiens} PDB: 2peh_A

Probab=99.10  E-value=3.6e-11  Score=90.56  Aligned_cols=45  Identities=27%  Similarity=0.570  Sum_probs=42.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREA   46 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA   46 (216)
                      ..|++||+|.++++|++|++.|||+||+||+|.|+|.+.+.|...
T Consensus        55 ~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~a~~~~f~~~   99 (105)
T 2pe8_A           55 EAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFYNLDKFRVL   99 (105)
T ss_dssp             TSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCHHHHHTT
T ss_pred             CcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEcCHHHhhhh
Confidence            579999999999999999999999999999999999988888654

>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=99.00  E-value=3.1e-10  Score=84.97  Aligned_cols=38  Identities=50%  Similarity=0.935  Sum_probs=36.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|++||+|.++++|++|++.|||++|+||+|.|+|+|
T Consensus        67 ~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~~sp  104 (104)
T 1jmt_A           67 LVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             SEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             ccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEEcC
Confidence            57999999999999999999999999999999999997

>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=98.73  E-value=1.5e-08  Score=75.27  Aligned_cols=44  Identities=32%  Similarity=0.578  Sum_probs=40.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cCCCccc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTDFRE   45 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PVtdF~e   45 (216)
                      ..|++||+|.++++|++|++.|||++|+|++|.|+|. |.++|..
T Consensus        63 ~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~~~~~~~~  107 (112)
T 2dit_A           63 PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQS  107 (112)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCCCSSC
T ss_pred             CCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeCCCCCccc
Confidence            4799999999999999999999999999999999995 8888864

>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=98.52  E-value=5.5e-07  Score=82.54  Aligned_cols=61  Identities=16%  Similarity=0.226  Sum_probs=44.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceecccccCcCCCCCCC
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYC   62 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~g~C~RGg~C   62 (216)
                      ..|++||.|.++++|++||..|||.+|.|++|.|+|...........+.+-.|.+..++.+
T Consensus       143 ~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~~~~~~~~~~~~~ggG~gg~~~gg  203 (437)
T 3pgw_S          143 PRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGG  203 (437)
T ss_pred             ccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeCCCCCCCCCCCCcCCCCCCCCCCC
Confidence            3699999999999999999999999999999999997433333333333333444433333

>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=98.17  E-value=2e-06  Score=63.00  Aligned_cols=36  Identities=25%  Similarity=0.498  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        61 kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~A   96 (99)
T 4fxv_A           61 LGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYA   96 (99)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            588999999999999999999999999999999986

>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=98.16  E-value=2e-06  Score=63.44  Aligned_cols=36  Identities=22%  Similarity=0.437  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.|++.
T Consensus        63 ~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a   98 (111)
T 2cpi_A           63 SASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG   98 (111)
T ss_dssp             CEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEESC
T ss_pred             CeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            489999999999999999999999999999999996

>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=98.15  E-value=2.6e-06  Score=58.75  Aligned_cols=36  Identities=31%  Similarity=0.463  Sum_probs=34.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        49 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   84 (85)
T 3mdf_A           49 RGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   84 (85)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            588999999999999999999999999999999885

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.14  E-value=2.4e-06  Score=60.07  Aligned_cols=36  Identities=28%  Similarity=0.313  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||+|.++++|++|+..|||..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (95)
T 2cqc_A           57 RGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGP   92 (95)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             ccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            589999999999999999999999999999999986

>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}

Probab=98.13  E-value=2.6e-06  Score=63.86  Aligned_cols=37  Identities=22%  Similarity=0.203  Sum_probs=35.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|++.|||..+.|++|.|++.+
T Consensus        48 rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~   84 (110)
T 3s8s_A           48 LGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            5899999999999999999999999999999999975

>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=98.12  E-value=2.7e-06  Score=59.96  Aligned_cols=37  Identities=22%  Similarity=0.336  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.++++.
T Consensus        57 ~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a~   93 (95)
T 2ek1_A           57 TGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGPS   93 (95)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEecc
Confidence            5899999999999999999999999999999999863

>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=98.11  E-value=3.2e-06  Score=62.80  Aligned_cols=41  Identities=22%  Similarity=0.379  Sum_probs=38.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDF   43 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF   43 (216)
                      .|..||.|.+.++|++|++.|||..|.|++|.++|.+...|
T Consensus        46 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~~~~   86 (111)
T 1whx_A           46 GITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVF   86 (111)
T ss_dssp             SSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTTT
T ss_pred             CCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCCCcc
Confidence            58899999999999999999999999999999999876555

>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=98.11  E-value=3.3e-06  Score=58.45  Aligned_cols=36  Identities=25%  Similarity=0.519  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        48 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (87)
T 3bs9_A           48 KGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   83 (87)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEec
Confidence            589999999999999999999999999999999986

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.11  E-value=3.7e-06  Score=59.16  Aligned_cols=36  Identities=17%  Similarity=0.395  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.++|.
T Consensus        58 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           58 KGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             TTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             ccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            589999999999999999999999999999999985

>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=98.10  E-value=3.7e-06  Score=58.14  Aligned_cols=36  Identities=31%  Similarity=0.522  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        47 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A           47 KGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            589999999999999999999999999999999986

>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=98.10  E-value=3.4e-06  Score=59.50  Aligned_cols=40  Identities=23%  Similarity=0.420  Sum_probs=37.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTD   42 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtd   42 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.|...
T Consensus        40 ~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~~~~   79 (88)
T 1wg1_A           40 KRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQPTDA   79 (88)
T ss_dssp             GTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECCCCC
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcCCCc
Confidence            5899999999999999999999999999999999988544

>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=98.09  E-value=4.2e-06  Score=57.47  Aligned_cols=36  Identities=28%  Similarity=0.620  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        43 ~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   78 (83)
T 3md1_A           43 RGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA   78 (83)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEec
Confidence            589999999999999999999999999999999986

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.08  E-value=3.7e-06  Score=60.14  Aligned_cols=37  Identities=30%  Similarity=0.459  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||+|.++++|++|++.|||..|.|++|.+++.
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   89 (102)
T 1x5s_A           53 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   89 (102)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3589999999999999999999999999999999996

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.08  E-value=4.4e-06  Score=58.88  Aligned_cols=37  Identities=38%  Similarity=0.558  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.+++..
T Consensus        47 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   83 (95)
T 2dnz_A           47 KGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVT   83 (95)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESS
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            5899999999999999999999999999999999973

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.07  E-value=4.1e-06  Score=59.17  Aligned_cols=36  Identities=22%  Similarity=0.639  Sum_probs=34.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        48 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A           48 KGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            589999999999999999999999999999999996

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.07  E-value=3.5e-06  Score=60.29  Aligned_cols=38  Identities=29%  Similarity=0.444  Sum_probs=35.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|.+||.|.++++|++|++.|||..|.|++|.+++..
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2cqb_A           53 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   90 (102)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCC
Confidence            36899999999999999999999999999999999963

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.07  E-value=4e-06  Score=60.01  Aligned_cols=36  Identities=25%  Similarity=0.415  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        54 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   89 (102)
T 2fc8_A           54 KGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWA   89 (102)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEe
Confidence            589999999999999999999999999999999996

>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=98.06  E-value=5e-06  Score=59.19  Aligned_cols=37  Identities=30%  Similarity=0.418  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        50 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A           50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             CSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            5899999999999999999999999999999999974

>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=98.06  E-value=4.6e-06  Score=60.12  Aligned_cols=37  Identities=27%  Similarity=0.526  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.++|+.
T Consensus        70 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           70 LGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            5899999999999999999999999999999999864

>2d9p_A Polyadenylate-binding protein 3; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.06  E-value=4.4e-06  Score=60.04  Aligned_cols=37  Identities=30%  Similarity=0.552  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+..|||..|.|++|.+++..
T Consensus        55 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           55 KGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             CEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            5899999999999999999999999999999999963

>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=98.05  E-value=5.2e-06  Score=59.00  Aligned_cols=36  Identities=22%  Similarity=0.376  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   92 (98)
T 2cqp_A           57 TGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLG   92 (98)
T ss_dssp             EEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            589999999999999999999999999999999996

>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=98.04  E-value=5.6e-06  Score=58.95  Aligned_cols=37  Identities=27%  Similarity=0.518  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|++.|||..+.|++|.+++..
T Consensus        44 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A           44 KGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            5899999999999999999999999999999999973

>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=98.03  E-value=5.8e-06  Score=59.39  Aligned_cols=36  Identities=33%  Similarity=0.459  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.++++|++|+..|||..|.|++|.+++.
T Consensus        55 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   90 (103)
T 2cq3_A           55 KGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA   90 (103)
T ss_dssp             CCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            689999999999999999999999999999999996

>2cpf_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.03  E-value=5e-06  Score=59.06  Aligned_cols=37  Identities=35%  Similarity=0.557  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        50 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (98)
T 2cpf_A           50 MGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   86 (98)
T ss_dssp             EEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             ccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Confidence            4899999999999999999999999999999999963

>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=98.02  E-value=1.6e-05  Score=59.72  Aligned_cols=37  Identities=27%  Similarity=0.482  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||+|.++++|++|++.|+|..+.|++|.++++.
T Consensus        45 ~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   81 (168)
T 1b7f_A           45 YGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   81 (168)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecC
Confidence            4899999999999999999999999999999999975

>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=98.02  E-value=6.1e-06  Score=59.30  Aligned_cols=36  Identities=33%  Similarity=0.412  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   92 (105)
T 1x5u_A           57 QGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   92 (105)
T ss_dssp             CSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEC
Confidence            589999999999999999999999999999999996

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.02  E-value=6e-06  Score=59.14  Aligned_cols=36  Identities=31%  Similarity=0.471  Sum_probs=34.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..|.|++|.+++.
T Consensus        53 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           53 KGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             CSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            689999999999999999999999999999999996

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.01  E-value=6.2e-06  Score=59.26  Aligned_cols=37  Identities=30%  Similarity=0.466  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+..|||..|.|++|.+++..
T Consensus        57 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (103)
T 2cq0_A           57 KGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   93 (103)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             eeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEECC
Confidence            5899999999999999999999999999999999963

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A

Probab=98.01  E-value=6e-06  Score=60.42  Aligned_cols=36  Identities=25%  Similarity=0.519  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.|++.
T Consensus        57 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (115)
T 2dgo_A           57 KGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   92 (115)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            589999999999999999999999999999999996

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.01  E-value=6.4e-06  Score=58.93  Aligned_cols=37  Identities=32%  Similarity=0.590  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      +.|..||.|.+.++|++|+..|||..+.|++|.+++.
T Consensus        50 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   86 (99)
T 2cpd_A           50 IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   86 (99)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             eCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            3689999999999999999999999999999999996

>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=98.01  E-value=4.9e-06  Score=58.65  Aligned_cols=36  Identities=31%  Similarity=0.342  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (95)
T 2ywk_A           57 KSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGP   92 (95)
T ss_dssp             EEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEc
Confidence            589999999999999999999999999999999985

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.00  E-value=7.5e-06  Score=58.85  Aligned_cols=37  Identities=22%  Similarity=0.482  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHh-cCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL-SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L-NGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|++|+..| ||..|.|++|.+++..
T Consensus        58 ~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a~   95 (107)
T 2cph_A           58 RGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   95 (107)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             CceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeCC
Confidence            689999999999999999999 9999999999999973

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.00  E-value=6.4e-06  Score=60.09  Aligned_cols=36  Identities=19%  Similarity=0.420  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.+++.
T Consensus        65 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (113)
T 2cpe_A           65 KGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLA  100 (113)
T ss_dssp             CSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECS
T ss_pred             eeEEEEEECCHHHHHHHHHHcCCCccCCCEEEEEEC
Confidence            589999999999999999999999999999999996

>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=98.00  E-value=6.4e-06  Score=61.15  Aligned_cols=36  Identities=31%  Similarity=0.557  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.|+|.
T Consensus        64 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   99 (126)
T 3ex7_B           64 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC   99 (126)
T ss_dssp             CSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEe
Confidence            689999999999999999999999999999999986

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens}

Probab=98.00  E-value=6.3e-06  Score=58.97  Aligned_cols=36  Identities=31%  Similarity=0.579  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        63 ~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           63 KGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   98 (99)
T ss_dssp             EEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEec
Confidence            589999999999999999999999999999999985

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1

Probab=98.00  E-value=6.7e-06  Score=59.19  Aligned_cols=36  Identities=31%  Similarity=0.557  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        65 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  100 (106)
T 1p27_B           65 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC  100 (106)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             eeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEee
Confidence            589999999999999999999999999999999986

>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=98.00  E-value=6e-06  Score=59.07  Aligned_cols=37  Identities=30%  Similarity=0.616  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|++.|||..|.|++|.+++..
T Consensus        50 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   86 (104)
T 1p1t_A           50 KGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             EEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCC
Confidence            5899999999999999999999999999999999963

>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=98.00  E-value=7.1e-06  Score=58.92  Aligned_cols=36  Identities=31%  Similarity=0.519  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|+..|||..+.|++|.+++.
T Consensus        55 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2cqi_A           55 DPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWA   90 (103)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEEC
Confidence            489999999999999999999999999999999996

>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=97.99  E-value=6.5e-06  Score=59.88  Aligned_cols=36  Identities=25%  Similarity=0.401  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.|++.
T Consensus        61 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   96 (109)
T 1x4a_A           61 PPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFP   96 (109)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEc
Confidence            589999999999999999999999999999999996

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=97.98  E-value=6.7e-06  Score=58.19  Aligned_cols=36  Identities=25%  Similarity=0.530  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        53 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   88 (96)
T 1fjc_A           53 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            589999999999999999999999999999999997

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.98  E-value=6.9e-06  Score=58.72  Aligned_cols=36  Identities=14%  Similarity=0.295  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        56 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   91 (97)
T 2e5j_A           56 RRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALA   91 (97)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEEC
T ss_pred             CcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            689999999999999999999999999999999996

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.98  E-value=7.4e-06  Score=58.55  Aligned_cols=36  Identities=31%  Similarity=0.424  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        58 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   93 (100)
T 2do4_A           58 KGLAYVEYENESQASQAVMKMDGMTIKENIIKVAIS   93 (100)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEC
T ss_pred             EeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            489999999999999999999999999999999996

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.98  E-value=4.5e-06  Score=59.96  Aligned_cols=37  Identities=24%  Similarity=0.422  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|+..|||..+.|++|.|++..
T Consensus        55 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2dnm_A           55 RGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVAR   91 (103)
T ss_dssp             CSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECS
T ss_pred             CeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECC
Confidence            5899999999999999999999999999999999973

>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=97.97  E-value=8.1e-06  Score=58.95  Aligned_cols=37  Identities=22%  Similarity=0.481  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      +.|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        44 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   80 (103)
T 2dgu_A           44 LKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFA   80 (103)
T ss_dssp             CSSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             ECCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEc
Confidence            3588999999999999999999999999999999997

>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=97.97  E-value=8.3e-06  Score=57.64  Aligned_cols=36  Identities=28%  Similarity=0.599  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        51 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   86 (97)
T 1nu4_A           51 RGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   86 (97)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            489999999999999999999999999999999996

>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=97.97  E-value=2.6e-05  Score=58.20  Aligned_cols=37  Identities=22%  Similarity=0.462  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++.|||..+.|++|.+.+..
T Consensus        44 ~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~   80 (167)
T 1fxl_A           44 LGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (167)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             eeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecC
Confidence            4899999999999999999999999999999999975

>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=97.96  E-value=8.7e-06  Score=60.17  Aligned_cols=36  Identities=36%  Similarity=0.559  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.++++
T Consensus        68 ~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a  103 (108)
T 2jrs_A           68 KGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHV  103 (108)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECS
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            589999999999999999999999999999999996

>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=97.96  E-value=7.2e-06  Score=57.88  Aligned_cols=37  Identities=32%  Similarity=0.549  Sum_probs=34.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcC-cccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSG-RFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNG-RwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.||| ..+.|++|.+++..
T Consensus        44 ~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~   81 (93)
T 2cqh_A           44 SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   81 (93)
T ss_dssp             TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEcc
Confidence            58999999999999999999999 99999999999963

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.96  E-value=8.9e-06  Score=59.24  Aligned_cols=37  Identities=24%  Similarity=0.407  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        56 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           56 RGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            5899999999999999999999999999999999963

>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=97.95  E-value=9.4e-06  Score=59.21  Aligned_cols=37  Identities=24%  Similarity=0.504  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.++|..
T Consensus        67 ~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~  103 (115)
T 2cpx_A           67 RGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK  103 (115)
T ss_dssp             CSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEcc
Confidence            5899999999999999999999999999999999963

>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=97.95  E-value=9.4e-06  Score=58.23  Aligned_cols=36  Identities=22%  Similarity=0.227  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        52 rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   87 (96)
T 2dgx_A           52 QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLA   87 (96)
T ss_dssp             TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            588999999999999999999999999999999996

>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=97.94  E-value=1e-05  Score=58.61  Aligned_cols=36  Identities=19%  Similarity=0.344  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|.+|++.|||..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (97)
T 2xnq_A           57 NAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVS   92 (97)
T ss_dssp             SSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            589999999999999999999999999999999996

>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=97.94  E-value=5.9e-06  Score=61.59  Aligned_cols=36  Identities=17%  Similarity=0.236  Sum_probs=32.3

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      |..||.|.++++|++||+.|||..|.|++|.+.++.
T Consensus        52 g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~~~~i~   87 (115)
T 3beg_B           52 GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIR   87 (115)
T ss_dssp             SEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBCE
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECCcEeeeEEEE
Confidence            899999999999999999999999999996655543

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A

Probab=97.94  E-value=6.9e-06  Score=57.56  Aligned_cols=36  Identities=33%  Similarity=0.410  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        48 ~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   83 (92)
T 2dgv_A           48 KGCGVVKFESPEVAERACRMMNGMKLSGREIDVRID   83 (92)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            589999999999999999999999999999999996

>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=97.94  E-value=8.7e-06  Score=60.89  Aligned_cols=37  Identities=24%  Similarity=0.457  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        48 ~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A           48 RGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             CCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             ccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            5899999999999999999999999999999999963

>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=97.93  E-value=1.1e-05  Score=58.53  Aligned_cols=36  Identities=31%  Similarity=0.457  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        68 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  103 (110)
T 1oo0_B           68 KGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  103 (110)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEc
Confidence            589999999999999999999999999999999996

>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=97.93  E-value=9e-06  Score=59.63  Aligned_cols=36  Identities=17%  Similarity=0.208  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.+++.
T Consensus        67 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  102 (115)
T 2cpz_A           67 KCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK  102 (115)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            489999999999999999999999999999999996

>2a3j_A U1 small nuclear ribonucleoprotein A; computationally designed protein, RRM, U1A, RNA binding protein; NMR {Homo sapiens}

Probab=97.93  E-value=9e-06  Score=63.06  Aligned_cols=38  Identities=26%  Similarity=0.633  Sum_probs=35.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|++|+..|||..|.|++|.++|..
T Consensus        71 ~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~  108 (127)
T 2a3j_A           71 NSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSE  108 (127)
T ss_dssp             SCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECC
T ss_pred             cCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEcc
Confidence            36999999999999999999999999999999999963

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.91  E-value=1.4e-05  Score=56.27  Aligned_cols=37  Identities=27%  Similarity=0.449  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        43 ~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   79 (90)
T 2dnp_A           43 KDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELST   79 (90)
T ss_dssp             SSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECC
Confidence            4689999999999999999999999999999999963

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A

Probab=97.91  E-value=1.3e-05  Score=58.25  Aligned_cols=36  Identities=17%  Similarity=0.244  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC-eeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG-RPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG-R~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.| ++|.+.+.
T Consensus        54 kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a   90 (100)
T 3ns6_A           54 KGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTM   90 (100)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEES
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEEC
Confidence            5899999999999999999999999999 99999985

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.91  E-value=1.2e-05  Score=56.50  Aligned_cols=36  Identities=22%  Similarity=0.252  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        42 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   77 (90)
T 2dnq_A           42 KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEAS   77 (90)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEEC
Confidence            588999999999999999999999999999999996

>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=97.91  E-value=9.2e-06  Score=58.10  Aligned_cols=36  Identities=19%  Similarity=0.256  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        51 kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a   86 (99)
T 2cpj_A           51 KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA   86 (99)
T ss_dssp             TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEES
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEc
Confidence            489999999999999999999999999999999996

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.90  E-value=9.1e-06  Score=59.86  Aligned_cols=36  Identities=33%  Similarity=0.459  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        69 kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  104 (109)
T 2err_A           69 KGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA  104 (109)
T ss_dssp             TTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            589999999999999999999999999999999996

>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=97.90  E-value=1.2e-05  Score=59.66  Aligned_cols=36  Identities=28%  Similarity=0.482  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        45 kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a   80 (115)
T 4f25_A           45 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   80 (115)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            488999999999999999999999999999999985

>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=97.90  E-value=6.5e-06  Score=58.26  Aligned_cols=36  Identities=22%  Similarity=0.220  Sum_probs=33.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        45 kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~   80 (90)
T 3p5t_L           45 KGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPS   80 (90)
T ss_dssp             EEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC
T ss_pred             CcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEEC
Confidence            589999999999999999999999999999999986

>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=97.90  E-value=1.2e-05  Score=58.52  Aligned_cols=36  Identities=28%  Similarity=0.448  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        61 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   96 (109)
T 1x4g_A           61 KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWG   96 (109)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEec
Confidence            489999999999999999999999999999999996

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus}

Probab=97.90  E-value=1.5e-05  Score=59.28  Aligned_cols=38  Identities=26%  Similarity=0.493  Sum_probs=35.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|++|++.|||..+.|++|.++++.
T Consensus        75 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  112 (124)
T 2kt5_A           75 SLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLVA  112 (124)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEEC
T ss_pred             EeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeC
Confidence            35899999999999999999999999999999999974

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1

Probab=97.89  E-value=1.2e-05  Score=57.46  Aligned_cols=35  Identities=29%  Similarity=0.353  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++ |||..+.|++|.+++.
T Consensus        58 ~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a   92 (101)
T 1fj7_A           58 RKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   92 (101)
T ss_dssp             TTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECC
T ss_pred             CcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEc
Confidence            5899999999999999999 9999999999999996

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1

Probab=97.89  E-value=1.2e-05  Score=60.66  Aligned_cols=37  Identities=22%  Similarity=0.360  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.-
T Consensus        84 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  120 (139)
T 1u6f_A           84 RGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALAA  120 (139)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEESS
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            5899999999999999999999999999999999974

>2diu_A KIAA0430 protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.89  E-value=1e-05  Score=62.32  Aligned_cols=36  Identities=31%  Similarity=0.487  Sum_probs=34.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      |..||.|.++++|.+|++.|||..+.||+|.+.|.+
T Consensus        47 G~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~   82 (96)
T 2diu_A           47 CSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTP   82 (96)
T ss_dssp             TCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSC
T ss_pred             CEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecC
Confidence            789999999999999999999999999999999975

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.89  E-value=1.3e-05  Score=57.23  Aligned_cols=37  Identities=19%  Similarity=0.313  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|+..|||..+.|++|.+++..
T Consensus        49 ~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~   85 (97)
T 1x5p_A           49 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   85 (97)
T ss_dssp             TTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCS
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            5899999999999999999999999999999999963

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A

Probab=97.89  E-value=1.2e-05  Score=61.07  Aligned_cols=36  Identities=28%  Similarity=0.329  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++||+.|||..|.|++|.|++.
T Consensus        67 rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a  102 (111)
T 2jvr_A           67 DGTGALEFPSEEILVEALERLNNIEFRGSVITVERD  102 (111)
T ss_dssp             SCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEES
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            589999999999999999999999999999999986

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.89  E-value=1.6e-05  Score=56.10  Aligned_cols=36  Identities=22%  Similarity=0.444  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        44 ~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   79 (92)
T 2dgt_A           44 KDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLS   79 (92)
T ss_dssp             SSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEES
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            568999999999999999999999999999999996

>2nlw_A Eukaryotic translation initiation factor 3 subunit 9; eukaryotic initiation factor 3 complex, RNA recognition motif; NMR {Homo sapiens}

Probab=97.88  E-value=8.9e-06  Score=59.39  Aligned_cols=41  Identities=15%  Similarity=0.331  Sum_probs=37.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCe-eeEEEec-cCCCc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGR-PIIVDFS-PVTDF   43 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR-~I~aEfs-PVtdF   43 (216)
                      .|..||.|.++++|++|+..|||..|.|+ +|.+++. ++..|
T Consensus        61 ~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~a~~~~k~  103 (105)
T 2nlw_A           61 KGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNLFTDFDKY  103 (105)
T ss_dssp             CCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEECSCCCCCC
T ss_pred             eeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEEcchHhhh
Confidence            59999999999999999999999999999 9999996 44444

>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=97.88  E-value=1.2e-05  Score=55.47  Aligned_cols=36  Identities=19%  Similarity=0.291  Sum_probs=33.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHh-cCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSL-SGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L-NGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..| ||..+.|++|.+++.
T Consensus        48 kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           48 QQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             GTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            489999999999999999999 999999999999874

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A

Probab=97.88  E-value=1.2e-05  Score=59.49  Aligned_cols=36  Identities=36%  Similarity=0.681  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..|.|++|.++|.
T Consensus        65 kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (108)
T 2jvo_A           65 NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYS  100 (108)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESC
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            589999999999999999999999999999999996

>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=97.88  E-value=1.5e-05  Score=56.80  Aligned_cols=36  Identities=25%  Similarity=0.361  Sum_probs=34.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccC--CeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYA--GRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYa--GR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.  |++|.+++.
T Consensus        53 ~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a   90 (97)
T 1why_A           53 DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFA   90 (97)
T ss_dssp             SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEEC
Confidence            479999999999999999999999999  999999996

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae}

Probab=97.88  E-value=1.1e-05  Score=57.79  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+.|++|.+++.
T Consensus        45 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   80 (96)
T 2kvi_A           45 NAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS   80 (96)
T ss_dssp             TTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEc
Confidence            589999999999999999999999999999999997

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.87  E-value=1.4e-05  Score=56.25  Aligned_cols=36  Identities=33%  Similarity=0.502  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++ |||..+.|++|.+.++.
T Consensus        50 ~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A           50 TGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREK   85 (91)
T ss_dssp             EEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEES
T ss_pred             ceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECC
Confidence            5899999999999999999 99999999999999863

>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=97.87  E-value=1.5e-05  Score=58.23  Aligned_cols=37  Identities=27%  Similarity=0.364  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|.+|+..|||..+.|++|.+++..
T Consensus        47 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   83 (115)
T 3lqv_A           47 RGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYN   83 (115)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEECC
T ss_pred             CcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            5899999999999999999999999999999999963

>2krb_A Eukaryotic translation initiation factor 3 subunit B; EIF3, eukaryotic initiation factor, EIF3B, EIF3J; NMR {Homo sapiens}

Probab=97.86  E-value=5.9e-06  Score=57.30  Aligned_cols=33  Identities=18%  Similarity=0.346  Sum_probs=31.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCe-eeEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGR-PIIV   35 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR-~I~a   35 (216)
                      .|..||.|.++++|++|++.|||..+.|+ +|.+
T Consensus        47 ~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           47 KGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             eEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            59999999999999999999999999999 8865

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens}

Probab=97.85  E-value=1.2e-05  Score=57.48  Aligned_cols=37  Identities=27%  Similarity=0.565  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++..
T Consensus        37 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A           37 PGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELST   73 (101)
T ss_dssp             SSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESS
T ss_pred             CCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEcc
Confidence            5899999999999999999999999999999999973

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}

Probab=97.85  E-value=1.2e-05  Score=59.16  Aligned_cols=37  Identities=30%  Similarity=0.396  Sum_probs=34.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCc----ccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGR----FYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGR----wYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||.    .++||+|.++|.-
T Consensus        53 rG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           53 RGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK   93 (95)
T ss_dssp             SSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEEEECC
T ss_pred             ceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEEEEcc
Confidence            589999999999999999999997    5899999999863

>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=97.84  E-value=1.9e-05  Score=57.10  Aligned_cols=36  Identities=33%  Similarity=0.522  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc------CcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLS------GRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN------GRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|+..||      |..+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~~a   98 (111)
T 1x4h_A           57 KGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLA   98 (111)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECC
T ss_pred             ccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEEEC
Confidence            6899999999999999999999      99999999999996

>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=97.84  E-value=1.8e-05  Score=56.79  Aligned_cols=36  Identities=25%  Similarity=0.484  Sum_probs=34.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC---eeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG---RPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG---R~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|   ++|.+++.
T Consensus        56 ~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a   94 (105)
T 2dnh_A           56 KGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFA   94 (105)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEES
T ss_pred             CcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEEC
Confidence            5899999999999999999999999988   99999996

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.83  E-value=1.3e-05  Score=58.76  Aligned_cols=37  Identities=24%  Similarity=0.307  Sum_probs=34.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|++|+..||+ .|.|++|.+++..
T Consensus        58 ~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a~   94 (116)
T 2cqd_A           58 SRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAY   94 (116)
T ss_dssp             CCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEEST
T ss_pred             cceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEcc
Confidence            358999999999999999999999 9999999999973

>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=97.83  E-value=1.3e-05  Score=61.42  Aligned_cols=37  Identities=35%  Similarity=0.444  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|++|++.|||..+.|++|.+++.-
T Consensus        88 ~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~  124 (129)
T 2kxn_B           88 RGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSI  124 (129)
T ss_dssp             CCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCS
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            5899999999999999999999999999999999863

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.83  E-value=1.6e-05  Score=57.27  Aligned_cols=36  Identities=31%  Similarity=0.529  Sum_probs=34.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+ .|||..+.|++|.+++..
T Consensus        56 ~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   91 (103)
T 2dng_A           56 KGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAE   91 (103)
T ss_dssp             EEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECC
T ss_pred             ceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEec
Confidence            589999999999999999 999999999999999963

>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=97.81  E-value=2e-05  Score=56.80  Aligned_cols=36  Identities=28%  Similarity=0.362  Sum_probs=34.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+ .|||..+.|++|.+++..
T Consensus        57 ~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   92 (104)
T 1wi8_A           57 KGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVAD   92 (104)
T ss_dssp             CSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEECC
T ss_pred             CeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEcc
Confidence            589999999999999999 999999999999999963

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.81  E-value=2.2e-05  Score=55.92  Aligned_cols=35  Identities=17%  Similarity=0.300  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++ |||..+.|++|.+++.
T Consensus        52 ~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A           52 RGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             CSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEEC
T ss_pred             CceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEEC
Confidence            5899999999999999999 9999999999999996

>2wbr_A GW182, gawky, LD47780P; DNA-binding protein, RRM, RBD, TNRC6A, mirnas, P-bodies, argonaute, mRNA decay; NMR {Drosophila melanogaster}

Probab=97.81  E-value=2e-05  Score=59.75  Aligned_cols=36  Identities=19%  Similarity=0.289  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|+.||+|.++++|++|+++|||--+.|++|.|++-
T Consensus        43 kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A           43 QGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             CcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            699999999999999999999999999999999985

>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=97.81  E-value=2.2e-05  Score=56.44  Aligned_cols=37  Identities=27%  Similarity=0.367  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc---CCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY---AGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY---aGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+   .|++|.+++..
T Consensus        55 ~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a~   94 (106)
T 2dgp_A           55 KGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPAD   94 (106)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEECC
Confidence            58999999999999999999999987   99999999963

>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=97.81  E-value=1.4e-05  Score=58.39  Aligned_cols=36  Identities=28%  Similarity=0.525  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        62 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   97 (110)
T 1wf1_A           62 KGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA   97 (110)
T ss_dssp             TTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEES
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            589999999999999999999999999999999996

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.81  E-value=1.1e-05  Score=57.81  Aligned_cols=36  Identities=25%  Similarity=0.493  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcc-cCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRF-YAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRw-YaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||.. +.|++|.+++.
T Consensus        51 ~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a   87 (104)
T 2dhg_A           51 KGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVA   87 (104)
T ss_dssp             EEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBC
T ss_pred             cceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEc
Confidence            5899999999999999999999999 99999999986

>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}

Probab=97.80  E-value=1.7e-05  Score=57.00  Aligned_cols=36  Identities=19%  Similarity=0.339  Sum_probs=32.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc-CcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLS-GRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN-GRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|+ +-.+.|++|.++|+
T Consensus        44 rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a   80 (91)
T 2lxi_A           44 RGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYS   80 (91)
T ss_dssp             SSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECC
T ss_pred             CceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEc
Confidence            5899999999999999999885 55799999999996

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae}

Probab=97.79  E-value=8.2e-05  Score=55.39  Aligned_cols=37  Identities=19%  Similarity=0.424  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|.+|+..|||..+.|++|.+++..
T Consensus        41 ~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~   77 (166)
T 3md3_A           41 VNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAF   77 (166)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcC
Confidence            4899999999999999999999999999999999963

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=97.79  E-value=2.1e-05  Score=63.40  Aligned_cols=36  Identities=28%  Similarity=0.482  Sum_probs=34.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|++.|||..++|++|.|++.
T Consensus       143 ~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a  178 (213)
T 4f02_A          143 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF  178 (213)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            588999999999999999999999999999999874

>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=97.78  E-value=2.6e-05  Score=59.38  Aligned_cols=37  Identities=32%  Similarity=0.658  Sum_probs=35.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.+.++|.+|+..|||..|.|++|.++|.
T Consensus        91 ~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a  127 (143)
T 3egn_A           91 MKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFA  127 (143)
T ss_dssp             TEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEEEC
T ss_pred             cccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            3589999999999999999999999999999999997

>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=97.78  E-value=2.4e-05  Score=60.34  Aligned_cols=37  Identities=22%  Similarity=0.422  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++||..|||..+.|++|.|++..
T Consensus        81 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  117 (156)
T 1h2v_Z           81 CGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA  117 (156)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            5899999999999999999999999999999999974

>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=97.77  E-value=1.9e-05  Score=54.74  Aligned_cols=35  Identities=29%  Similarity=0.509  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+ .|||..|.|++|.+++.
T Consensus        48 ~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a   82 (89)
T 3ucg_A           48 KGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPK   82 (89)
T ss_dssp             CEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEET
T ss_pred             ceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEc
Confidence            689999999999999999 99999999999999986

>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=97.76  E-value=2.1e-05  Score=56.83  Aligned_cols=36  Identities=31%  Similarity=0.372  Sum_probs=34.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|.+|+ .|||..|.|++|.+++.
T Consensus        60 ~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a   95 (100)
T 2j76_E           60 LKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVA   95 (100)
T ss_dssp             CCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEEC
T ss_pred             cCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEec
Confidence            3689999999999999999 99999999999999986

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae}

Probab=97.74  E-value=1.7e-05  Score=56.68  Aligned_cols=36  Identities=22%  Similarity=0.445  Sum_probs=34.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|++|+..|||..+.|++|.+++.
T Consensus        63 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   98 (101)
T 2la4_A           63 KGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWG   98 (101)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEec
Confidence            589999999999999999999999999999998874

>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=97.73  E-value=3.6e-05  Score=56.14  Aligned_cols=36  Identities=19%  Similarity=0.515  Sum_probs=33.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc--------CCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY--------AGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY--------aGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..+        .|++|.|.|.
T Consensus        66 ~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l~v~~a  109 (114)
T 1x5o_A           66 RGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKFS  109 (114)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCBEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCceeEEcc
Confidence            58999999999999999999999999        6888999886

>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=97.72  E-value=3e-05  Score=53.53  Aligned_cols=34  Identities=15%  Similarity=0.482  Sum_probs=32.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|+ .|||..+.|++|.++.
T Consensus        53 kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~r   86 (87)
T 2hzc_A           53 KNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRR   86 (87)
T ss_dssp             SSEEEEEESSHHHHHHHG-GGTTCEETTEECEEEC
T ss_pred             CcEEEEEcCCHHHHHHHH-hcCCCEECCeEEEEeC
Confidence            589999999999999999 9999999999999873

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.71  E-value=5e-05  Score=53.63  Aligned_cols=36  Identities=28%  Similarity=0.403  Sum_probs=33.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      |..||.|.++++|++|+..|||..+.|++|.+++..
T Consensus        55 ~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   90 (96)
T 2e44_A           55 AVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYIP   90 (96)
T ss_dssp             EEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            458999999999999999999999999999999975

>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=97.71  E-value=1.9e-05  Score=55.20  Aligned_cols=36  Identities=28%  Similarity=0.399  Sum_probs=33.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+++ |++|+..|||..+.|++|.++++.
T Consensus        43 ~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a~   78 (90)
T 2ki2_A           43 KGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEAN   78 (90)
T ss_dssp             CEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC-
T ss_pred             ceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEcC
Confidence            589999999999 999999999999999999999974

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.71  E-value=2.4e-05  Score=55.57  Aligned_cols=36  Identities=19%  Similarity=0.527  Sum_probs=34.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCee----eEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRP----IIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~----I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++    |.+++.
T Consensus        52 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~a   91 (99)
T 2div_A           52 AGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYA   91 (99)
T ss_dssp             EEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEET
T ss_pred             CCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEeec
Confidence            489999999999999999999999999999    988886

>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=97.70  E-value=3.4e-05  Score=56.38  Aligned_cols=36  Identities=22%  Similarity=0.289  Sum_probs=34.2

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCC-----eeeEEEecc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAG-----RPIIVDFSP   39 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaG-----R~I~aEfsP   39 (216)
                      |..||.|.++++|++||+.|||..|.|     ++|.+++..
T Consensus        51 g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~   91 (108)
T 1x4c_A           51 GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDG   91 (108)
T ss_dssp             TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESS
T ss_pred             CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCC
Confidence            899999999999999999999999999     999999863

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A

Probab=97.69  E-value=3e-05  Score=52.49  Aligned_cols=34  Identities=12%  Similarity=0.127  Sum_probs=32.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|+. |||..+.|++|.+++
T Consensus        41 ~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~   74 (75)
T 2mss_A           41 RGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             CBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEEC
T ss_pred             CcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEe
Confidence            5899999999999999998 999999999999876

>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=97.69  E-value=2.2e-05  Score=58.74  Aligned_cols=36  Identities=28%  Similarity=0.344  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++||. |||..+.|++|.+++..
T Consensus        67 ~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~  102 (124)
T 1wel_A           67 TGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPIT  102 (124)
T ss_dssp             EEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEEC
T ss_pred             CeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEECC
Confidence            5899999999999999999 99999999999999864

>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=97.68  E-value=2.4e-05  Score=57.25  Aligned_cols=35  Identities=40%  Similarity=0.573  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+ .|||..|.|++|.+++.
T Consensus        67 ~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a  101 (114)
T 2cq4_A           67 KGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             CCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEH
T ss_pred             CcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEec
Confidence            589999999999999999 99999999999999986

>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=97.66  E-value=3.9e-05  Score=63.43  Aligned_cols=37  Identities=22%  Similarity=0.326  Sum_probs=35.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||+|.+.++|.+|+..|||.+|+|++|.+.|..
T Consensus       226 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~  262 (284)
T 3smz_A          226 KGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSFCA  262 (284)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEEec
Confidence            6899999999999999999999999999999999974

>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=97.65  E-value=4.4e-05  Score=62.51  Aligned_cols=37  Identities=24%  Similarity=0.346  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.++++.
T Consensus        42 ~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~   78 (205)
T 3tyt_A           42 PGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSK   78 (205)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcc
Confidence            5899999999999999999999999999999999973

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus}

Probab=97.65  E-value=3.4e-05  Score=57.77  Aligned_cols=36  Identities=28%  Similarity=0.254  Sum_probs=33.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++ |||..+.|++|.+.++.
T Consensus        61 ~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a~   96 (118)
T 2db1_A           61 SGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKSH   96 (118)
T ss_dssp             EEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEEC
T ss_pred             CeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEECC
Confidence            5899999999999999999 99999999999998864

>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=97.65  E-value=0.00013  Score=55.19  Aligned_cols=36  Identities=14%  Similarity=0.449  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|+ .|||..+.|++|.+++..
T Consensus        51 ~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~~~   86 (172)
T 2g4b_A           51 KNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPH   86 (172)
T ss_dssp             TTEEEEEESSHHHHHHHG-GGTTCEETTEECEEECCS
T ss_pred             CCEEEEEeCCHHHHHHHH-HhCCcEecCceeeecCCc
Confidence            589999999999999999 999999999999998853

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens}

Probab=97.64  E-value=4.5e-05  Score=57.90  Aligned_cols=37  Identities=24%  Similarity=0.442  Sum_probs=34.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCc--ccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGR--FYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGR--wYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|.+|++.|||-  ++.|++|.++|+.
T Consensus        57 kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~   95 (100)
T 3r27_A           57 KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYST   95 (100)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecc
Confidence            589999999999999999999987  4899999999984

>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=97.64  E-value=5.9e-05  Score=58.46  Aligned_cols=36  Identities=19%  Similarity=0.383  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc-----CCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY-----AGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY-----aGR~I~aEfs   38 (216)
                      .|+.||+|.++++|++|++.|||+.+     .|++|++.|.
T Consensus        63 rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a  103 (114)
T 2cq2_A           63 KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFV  103 (114)
T ss_dssp             CSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEec
Confidence            48999999999999999999999988     7999999996

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis}

Probab=97.63  E-value=4.8e-05  Score=56.22  Aligned_cols=36  Identities=25%  Similarity=0.438  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+ .|||..|.|++|.+++..
T Consensus        78 ~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           78 KGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             EEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESS
T ss_pred             ccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECC
Confidence            689999999999999999 899999999999999963

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens}

Probab=97.63  E-value=5.2e-05  Score=60.11  Aligned_cols=36  Identities=22%  Similarity=0.286  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++||..|||..+.|++|.|++.
T Consensus        99 kGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a  134 (156)
T 3n9u_C           99 KGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA  134 (156)
T ss_dssp             EEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEc
Confidence            589999999999999999999999999999999986

>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=97.59  E-value=5.7e-05  Score=54.52  Aligned_cols=36  Identities=28%  Similarity=0.374  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc--CcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLS--GRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN--GRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|+  +-.+.|++|.+++.
T Consensus        52 ~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~a   89 (109)
T 2dis_A           52 RGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWA   89 (109)
T ss_dssp             CCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEES
T ss_pred             CcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEEc
Confidence            5899999999999999999996  58999999999996

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.58  E-value=2.7e-05  Score=58.78  Aligned_cols=40  Identities=20%  Similarity=0.200  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDF   43 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF   43 (216)
                      .|+.||+|.++++|++|+ .|||..+.||.|.+......+|
T Consensus        56 ~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a~~~~~   95 (109)
T 2dnn_A           56 NGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPATERQW   95 (109)
T ss_dssp             CSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEECCHHHH
T ss_pred             CeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECCccch
Confidence            699999999999999999 7999999999999877643444

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=97.57  E-value=3.9e-05  Score=58.98  Aligned_cols=37  Identities=24%  Similarity=0.539  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.|++..
T Consensus        89 ~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  125 (135)
T 2lea_A           89 RGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  125 (135)
T ss_dssp             CSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            5899999999999999999999999999999999973

>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=97.57  E-value=8.7e-05  Score=55.29  Aligned_cols=37  Identities=19%  Similarity=0.366  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc--CcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLS--GRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN--GRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|+  +..+.|++|.++|+.
T Consensus        51 kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   89 (101)
T 2cq1_A           51 KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   89 (101)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcC
Confidence            4899999999999999999875  678999999999974

>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=97.56  E-value=8.2e-05  Score=54.11  Aligned_cols=41  Identities=32%  Similarity=0.365  Sum_probs=36.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR   44 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~   44 (216)
                      .|..||.|.++++|++|+.. |+..++||+|.+.++....+.
T Consensus        57 ~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~~~~~~~   97 (104)
T 1wg5_A           57 TGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKSSRAEVR   97 (104)
T ss_dssp             CSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEECTTTSC
T ss_pred             ceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEECCHHHHH
Confidence            58999999999999999998 999999999999887544443

>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=97.55  E-value=4.1e-05  Score=56.03  Aligned_cols=36  Identities=17%  Similarity=0.240  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+. |||.+++|++|.+.++.
T Consensus        55 ~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a~   90 (107)
T 2lmi_A           55 RGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEIN   90 (107)
T ss_dssp             CSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEECC
T ss_pred             eeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEECC
Confidence            5899999999999999999 99999999999988753

>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=97.54  E-value=6.9e-05  Score=55.99  Aligned_cols=37  Identities=16%  Similarity=0.328  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCc--ccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGR--FYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGR--wYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++.|++.  .+.|++|.++|+.
T Consensus        51 kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~   89 (104)
T 1wex_A           51 KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcc
Confidence            489999999999999999999864  5999999999974

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=96.68  E-value=1.2e-05  Score=59.12  Aligned_cols=36  Identities=31%  Similarity=0.579  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|||..|.|++|.|++.
T Consensus        57 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (116)
T 2lcw_A           57 KGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   92 (116)
Confidence            589999999999999999999999999999999996

>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=97.51  E-value=7.7e-05  Score=56.10  Aligned_cols=37  Identities=19%  Similarity=0.436  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCc--ccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGR--FYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGR--wYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.||+.  .+.|++|.++++.
T Consensus        52 kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   90 (102)
T 1x4d_A           52 INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   90 (102)
T ss_dssp             SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECC
Confidence            388999999999999999999975  4999999999974

>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=97.50  E-value=9.7e-05  Score=57.37  Aligned_cols=37  Identities=22%  Similarity=0.468  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcC--cccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSG--RFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNG--RwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|++  ..+.|++|.++|+.
T Consensus        67 kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  105 (119)
T 2ad9_A           67 KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN  105 (119)
T ss_dssp             GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEcc
Confidence            48999999999999999999985  68999999999974

>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=97.49  E-value=0.00028  Score=58.24  Aligned_cols=37  Identities=24%  Similarity=0.401  Sum_probs=35.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|+..|||..+.|++|.+++.|
T Consensus        57 ~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~   93 (284)
T 3smz_A           57 KGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQP   93 (284)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecC
Confidence            5899999999999999999999999999999999976

>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=97.48  E-value=6.9e-05  Score=58.78  Aligned_cols=36  Identities=28%  Similarity=0.245  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++ |||..+.||+|.+.++.
T Consensus        88 rG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a~  123 (136)
T 2hgl_A           88 SGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKSH  123 (136)
T ss_dssp             EEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEECC
T ss_pred             CeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEECC
Confidence            5899999999999999999 99999999999998864

>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=97.47  E-value=7.8e-05  Score=55.08  Aligned_cols=36  Identities=25%  Similarity=0.449  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++||.. ||..+.|++|.+++..
T Consensus        57 ~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~   92 (114)
T 2cpy_A           57 LGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVT   92 (114)
T ss_dssp             SSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECC
Confidence            68999999999999999998 9999999999998863

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=97.47  E-value=0.00023  Score=56.37  Aligned_cols=55  Identities=20%  Similarity=0.287  Sum_probs=43.9

Q ss_pred             cce-EEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEeccC----CCcccceecccccCcCC
Q 027939            3 VGN-VYVQFREEEQAARALKSLSGRFYAG--RPIIVDFSPV----TDFREATCRQYEENTCN   57 (216)
Q Consensus         3 ~GN-VYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfsPV----tdF~eA~Crq~~~g~C~   57 (216)
                      .|+ .||+|.++++|++|++.|||.-+.|  ++|.++|+..    ..+....++.|..-..|
T Consensus        65 ~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak~~~l~v~~n~~~srDyt~~~lp  126 (130)
T 3zzy_A           65 NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNNDKSRDYTRPDLP  126 (130)
T ss_dssp             TEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECSCSSCCCCCCSSSEEETTCTTCC
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecCCCceeEEecCCCcccCCCCCCC
Confidence            366 9999999999999999999999988  9999999844    34455677777544443

>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=97.46  E-value=0.00012  Score=56.39  Aligned_cols=37  Identities=19%  Similarity=0.373  Sum_probs=33.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcC--cccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSG--RFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNG--RwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.||+  ..+.|++|.|+|+.
T Consensus        62 kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  100 (112)
T 1x4f_A           62 KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE  100 (112)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECc
Confidence            58999999999999999999964  67999999999973

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.46  E-value=8.8e-05  Score=54.96  Aligned_cols=37  Identities=22%  Similarity=0.428  Sum_probs=33.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|++|+. |+|..|.|++|.+.+..
T Consensus        51 ~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           51 FKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   87 (103)
T ss_dssp             CCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHH
T ss_pred             CccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEch
Confidence            36999999999999999999 99999999999998753

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.44  E-value=7.9e-05  Score=56.92  Aligned_cols=37  Identities=22%  Similarity=0.455  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc--CcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLS--GRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN--GRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|+  +..+.|++|.++|+.
T Consensus        52 kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~   90 (105)
T 1sjq_A           52 KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN   90 (105)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcC
Confidence            4899999999999999999986  479999999999974

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.43  E-value=4e-05  Score=53.04  Aligned_cols=35  Identities=17%  Similarity=0.142  Sum_probs=32.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|++.|||.-+.|+.|.+..
T Consensus        47 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~   81 (85)
T 1x4e_A           47 KGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSG   81 (85)
T ss_dssp             CSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSC
T ss_pred             CcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecC
Confidence            58999999999999999999999999999997654

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.42  E-value=7.1e-05  Score=50.54  Aligned_cols=35  Identities=14%  Similarity=0.185  Sum_probs=32.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|+ -.+.|++|.+++.
T Consensus        42 ~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~a   76 (77)
T 1uaw_A           42 RGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             SSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEec
Confidence            5899999999999999999999 9999999999863

>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=97.41  E-value=9.4e-05  Score=54.32  Aligned_cols=36  Identities=19%  Similarity=0.221  Sum_probs=33.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|| .||+..+.||+|.+.++.
T Consensus        55 ~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~~~   90 (102)
T 1wez_A           55 TGEADVEFATHEDAVAAM-AKDKANMQHRYVELFLNS   90 (102)
T ss_dssp             EEEEEEECSSSHHHHHHH-TTSSCCSSSSCCEEEEEC
T ss_pred             eeEEEEEECCHHHHHHHH-HhCCCeECCcEEEEEECC
Confidence            589999999999999999 589999999999998864

>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=97.40  E-value=0.00015  Score=55.19  Aligned_cols=36  Identities=28%  Similarity=0.328  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|+ .|||..+.|++|.+++..
T Consensus        54 ~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~   89 (175)
T 1fje_B           54 RKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPK   89 (175)
T ss_dssp             TTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCC
T ss_pred             ccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCC
Confidence            589999999999999999 599999999999999974

>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=97.38  E-value=0.00035  Score=57.48  Aligned_cols=51  Identities=24%  Similarity=0.349  Sum_probs=40.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEeccCC----Ccccceeccccc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDFSPVT----DFREATCRQYEE   53 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfsPVt----dF~eA~Crq~~~   53 (216)
                      .|+.||+|.++++|++|++.|||..+.|  ++|.++|+-..    .+....++.|..
T Consensus        84 rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~~~l~vk~nn~rsrDyt~  140 (164)
T 1sjr_A           84 QFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKLTSLNVKYNNDKSRDYTR  140 (164)
T ss_dssp             CEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSSSSCCCCCCSSSEEESSC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecCCcccccccCCCCccccC
Confidence            4789999999999999999999999955  99999997433    244455666543

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=97.37  E-value=7e-05  Score=53.83  Aligned_cols=35  Identities=23%  Similarity=0.257  Sum_probs=33.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+.. ||..|.|++|.+++.
T Consensus        58 ~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a   92 (105)
T 2dh8_A           58 RGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPC   92 (105)
T ss_dssp             EEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCS
T ss_pred             ceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEc
Confidence            48999999999999999999 999999999999986

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=97.37  E-value=0.00017  Score=56.25  Aligned_cols=36  Identities=19%  Similarity=0.269  Sum_probs=32.9

Q ss_pred             ce-EEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEecc
Q 027939            4 GN-VYVQFREEEQAARALKSLSGRFYAG--RPIIVDFSP   39 (216)
Q Consensus         4 GN-VYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfsP   39 (216)
                      |+ .||+|.++++|.+|+++|||..+.|  ++|.++|+-
T Consensus        62 Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak  100 (124)
T 2e5i_A           62 GIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYAR  100 (124)
T ss_dssp             SEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCS
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEec
Confidence            75 9999999999999999999998877  699999973

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A*

Probab=97.36  E-value=0.00025  Score=57.04  Aligned_cols=37  Identities=30%  Similarity=0.591  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.||+..+.|++|.+.+..
T Consensus        57 ~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~   93 (213)
T 4f02_A           57 LGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   93 (213)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cccccceeCCHHHHHHHHHHhhhhhcCCccccccccc
Confidence            4899999999999999999999999999999998864

>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=97.34  E-value=0.00018  Score=58.49  Aligned_cols=37  Identities=32%  Similarity=0.472  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||..|.|++|.+++..
T Consensus        72 ~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~  108 (229)
T 2adc_A           72 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK  108 (229)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEec
Confidence            4899999999999999999999999999999999974

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.32  E-value=0.00015  Score=53.10  Aligned_cols=35  Identities=17%  Similarity=0.192  Sum_probs=33.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+.. +|..|.|++|.+++.
T Consensus        69 ~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a  103 (116)
T 1x4b_A           69 RGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRA  103 (116)
T ss_dssp             CSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECC
T ss_pred             CceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEEC
Confidence            58999999999999999999 999999999999996

>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=97.32  E-value=0.00021  Score=58.95  Aligned_cols=36  Identities=28%  Similarity=0.599  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|.+|++.|||..+.|++|.+++.
T Consensus        52 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   87 (282)
T 3pgw_A           52 RGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   87 (282)
T ss_pred             ceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEe
Confidence            589999999999999999999999999999999997

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=97.32  E-value=0.00013  Score=57.00  Aligned_cols=37  Identities=32%  Similarity=0.472  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|+..|||..+.|++|.++++.
T Consensus        41 ~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~   77 (198)
T 1qm9_A           41 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   77 (198)
T ss_dssp             SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEec
Confidence            4889999999999999999999999999999999974

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=97.32  E-value=0.00014  Score=56.23  Aligned_cols=35  Identities=14%  Similarity=0.472  Sum_probs=33.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|+ .|||..+.|++|.+++.
T Consensus        51 ~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~v~~~   85 (198)
T 2yh0_A           51 KNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRP   85 (198)
T ss_dssp             TTEEEEEESCSHHHHHHG-GGTTEEETTEEEEEECC
T ss_pred             CCEEEEEeCCHHHHHHHH-HhcCCEEcCceEEEeCC
Confidence            589999999999999999 89999999999999985

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=97.31  E-value=8e-05  Score=56.28  Aligned_cols=35  Identities=29%  Similarity=0.440  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCc----ccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGR----FYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGR----wYaGR~I~aEfs   38 (216)
                      .|+.||.|.++ +|.+|+..|||.    .+.|++|.+++.
T Consensus        67 rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V~~a  105 (131)
T 2m2b_A           67 RGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINVEFA  105 (131)
T ss_dssp             CSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCCEEC
T ss_pred             ceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEEEEC
Confidence            58999999999 999999999999    999999999986

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=97.31  E-value=0.00022  Score=55.77  Aligned_cols=37  Identities=27%  Similarity=0.398  Sum_probs=33.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++.|||..+.|++|.+.+..
T Consensus        70 ~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~  106 (216)
T 2qfj_A           70 KGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPS  106 (216)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCS
T ss_pred             CceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCC
Confidence            5899999999999999999999999999999998753

>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=97.29  E-value=0.00012  Score=61.33  Aligned_cols=36  Identities=19%  Similarity=0.191  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|+.||.|.++++|++||+.|||..|.|++|.|++.
T Consensus       112 kGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a  147 (229)
T 3q2s_C          112 KGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPV  147 (229)
T ss_dssp             EEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEEC
Confidence            589999999999999999999999999999999986

>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=97.26  E-value=0.00073  Score=55.96  Aligned_cols=37  Identities=19%  Similarity=0.301  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|.+|+..|||..+.|++|.+.++.
T Consensus       159 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  195 (292)
T 2ghp_A          159 RRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN  195 (292)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            5899999999999999999999999999999999963

>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=97.21  E-value=0.00032  Score=48.62  Aligned_cols=34  Identities=18%  Similarity=0.262  Sum_probs=30.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|++. ++..+.|++|.+++
T Consensus        53 ~g~afV~f~~~~~a~~A~~~-~~~~~~g~~i~v~~   86 (87)
T 3s7r_A           53 RGFGFILFKDAASVEKVLDQ-KEHRLDGRVIDPKK   86 (87)
T ss_dssp             EEEEEEEESSTHHHHHHHHS-SCEEETTEEEEEEE
T ss_pred             ccEEEEEECCHHHHHHHHHh-CCCEECCEEEEEEe
Confidence            58999999999999999965 77789999999876

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=97.15  E-value=0.00038  Score=51.19  Aligned_cols=35  Identities=14%  Similarity=0.185  Sum_probs=32.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..|+ -.+.|++|.+++.
T Consensus        67 kg~afV~f~~~~~A~~Ai~~~~-~~l~g~~l~V~~a  101 (109)
T 2rs2_A           67 RGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA  101 (109)
T ss_dssp             TTCEEEEESSHHHHHHHHHSSC-EEETTEEEEEEEC
T ss_pred             CcEEEEEECCHHHHHHHHHHCC-CcCCCEEEEEEEc
Confidence            5899999999999999999985 9999999999986

>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=97.09  E-value=0.00015  Score=57.10  Aligned_cols=38  Identities=26%  Similarity=0.257  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVT   41 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVt   41 (216)
                      .|+.||+|.++++|++|| .||+..+.||+|.+.++...
T Consensus        86 rGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a~~~  123 (139)
T 2hgn_A           86 TGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLNSTT  123 (139)
T ss_dssp             SCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEECCCS
T ss_pred             ceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEECCCC
Confidence            689999999999999999 89999999999999886543

>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=97.08  E-value=0.0017  Score=48.69  Aligned_cols=36  Identities=22%  Similarity=0.257  Sum_probs=30.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccC---CeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYA---GRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYa---GR~I~aEfs   38 (216)
                      .|..||+|.++++|++|++.|||..+.   +++|.+.+.
T Consensus        47 ~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~   85 (175)
T 3nmr_A           47 KGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPA   85 (175)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEccc
Confidence            478999999999999999999997665   577777664

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.06  E-value=0.00029  Score=49.92  Aligned_cols=34  Identities=15%  Similarity=0.081  Sum_probs=31.7

Q ss_pred             eEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            5 NVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         5 NVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..||.|.++++|++|+. |||-.|.|++|.+++..
T Consensus        47 ~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~   80 (94)
T 2e5g_A           47 FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPRE   80 (94)
T ss_dssp             EEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSC
T ss_pred             EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECC
Confidence            68999999999999999 99999999999998753

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.04  E-value=0.00052  Score=51.35  Aligned_cols=35  Identities=20%  Similarity=0.380  Sum_probs=31.9

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|+.||+|.+.++|++|++.|++  +.|++|.+++.
T Consensus        53 ~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a   87 (100)
T 2d9o_A           53 KPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWL   87 (100)
T ss_dssp             SSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECS
T ss_pred             CCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEc
Confidence            369999999999999999999887  68999999986

>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=97.03  E-value=0.00035  Score=47.01  Aligned_cols=34  Identities=15%  Similarity=0.231  Sum_probs=31.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|++. ++.-+.|++|.+.+
T Consensus        41 ~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~v~~   74 (75)
T 1iqt_A           41 RGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKV   74 (75)
T ss_dssp             CCCEEEECSSSHHHHHHHTT-SSCCBTTBCCCEEE
T ss_pred             CCEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEE
Confidence            58999999999999999995 89999999999876

>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=96.99  E-value=0.00072  Score=56.12  Aligned_cols=37  Identities=22%  Similarity=0.406  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|.+|+..|||..+.|++|.+.++.
T Consensus        58 kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~   94 (261)
T 3sde_A           58 RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFAT   94 (261)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecc
Confidence            5899999999999999999999999999999999864

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=96.99  E-value=0.00075  Score=49.73  Aligned_cols=41  Identities=17%  Similarity=0.253  Sum_probs=33.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      .|..||.|.++++|++|++.|++  ++|+.|.+...+...-+.
T Consensus        52 ~G~aFV~f~~~~~a~~Ai~~~~~--~~G~~~~~~~~~~~~~~~   92 (114)
T 2dnl_A           52 KGYAFLLFQEESSVQALIDACLE--EDGKLYLCVSSPTIKDKP   92 (114)
T ss_dssp             TSEEEECCSSHHHHHHHHHHSEE--ETTEEEEEECCSSSCSEE
T ss_pred             ccEEEEEECCHHHHHHHHHhhhh--cCCcEEEeccCCCcCCCe
Confidence            68999999999999999999965  788888877765443333

>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=96.97  E-value=0.0015  Score=54.15  Aligned_cols=36  Identities=17%  Similarity=0.183  Sum_probs=33.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++ |||..+.|++|.+++.+
T Consensus        81 ~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i~v~~~~  116 (292)
T 2ghp_A           81 FRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHLT  116 (292)
T ss_dssp             SEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEECC
T ss_pred             cEEEEEEECCHHHHHHHHH-hCCcEeCCcEEEEEECC
Confidence            4899999999999999995 99999999999999863

>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=96.97  E-value=0.00083  Score=47.98  Aligned_cols=34  Identities=21%  Similarity=0.297  Sum_probs=31.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+..  +-.+.|++|.+++.
T Consensus        57 ~g~afV~f~~~~~a~~A~~~--~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           57 KGFGFVRFTEYETQVKVMSQ--RHMIDGRWCDCKLP   90 (103)
T ss_dssp             EEEEEEEESSHHHHHHHHHS--CEEETTEEEEEECC
T ss_pred             cceEEEEECCHHHHHHHHHc--CCeeCCeEEEEEec
Confidence            58999999999999999994  67999999999996

>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=96.94  E-value=0.0002  Score=55.72  Aligned_cols=36  Identities=33%  Similarity=0.325  Sum_probs=32.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|+.||+|.++++|++||+. ++..+.||+|.+..+.
T Consensus        84 rGfaFV~F~~~e~A~~Al~~-~~~~l~gR~I~V~~a~  119 (126)
T 2hgm_A           84 TGEAFVQFASQELAEKALGK-HKERIGHRYIEVFKSS  119 (126)
T ss_dssp             CSEEEEEESSTTHHHHHHTT-TTCCBTTBCCCCEEEC
T ss_pred             ceEEEEEECCHHHHHHHHHH-CCCEECCEEEEEEECC
Confidence            69999999999999999985 7799999999987753

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.85  E-value=0.00041  Score=53.51  Aligned_cols=36  Identities=31%  Similarity=0.330  Sum_probs=32.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|+.||+|.++++|++||+. |+..+.||.|.+..+.
T Consensus        68 ~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a~  103 (123)
T 2dha_A           68 TGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRST  103 (123)
T ss_dssp             EEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEEC
T ss_pred             eeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEECC
Confidence            58999999999999999996 9999999999877653

>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=96.71  E-value=0.0016  Score=50.05  Aligned_cols=36  Identities=17%  Similarity=0.183  Sum_probs=33.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|.+|++. ++..+.|++|.+.+..
T Consensus        55 ~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~~   90 (196)
T 1l3k_A           55 RGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAV   90 (196)
T ss_dssp             EEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEECC
T ss_pred             cceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeeccc
Confidence            58999999999999999987 9999999999999863

>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=96.62  E-value=0.0018  Score=53.77  Aligned_cols=37  Identities=32%  Similarity=0.560  Sum_probs=32.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHh-cCcccC---CeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL-SGRFYA---GRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L-NGRwYa---GR~I~aEfsP   39 (216)
                      .|..||.|.+.++|.+|+..| +|.|+.   |++|.+++..
T Consensus       137 ~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~~  177 (261)
T 3sde_A          137 TGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPME  177 (261)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEECC
T ss_pred             CcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeecc
Confidence            589999999999999999999 566666   9999999864

>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=96.55  E-value=0.0024  Score=48.77  Aligned_cols=37  Identities=14%  Similarity=0.108  Sum_probs=34.6

Q ss_pred             CcceEEEEeCCHHHHHHHHHHh-cCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSL-SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~L-NGRwYaGR~I~aEfsP   39 (216)
                      |.|..+|+|.+.++|++|++.| ||..+.| +|.+.+..
T Consensus        12 l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~   49 (150)
T 2i2y_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDAT   49 (150)
T ss_dssp             SCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTT
T ss_pred             ccccceeeecCHHHHHHHHHHHhcCCCCCC-ceeccccc
Confidence            7899999999999999999999 9999999 99998753

>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=96.51  E-value=0.0017  Score=48.74  Aligned_cols=68  Identities=12%  Similarity=0.190  Sum_probs=45.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcccceecccccCcCCCCCCCCcccccCCCHHHHHHHHhhh
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLFGRY   82 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~Lf~~~   82 (216)
                      .|..||+|.++++|++|++.  +..+.|++|.+.+.....-....+..|..+--           ...+.+-.+++|..|
T Consensus        45 ~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~~~~~~~~~~l~V~nlp-----------~~~t~~~l~~~F~~~  111 (167)
T 2cjk_A           45 RGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIPRDEQDKTGKIFVGGIG-----------PDVRPKEFEEFFSQW  111 (167)
T ss_dssp             CSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCCHHHHHHCEEEEEEEEC-----------TTCCHHHHHHHHHTT
T ss_pred             cceEEEEEccHHHHHHHHhc--ccccCCeEcccccccchhhccCCCeEEECCCC-----------CCCCHHHHHHHHHhC
Confidence            58999999999999999995  56899999998886432222233333322211           134566677788775


Q ss_pred             h
Q 027939           83 R   83 (216)
Q Consensus        83 ~   83 (216)
                      -
T Consensus       112 G  112 (167)
T 2cjk_A          112 G  112 (167)
T ss_dssp             S
T ss_pred             c
Confidence            3

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=96.15  E-value=0.0016  Score=46.44  Aligned_cols=34  Identities=15%  Similarity=0.297  Sum_probs=31.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+.  +|-.++|++|.+.+.
T Consensus        50 ~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a   83 (102)
T 2xs2_A           50 KGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPA   83 (102)
T ss_dssp             EEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEE
T ss_pred             cceEEEEECCHHHHHHHHh--CCCeECCEEEEEEEC
Confidence            5899999999999999999  999999999998875

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.12  E-value=0.006  Score=46.38  Aligned_cols=40  Identities=23%  Similarity=0.346  Sum_probs=34.8

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCccc
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE   45 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~e   45 (216)
                      +..||.|.+.++|.+|++ |||--++||.|.+.+-- ++|-+
T Consensus        50 d~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt-~dW~~   89 (91)
T 2dnr_A           50 DKMWVTFLEGSSALNVLS-LNGKELLNRTITIALKS-PSGPS   89 (91)
T ss_dssp             SSEEEEESSHHHHHHGGG-GTTCEETTEEEEEEECC-CSSCS
T ss_pred             CCEEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCC-CCccc
Confidence            457999999999999998 99999999999999953 37754

>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=95.83  E-value=0.021  Score=51.56  Aligned_cols=71  Identities=17%  Similarity=0.309  Sum_probs=51.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc---CCe--eeEEEeccCCCcccceecccccCcCCCCCCCCcccccCCCHHHHHH
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY---AGR--PIIVDFSPVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQ   77 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY---aGR--~I~aEfsPVtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~   77 (216)
                      .|+.||+|.++++|++|+++|||.-+   .|+  +|.+.|+.-..     |..+....-+-|   =+++.--++.+-...
T Consensus        56 kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~~~~~~-----~~~~~~~~lp~G---l~~~p~fis~~Ee~~  127 (345)
T 3tht_A           56 KPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQ-----WKELRPQALPPG---LMVVEEIISSEEEKM  127 (345)
T ss_dssp             CSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEECSSEE-----EEEEECCSCCTT---EEEETTCSCHHHHHH
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEEeeccc-----ccccccccCCCc---eEEEcCcCCHHHHHH
Confidence            58999999999999999999999988   355  78888873111     333333455665   445555578888888


Q ss_pred             HHhh
Q 027939           78 LFGR   81 (216)
Q Consensus        78 Lf~~   81 (216)
                      |...
T Consensus       128 Ll~~  131 (345)
T 3tht_A          128 LLES  131 (345)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            8876

>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=95.70  E-value=0.0084  Score=46.03  Aligned_cols=32  Identities=22%  Similarity=0.362  Sum_probs=30.4

Q ss_pred             eEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            5 NVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         5 NVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      -.||.|.+.++|.+|++ |||--++||+|.+.+
T Consensus        60 ~~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~~   91 (95)
T 1ufw_A           60 QMLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             EEEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             cEEEEEcChHHHHHHHh-cCCeeeCCeEEEEec
Confidence            47999999999999999 999999999999987

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=94.40  E-value=0.019  Score=46.65  Aligned_cols=37  Identities=19%  Similarity=0.232  Sum_probs=31.2

Q ss_pred             cceEEEEeCC----HHH----HHHHHH--HhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFRE----EEQ----AARALK--SLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~----ee~----A~~Av~--~LNGRwYaGR~I~aEfsP   39 (216)
                      .|+.||+|.+    +++    |.+|+.  .|||--++|++|.|+|-+
T Consensus        48 lGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           48 LHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             EEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEEECC
T ss_pred             eeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEEECc
Confidence            6999999996    333    889989  899999999999999865

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.31  E-value=0.016  Score=41.59  Aligned_cols=31  Identities=19%  Similarity=0.657  Sum_probs=26.4

Q ss_pred             CCCcccceecccccCcCCCCCCCCcccccCC
Q 027939           40 VTDFREATCRQYEENTCNRGGYCNFMHLKRI   70 (216)
Q Consensus        40 VtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~   70 (216)
                      ....+..+|+-|..|.|.+|..|.|+|-..+
T Consensus         5 ~~~~k~~~C~~fl~G~C~~G~~C~fsH~~~~   35 (77)
T 2d9n_A            5 SSGEKTVVCKHWLRGLCKKGDQCEFLHEYDM   35 (77)
T ss_dssp             CSCCTTSBCHHHHTTCCSCTTSSSSBCSCCT
T ss_pred             CCCCcceeCHhHccCcCCCCCCCCCcccccc
Confidence            4566788999999999999999999997654

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=94.15  E-value=0.034  Score=47.86  Aligned_cols=26  Identities=19%  Similarity=0.252  Sum_probs=24.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY   28 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY   28 (216)
                      .|++||.|.++++|+.|+.+|+|..+
T Consensus       179 kG~AFV~F~~~~~Ae~A~~am~g~~l  204 (240)
T 3u1l_A          179 KNCGFVKFKYQANAEFAKEAMSNQTL  204 (240)
T ss_dssp             GTEEEEEESSHHHHHHHHHHHTTCCC
T ss_pred             CCEEEEEeCCHHHHHHHHHHhCCCEE
Confidence            59999999999999999999999877

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=94.02  E-value=0.031  Score=39.12  Aligned_cols=32  Identities=28%  Similarity=0.711  Sum_probs=27.7

Q ss_pred             ccCCCcccceeccc-ccCcCCCCCCCCcccccC
Q 027939           38 SPVTDFREATCRQY-EENTCNRGGYCNFMHLKR   69 (216)
Q Consensus        38 sPVtdF~eA~Crq~-~~g~C~RGg~CNFmHvk~   69 (216)
                      .|...|+..+|+.| ..|.|..|..|.|.|...
T Consensus         5 ~~~~~~kt~~C~~f~~~G~C~~G~~C~f~H~~~   37 (77)
T 1m9o_A            5 TTSSRYKTELCRTYSESGRCRYGAKCQFAHGLG   37 (77)
T ss_dssp             CCSSCCCSCCCSGGGGTSCCTTTTTCSSCSSSC
T ss_pred             CCCCCccchhCHHhhhCCCcCCCCCccCCCCCh
Confidence            35578999999999 489999999999999764

>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=93.26  E-value=0.16  Score=38.43  Aligned_cols=25  Identities=12%  Similarity=0.191  Sum_probs=22.8

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGR   26 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGR   26 (216)
                      +.|..||+|.+.++|++|++.|++.
T Consensus        12 ~~G~~fV~f~~~~~A~~al~~~~~~   36 (158)
T 2kn4_A           12 LKGETTTEAVDAATAEKVFKQYAND   36 (158)
T ss_dssp             CEEEEEEECSSHHHHHHHHHHHHHH
T ss_pred             ccchhHHHHHHHHhHHHHHHhhccc
Confidence            5799999999999999999999864

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=93.24  E-value=0.02  Score=40.55  Aligned_cols=25  Identities=44%  Similarity=0.999  Sum_probs=21.1

Q ss_pred             ccceecccccCcCCCCC-CCCccccc
Q 027939           44 REATCRQYEENTCNRGG-YCNFMHLK   68 (216)
Q Consensus        44 ~eA~Crq~~~g~C~RGg-~CNFmHvk   68 (216)
                      +.++|+.|..|.|.+|. .|.|.|..
T Consensus         5 k~~vC~~f~~G~C~rg~~~C~f~H~~   30 (70)
T 3d2q_A            5 RLEVCREYQRGNCNRGENDCRFAHPA   30 (70)
T ss_dssp             EEEBCHHHHTTCCSSCTTTCSSBCCC
T ss_pred             cchhCHHHhcCCCCCCCCCCCCccCc
Confidence            34689999999999998 59999964

>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=93.23  E-value=0.091  Score=37.16  Aligned_cols=32  Identities=22%  Similarity=0.347  Sum_probs=26.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc--CCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY--AGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY--aGR~I~aEfs   38 (216)
                      .|..||.|.++++|+    .|+|..+  .|++|.+.+.
T Consensus        48 rGfaFV~F~~~~~A~----~~~~~~~~~~g~~v~v~~a   81 (89)
T 3d2w_A           48 RAFAFVTFADDKVAQ----SLCGEDLIIKGISVHISNA   81 (89)
T ss_dssp             CSEEEEEESCHHHHH----HHTTCEEEETTEEEEEEEC
T ss_pred             CCEEEEEECCHHHHH----HHcCCCcccCCEEEEEEEc
Confidence            599999999999998    3566655  4999988875

>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=92.62  E-value=0.042  Score=38.00  Aligned_cols=32  Identities=16%  Similarity=0.262  Sum_probs=25.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcc--cCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRF--YAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRw--YaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|    ++.-  +.|++|.+.+.
T Consensus        42 ~g~afV~f~~~~~a~~~----~~~~~~~~g~~l~v~~a   75 (88)
T 1wf0_A           42 RAFAFVTFADDQIAQSL----CGEDLIIKGISVHISNA   75 (88)
T ss_dssp             CSCCEEECSCHHHHHHT----TTCEEEETTEEEEEECC
T ss_pred             CCEEEEEECCHHHHHHH----hcCCceeCCEEEEEEec
Confidence            58999999999999754    4443  48999998885

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=92.48  E-value=0.14  Score=40.92  Aligned_cols=34  Identities=26%  Similarity=0.411  Sum_probs=30.9

Q ss_pred             ceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            4 GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         4 GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      |=+.|.|.++..|.+|.-+|+|--|+||.|.|--
T Consensus        63 ~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gT   96 (117)
T 2l9w_A           63 NGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGT   96 (117)
T ss_dssp             TEEEEECSCHHHHHHHHHHHSSEEETTEEEEEEC
T ss_pred             CceEEEEccchhhHHHHhhcCCeeecCeEEEecC
Confidence            4578999999999999999999999999998753

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=92.37  E-value=0.057  Score=40.92  Aligned_cols=35  Identities=23%  Similarity=0.560  Sum_probs=27.8

Q ss_pred             CCcccceecccccCcCCCCCCCCcccccCCCHHHHHHHH
Q 027939           41 TDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLF   79 (216)
Q Consensus        41 tdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~Lf   79 (216)
                      .+-+..+|..|..|.|.++ .|-|+|+   +..|+..|-
T Consensus        52 ~~~~~~vC~~flkG~C~r~-~C~y~H~---~~~l~~~~~   86 (98)
T 2e5s_A           52 SDNTVTVCMDYIKGRCMRE-KCKYFHP---PAHLQAKIK   86 (98)
T ss_dssp             TTCEEEBCHHHHHTCCCCT-TCCSBCC---CHHHHHHHH
T ss_pred             cCCccccchhhccCCCCCC-CcCccCC---hHHHHHHHH
Confidence            4577889999999999999 9999996   446666543

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=92.26  E-value=0.051  Score=40.20  Aligned_cols=27  Identities=30%  Similarity=0.802  Sum_probs=21.6

Q ss_pred             cccceecccccCcCCCCC-CCCcccccC
Q 027939           43 FREATCRQYEENTCNRGG-YCNFMHLKR   69 (216)
Q Consensus        43 F~eA~Crq~~~g~C~RGg-~CNFmHvk~   69 (216)
                      .+.++|+.|..|.|.+|. .|.|.|...
T Consensus         7 ~~~~VCr~FlrG~C~r~d~~C~f~H~~~   34 (83)
T 3d2n_A            7 LTLEVCREFQRGTCSRPDTECKFAHPSK   34 (83)
T ss_dssp             GEEEBCTTGGGTCCCSCTTTCSSBCCCT
T ss_pred             ccchhcHHHhcCCCCCCCCCCCCcCCCc
Confidence            456789999889999985 899998854

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=92.05  E-value=0.043  Score=39.27  Aligned_cols=31  Identities=19%  Similarity=0.685  Sum_probs=23.0

Q ss_pred             CCCcccceecccccCcCCCCCCCCcccccCC
Q 027939           40 VTDFREATCRQYEENTCNRGGYCNFMHLKRI   70 (216)
Q Consensus        40 VtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~   70 (216)
                      ....+..+|+-|..|.|.+|..|.|.|-..+
T Consensus        11 ~~~~k~~vCk~fl~G~C~~G~~C~fsH~~~~   41 (72)
T 2rhk_C           11 MSGEKTVVCKHWLRGLCKKGDQCEFLHEYDM   41 (72)
T ss_dssp             SSCCCCSBCHHHHTTCCCCGGGSSSBCSCCT
T ss_pred             CCCCcCeeCHHHhcCCCCCCCCCCCcccccc
Confidence            3456677888888888888888888887543

>3d2q_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 1.50A {Homo sapiens} PDB: 3d2s_A

Probab=91.81  E-value=0.041  Score=38.86  Aligned_cols=28  Identities=25%  Similarity=0.644  Sum_probs=24.3

Q ss_pred             CCCcccceecccccCcCCCCCCCCccccc
Q 027939           40 VTDFREATCRQYEENTCNRGGYCNFMHLK   68 (216)
Q Consensus        40 VtdF~eA~Crq~~~g~C~RGg~CNFmHvk   68 (216)
                      +..-+..+|..|..|.|.+| .|-|+|+.
T Consensus        37 ~~~~~~~vC~~flkG~C~r~-~C~y~H~~   64 (70)
T 3d2q_A           37 TNDNTVTVCMDYIKGRCSRE-KCKYFHPP   64 (70)
T ss_dssp             TTTTEEEBCHHHHTTCCCCT-TCCSBCCC
T ss_pred             ccCCcceeccccCcCCCCCC-CcCeeCCH
Confidence            34567899999999999999 99999963

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=91.21  E-value=0.066  Score=40.21  Aligned_cols=26  Identities=35%  Similarity=0.837  Sum_probs=20.4

Q ss_pred             ccceecccccCcCCCCC-CCCcccccC
Q 027939           44 REATCRQYEENTCNRGG-YCNFMHLKR   69 (216)
Q Consensus        44 ~eA~Crq~~~g~C~RGg-~CNFmHvk~   69 (216)
                      +.++|+.|..|.|.||. .|.|.|...
T Consensus        16 ~~~VCrdFlrG~C~r~d~~CrfsH~~~   42 (89)
T 2rpp_A           16 TLEVCRQFQRGTCSRSDEECKFAHPPK   42 (89)
T ss_dssp             EECBCHHHHHTCCCCCTTTSSSBCCCS
T ss_pred             hhhhchHHhcCCCCCCCCCCCCcCCCc
Confidence            36788888888888886 888888754

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=91.08  E-value=0.12  Score=38.90  Aligned_cols=25  Identities=28%  Similarity=0.648  Sum_probs=16.6

Q ss_pred             cceeccc-ccCcCCCCCCCCcccccC
Q 027939           45 EATCRQY-EENTCNRGGYCNFMHLKR   69 (216)
Q Consensus        45 eA~Crq~-~~g~C~RGg~CNFmHvk~   69 (216)
                      ..+|..| ..|.|..|..|.|+|...
T Consensus        36 ~~~C~~f~~~G~C~~G~~C~f~H~~~   61 (98)
T 2cqe_A           36 DFPCKLYHTTGNCINGDDCMFSHDPL   61 (98)
T ss_dssp             SSBCSHHHHTSCCSSCTTCSSBCCCC
T ss_pred             CCcCcCcccCCcCCCCCCCcccCCCC
Confidence            4567766 367777777777777643

>2rhk_C Cleavage and polyadenylation specificity factor subunit 4; influenza A, nonstructural protein, viral protein: HOST complex, Zn finger; 1.95A {Homo sapiens}

Probab=91.07  E-value=0.055  Score=38.67  Aligned_cols=48  Identities=23%  Similarity=0.450  Sum_probs=36.1

Q ss_pred             HHhcCcccCCeeeEEEec-cCCCcccceeccccc-CcCCCCCCCCcccccCCC
Q 027939           21 KSLSGRFYAGRPIIVDFS-PVTDFREATCRQYEE-NTCNRGGYCNFMHLKRIS   71 (216)
Q Consensus        21 ~~LNGRwYaGR~I~aEfs-PVtdF~eA~Crq~~~-g~C~RGg~CNFmHvk~~s   71 (216)
                      --|.|.--.|..  |.|+ ++..-+..+|.-|.. |.|.. ..|.|+|+.+..
T Consensus        21 ~fl~G~C~~G~~--C~fsH~~~~~~~~~C~~f~~~G~C~~-~~C~y~H~~p~~   70 (72)
T 2rhk_C           21 HWLRGLCKKGDQ--CEFLHEYDMTKMSECYFYSKFGECSN-KECPFLHIDPES   70 (72)
T ss_dssp             HHHTTCCCCGGG--SSSBCSCCTTSCCBCHHHHHHSCCSB-TTCCSBCCCCC-
T ss_pred             HHhcCCCCCCCC--CCCccccccccCCcccccCCCCCCCC-CCeeccCCCccc
Confidence            345566666654  7787 444456789999999 99999 999999998765

>2d9m_A Zinc finger CCCH-type domain containing protein 7A; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=91.01  E-value=0.071  Score=38.94  Aligned_cols=33  Identities=33%  Similarity=0.785  Sum_probs=26.7

Q ss_pred             cCCCcccceecccccCcCCCCCCCCcccccCCCHHHHH
Q 027939           39 PVTDFREATCRQYEENTCNRGGYCNFMHLKRISRDLRR   76 (216)
Q Consensus        39 PVtdF~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~   76 (216)
                      |...|  .+|..|..|.|+.|..|.|-|=.   .+|+.
T Consensus        16 P~~k~--~LC~~~~~G~C~~G~~C~FAHG~---~ELr~   48 (69)
T 2d9m_A           16 PTGYF--SICDRYMNGTCPEGNSCKFAHGN---AELHE   48 (69)
T ss_dssp             CCSCC--SBCHHHHHSCCSSCSSCSSBSSH---HHHHH
T ss_pred             CCCCc--ccCcccCcCCCCCCCccCCcCCH---HHHhh
Confidence            44455  89999999999999999999954   56655

>2d9n_A Cleavage and polyadenylation specificity factor, 30 kDa subunit; CCCH zinc-finger, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.85  E-value=0.12  Score=36.99  Aligned_cols=47  Identities=21%  Similarity=0.422  Sum_probs=33.9

Q ss_pred             HHhcCcccCCeeeEEEecc-CCCcccceeccccc-CcCCCCCCCCcccccCC
Q 027939           21 KSLSGRFYAGRPIIVDFSP-VTDFREATCRQYEE-NTCNRGGYCNFMHLKRI   70 (216)
Q Consensus        21 ~~LNGRwYaGR~I~aEfsP-VtdF~eA~Crq~~~-g~C~RGg~CNFmHvk~~   70 (216)
                      --|.|.--.|.  .|.|+. +..-+..+|.-|.. |.|. |..|-|+|+.+.
T Consensus        15 ~fl~G~C~~G~--~C~fsH~~~~~~~~~C~~f~~~G~C~-~~~C~f~H~~~~   63 (77)
T 2d9n_A           15 HWLRGLCKKGD--QCEFLHEYDMTKMPECYFYSKFGECS-NKECPFLHIDPE   63 (77)
T ss_dssp             HHHTTCCSCTT--SSSSBCSCCTTTSCBCHHHHHTCCCC-CSSCSSBCCCTT
T ss_pred             hHccCcCCCCC--CCCCccccccCcCCCCcccCCCCccC-CCCeeccCCCcc
Confidence            34455555554  577763 23345678999998 9999 899999999864

>2e5s_A Otthump00000018578; ZF-CCCHX2 domain, muscleblind-like 2, isoform 1, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=88.84  E-value=0.041  Score=41.68  Aligned_cols=27  Identities=30%  Similarity=0.791  Sum_probs=23.8

Q ss_pred             ccceecccccCcCCCCC-CCCcccccCC
Q 027939           44 REATCRQYEENTCNRGG-YCNFMHLKRI   70 (216)
Q Consensus        44 ~eA~Crq~~~g~C~RGg-~CNFmHvk~~   70 (216)
                      +.++|+.|..|.|.+|. .|.|.|....
T Consensus        19 k~~VCr~FlrG~C~rgd~~C~FsH~~~~   46 (98)
T 2e5s_A           19 KLEVCREFQRGNCARGETDCRFAHPADS   46 (98)
T ss_dssp             EEEBCSHHHHTCCSSHHHHCSSBCCSSC
T ss_pred             hhhhhHHHhcCcCCCCCCCCCCcCCchh
Confidence            45789999999999998 8999998753

>3d2n_A Muscleblind-like protein 1; tandem zinc finger domain, alternative splicing, metal- binding, nucleus, RNA-binding, zinc, zinc-finger, metal binding; 2.70A {Homo sapiens}

Probab=87.86  E-value=0.23  Score=36.58  Aligned_cols=33  Identities=27%  Similarity=0.519  Sum_probs=26.7

Q ss_pred             cccceecccccCcCCCCCCCCcccccCCCHHHHHHHH
Q 027939           43 FREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLF   79 (216)
Q Consensus        43 F~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~Lf   79 (216)
                      =...+|..|..|.|.++ .|-|+|+   |..|...|-
T Consensus        41 ~~~~vC~dflkG~C~r~-~C~y~H~---~~~l~~~~~   73 (83)
T 3d2n_A           41 GRVIACFDSLKGRCSRE-NCKYLHP---PPHLKTQLE   73 (83)
T ss_dssp             TEEECCHHHHTTCCCCS-SCSSCCC---CHHHHHHHH
T ss_pred             CceeehhHhhhccccCC-CcceeCC---hHHHHHHHh
Confidence            34689999999999999 8999996   556666553

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=87.61  E-value=0.13  Score=44.26  Aligned_cols=30  Identities=20%  Similarity=0.538  Sum_probs=26.8

Q ss_pred             eecccccCcCCCCCCCCcccccCCCHHHHH
Q 027939           47 TCRQYEENTCNRGGYCNFMHLKRISRDLRR   76 (216)
Q Consensus        47 ~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~   76 (216)
                      +|--|..|.|.+|..|.|+|-++.+.++..
T Consensus        72 ~C~ffakG~C~~G~~C~y~H~lPt~~d~~~  101 (240)
T 3u1l_A           72 FCLFFAKGMCCLGPKCEYLHHIPDEEDIGK  101 (240)
T ss_dssp             BCHHHHTTCCSCGGGCSSBBSCCCHHHHHH
T ss_pred             EcCccccCCCCCCCCCCccCCCCCccchhh
Confidence            899999999999999999999888777653

>1m9o_A Tristetraproline; Cys3His type zinc finger, metal binding protein; NMR {Mus musculus} SCOP: g.66.1.1 PDB: 1rgo_A

Probab=87.21  E-value=0.12  Score=36.16  Aligned_cols=27  Identities=22%  Similarity=0.830  Sum_probs=0.0

Q ss_pred             Ccccceecccc-cCcCCCCCCCCccccc
Q 027939           42 DFREATCRQYE-ENTCNRGGYCNFMHLK   68 (216)
Q Consensus        42 dF~eA~Crq~~-~g~C~RGg~CNFmHvk   68 (216)
                      .+...+|..|. .|.|+.|..|.|+|..
T Consensus        47 ~~k~~~C~~f~~~G~C~~G~~C~f~H~~   74 (77)
T 1m9o_A           47 KYKTELCHKFKLQGRCPYGSRCHFIHNP   74 (77)
T ss_dssp             ----------------------------
T ss_pred             cccCCcccchhhCcCCCCcCcCCCCCCC
Confidence            45577899775 7999999999999975

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=86.53  E-value=0.8  Score=35.75  Aligned_cols=34  Identities=12%  Similarity=0.147  Sum_probs=28.9

Q ss_pred             eEEEEeCC-HHHHHHHHHHhc--CcccCCeeeEEEec
Q 027939            5 NVYVQFRE-EEQAARALKSLS--GRFYAGRPIIVDFS   38 (216)
Q Consensus         5 NVYVkF~~-ee~A~~Av~~LN--GRwYaGR~I~aEfs   38 (216)
                      ..||.|.+ +++|+.|+..||  |--+.|..|++++.
T Consensus        57 tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL   93 (121)
T 1owx_A           57 EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   93 (121)
T ss_dssp             EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEEC
Confidence            46999999 899999999994  77788888887764

>2cqe_A KIAA1064 protein; CCCH zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.66.1.1 g.66.1.1

Probab=86.40  E-value=0.5  Score=35.51  Aligned_cols=26  Identities=27%  Similarity=0.621  Sum_probs=23.9

Q ss_pred             CcccceecccccCcCCCCCCCCcccc
Q 027939           42 DFREATCRQYEENTCNRGGYCNFMHL   67 (216)
Q Consensus        42 dF~eA~Crq~~~g~C~RGg~CNFmHv   67 (216)
                      ..+..+|+-|..|.|.+|..|.|+|.
T Consensus        10 ~~k~~lC~~f~~G~C~~G~~C~f~H~   35 (98)
T 2cqe_A           10 PKKRELCKFYITGFCARAENCPYMHG   35 (98)
T ss_dssp             SCCCSBCTTTTTTCCSCSTTCSSBSS
T ss_pred             CCCCccCcccccCcCCCCCCCCCCCC
Confidence            36788999999999999999999998

>2rpp_A Muscleblind-like protein 2; zinc finger domain, C3H, alternative splicing, cytoplasm, metal-binding, nucleus, RNA-binding, zinc, zinc-finger; NMR {Homo sapiens}

Probab=83.57  E-value=0.54  Score=35.21  Aligned_cols=33  Identities=27%  Similarity=0.526  Sum_probs=27.7

Q ss_pred             cccceecccccCcCCCCCCCCcccccCCCHHHHHHHH
Q 027939           43 FREATCRQYEENTCNRGGYCNFMHLKRISRDLRRQLF   79 (216)
Q Consensus        43 F~eA~Crq~~~g~C~RGg~CNFmHvk~~sr~L~~~Lf   79 (216)
                      =+..+|..|..|.|.++ .|-|+|+   +..|..+|.
T Consensus        49 ~~~~vC~dflkG~C~r~-~Cky~H~---~~hl~~~~~   81 (89)
T 2rpp_A           49 GRVIACFDSLKGRCSRE-NCKYLHP---PTHLKTQLE   81 (89)
T ss_dssp             TBEEBCHHHHHTCCCCT-TCCSBCC---CHHHHHHHH
T ss_pred             CceeeehhhhhCcCCCC-CcceecC---HHHHHHHHH
Confidence            36789999999999998 8999996   557777664

>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=83.28  E-value=0.95  Score=35.09  Aligned_cols=38  Identities=21%  Similarity=0.268  Sum_probs=34.1

Q ss_pred             eEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCC
Q 027939            5 NVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTD   42 (216)
Q Consensus         5 NVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtd   42 (216)
                      -|-|-|.++++|.+|-..|++-=|.|+.|.|-|-..++
T Consensus        48 Rirv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq~~~   85 (104)
T 1wey_A           48 RVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQTLH   85 (104)
T ss_dssp             EEEEECSSTTHHHHHHHTSTTSEETTEECEEECCCCSS
T ss_pred             EEEEEeCChHHHHHHHHHhccceecCceeEEEecCCCC
Confidence            47799999999999999999999999999999976443

>2fc6_A Nuclear, target of EGR1, member 1; structure genomics, ZF-CCCH domain, member 1(nuclear), structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.66.1.1

Probab=82.60  E-value=0.39  Score=33.24  Aligned_cols=29  Identities=17%  Similarity=0.286  Sum_probs=24.8

Q ss_pred             cccceecccc-cCcCCCCCCCCcccccCCC
Q 027939           43 FREATCRQYE-ENTCNRGGYCNFMHLKRIS   71 (216)
Q Consensus        43 F~eA~Crq~~-~g~C~RGg~CNFmHvk~~s   71 (216)
                      -..++|.+|. -|-|+.|..|+|+|=.-+|
T Consensus        18 ~~~~iC~~FSayGwCp~G~~Cp~SHDiDl~   47 (50)
T 2fc6_A           18 HPTSICDNFSAYGWCPLGPQCPQSHDISGP   47 (50)
T ss_dssp             CCSCBCSHHHHTCCCTTGGGCSSBCCCCCC
T ss_pred             cccchhhhccccccCCCCCCCCccccCCCC
Confidence            4689999995 5899999999999977665

---

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	216
d1o0pa_	104	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	1e-09
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	2e-06
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	4e-05
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]} Length = 104" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	d.58.7.3 (A:) 8e-05
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	1e-04
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	6e-04
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	0.001
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	0.002
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	0.003
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.004
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	0.004
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	0.004

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 51.9 bits (124), Expect = 1e-09
 Identities = 9/45 (20%), Positives = 21/45 (46%)

Query: 1   MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFRE 45
              G ++V+F       +A++ L+GR +A R ++  +     +  
Sbjct: 56  PGCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYHR 100

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.0 bits (101), Expect = 2e-06
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTDFR 44
          G   V FR+ E+A   +++L GR++ GR I        TD++
Sbjct: 58 GVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ 99

>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 = 38.7 bits (90), Expect = 4e-05
 Identities = 11/38 (28%), Positives = 21/38 (55%)

Query: 1  MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
            +G  YV F++   A RAL +++     G+P+ + +S
Sbjct: 40 RSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWS 77

>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 = 38.5 bits (89), Expect = 8e-05
 Identities = 17/35 (48%), Positives = 25/35 (71%)

Query: 5   NVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
           NVYV+FR EE A +A+  L+ R++ G+PI  + SP
Sbjct: 70  NVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP 104

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]} Length = 78

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 10/39 (25%), Positives = 17/39 (43%)

Query: 1  MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
            +G   V F  +  A +A+K  +G    GRP+ +    
Sbjct: 39 RSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT 77

>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 = 36.1 bits (83), Expect = 6e-04
 Identities = 11/50 (22%), Positives = 19/50 (38%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQYEE 53
          G  YV + +   A  A   LSG     R ++V +       +    + +E
Sbjct: 47 GTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKE 96

>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 = 34.5 bits (79), Expect = 0.001
 Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 4/45 (8%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFREATCRQY 51
          +V++     A  A++ ++G     R I  D+     F+E   RQY
Sbjct: 53 FVEYYSRADAENAMRYINGTRLDDRIIRTDWDA--GFKEG--RQY 93

>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 = 33.9 bits (77), Expect = 0.002
 Identities = 12/32 (37%), Positives = 19/32 (59%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          +V++++ EQA +ALK L G    G  + V  S
Sbjct: 47 FVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS 78

>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 = 33.9 bits (77), Expect = 0.003
 Identities = 10/35 (28%), Positives = 20/35 (57%)

Query: 4  GNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          G  +V F+E   A  AL+S+ G  +  +P+ + ++
Sbjct: 47 GQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA 81

>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 = 33.5 bits (76), Expect = 0.004
 Identities = 4/32 (12%), Positives = 15/32 (46%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
          + ++ +     +A+  L+G     + ++V  +
Sbjct: 47 FCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 78

>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 = 33.0 bits (75), Expect = 0.004
 Identities = 6/33 (18%), Positives = 12/33 (36%)

Query: 7  YVQFREEEQAARALKSLSGRFYAGRPIIVDFSP 39
          +++      A  A   L      G+ + V F+ 
Sbjct: 48 FIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC 80

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

 Score = 33.2 bits (75), Expect = 0.004
 Identities = 10/34 (29%), Positives = 18/34 (52%)

Query: 5  NVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS 38
             V++   +QA  A ++L+G    G+ I VD+ 
Sbjct: 51 YALVEYETHKQALAAKEALNGAEIMGQTIQVDWC 84

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	216
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.26
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.21
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	99.16
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.43
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	98.28
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	98.22
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	98.19
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	98.18
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	98.15
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.14
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.14
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.14
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.12
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	98.12
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	98.09
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.08
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.07
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.07
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.07
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.06
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	98.05
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.04
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	98.04
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.03
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.02
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.01
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.01
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	97.99
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	97.98
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	97.98
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	97.97
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	97.96
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	97.95
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	97.95
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	97.94
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	97.92
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	97.92
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	97.92
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	97.89
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	97.88
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	97.88
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	97.87
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	97.87
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	97.87
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	97.86
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	97.85
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	97.82
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	97.82
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	97.81
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	97.8
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	97.79
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	97.77
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	97.76
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	97.75
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	97.71
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	97.7
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	97.66
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	97.57
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	97.57
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	97.57
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	97.52
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	97.52
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	97.5
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	97.48
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	97.46
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	97.46
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.39
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	97.37
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	97.36
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	97.36
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	97.32
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.25
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	97.22
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	97.17
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	97.17
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	97.1
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	97.06
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	96.98
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	96.91
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	96.88
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	96.87
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	96.26
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	96.18
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	96.09
d1m9oa_	40	Tristetraproline (ttp, tis11, nup475) {Mouse (Mus	95.99
d2cqea2	29	Zinc finger CCCH domain-containing protein C19orf7	95.91
d1rgoa1	36	Butyrate response factor 2 (Tis11D) {Human (Homo s	95.34
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	95.1
d1rgoa2	34	Butyrate response factor 2 (Tis11D) {Human (Homo s	95.09
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	85.58

>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=99.26  E-value=2.4e-12  Score=94.50  Aligned_cols=44  Identities=32%  Similarity=0.566  Sum_probs=41.4

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cCCCcc
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PVTDFR   44 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PVtdF~   44 (216)
                      |+.|+|||+|.++++|.+|++.|||+||+||+|.|+|. |.|+|+
T Consensus        55 ~~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v~~~~g~~~~~   99 (99)
T d2dita1          55 HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTDYQ   99 (99)
T ss_dssp             CTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCSCCCSS
T ss_pred             CCccEEEEEECCHHHHHHHHHHhCCcEECCEEEEEEEeCCcCCCC
Confidence            46799999999999999999999999999999999995 999985

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.21  E-value=2.8e-12  Score=94.50  Aligned_cols=43  Identities=21%  Similarity=0.557  Sum_probs=40.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR   44 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~   44 (216)
                      ..|.|||+|.++++|.+|++.||||||+||+|.|+|++.++|.
T Consensus        57 ~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~~~~~y~   99 (104)
T d1o0pa_          57 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYCDPDSYH   99 (104)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEECHHHHH
T ss_pred             CceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEEcCHHHhh
Confidence            4589999999999999999999999999999999999987775

>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=99.16  E-value=1.1e-11  Score=91.92  Aligned_cols=39  Identities=49%  Similarity=0.900  Sum_probs=37.4

Q ss_pred             CCcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            1 MQVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         1 HL~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      +..|++||+|.++++|.+|++.|||+||+||+|.|+|+|
T Consensus        66 ~~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~sP  104 (104)
T d1jmta_          66 HLVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAELSP  104 (104)
T ss_dssp             SSEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEECC
T ss_pred             CEeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEECC
Confidence            457999999999999999999999999999999999998

>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=98.43  E-value=1.2e-07  Score=65.30  Aligned_cols=38  Identities=21%  Similarity=0.383  Sum_probs=35.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec-cC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS-PV   40 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs-PV   40 (216)
                      .|..||.|.++++|++|++.|||.++.|++|.++|+ |+
T Consensus        43 ~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~P~   81 (81)
T d2ghpa1          43 RRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPL   81 (81)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC
T ss_pred             cceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEccCc
Confidence            588999999999999999999999999999999997 64

>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=98.28  E-value=5.2e-07  Score=62.19  Aligned_cols=38  Identities=26%  Similarity=0.514  Sum_probs=35.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.++++|..|++.|||..+.|++|.++|..
T Consensus        40 ~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~a~   77 (78)
T d1no8a_          40 SLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT   77 (78)
T ss_dssp             SCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            46899999999999999999999999999999999864

>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=98.22  E-value=5.3e-07  Score=65.16  Aligned_cols=37  Identities=27%  Similarity=0.483  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|.+||+.|||.+|.|++|.|++..
T Consensus        50 rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          50 KGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             TEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             CCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            5899999999999999999999999999999999974

>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=98.19  E-value=7e-07  Score=63.19  Aligned_cols=34  Identities=24%  Similarity=0.439  Sum_probs=32.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      .|.+||.|.++++|++|++.|||..|.|++|.|.
T Consensus        56 ~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          56 SASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             CEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             ceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            3789999999999999999999999999999874

>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=98.18  E-value=1e-06  Score=62.01  Aligned_cols=36  Identities=31%  Similarity=0.484  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|++|++.|||..+.|+.|.++|.
T Consensus        50 rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~a   85 (90)
T d2cq0a1          50 KGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   85 (90)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             ccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEee
Confidence            588999999999999999999999999999999996

>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=98.15  E-value=1.2e-06  Score=60.16  Aligned_cols=36  Identities=28%  Similarity=0.504  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|++.|||..+.|++|.|++.
T Consensus        44 ~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a   79 (82)
T d1b7fa1          44 YGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYA   79 (82)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            588999999999999999999999999999999996

>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=98.14  E-value=7.7e-07  Score=61.39  Aligned_cols=37  Identities=30%  Similarity=0.591  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|..|++.|||.++.|++|.++|+.
T Consensus        42 ~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1          42 LGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             CCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            5899999999999999999999999999999999864

>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=98.14  E-value=1.4e-06  Score=62.35  Aligned_cols=42  Identities=21%  Similarity=0.362  Sum_probs=38.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR   44 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~   44 (216)
                      .|..||+|.++++|.+|++.|||.-|.|++|.+++.+...+.
T Consensus        46 kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a~~~~~~   87 (111)
T d1whxa_          46 GITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFG   87 (111)
T ss_dssp             SSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEETTTTC
T ss_pred             CceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEECCCCccc
Confidence            489999999999999999999999999999999998755443

>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=98.14  E-value=1.3e-06  Score=59.70  Aligned_cols=37  Identities=22%  Similarity=0.472  Sum_probs=35.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        43 ~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~A   79 (82)
T d1fxla1          43 SLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYA   79 (82)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             ceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            3588999999999999999999999999999999986

>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=98.12  E-value=1.4e-06  Score=60.41  Aligned_cols=35  Identities=23%  Similarity=0.383  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|.+||.|.++++|.+|++.|||..+.||+|.++|
T Consensus        51 ~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l   85 (86)
T d2cqpa1          51 TGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   85 (86)
T ss_dssp             EEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             ceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEE
Confidence            58999999999999999999999999999999986

>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=98.12  E-value=1.1e-06  Score=63.40  Aligned_cols=36  Identities=17%  Similarity=0.208  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.++++|+.|++.|||.+|.|++|.|++.
T Consensus        60 kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a   95 (102)
T d2cpza1          60 KCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLK   95 (102)
T ss_dssp             EEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             ccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            589999999999999999999999999999999996

>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=98.09  E-value=1.4e-06  Score=60.33  Aligned_cols=36  Identities=33%  Similarity=0.661  Sum_probs=34.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcc-cCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRF-YAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRw-YaGR~I~aEfs   38 (216)
                      .|..||.|.++++|..|++.|||.+ +.|++|.+++.
T Consensus        37 rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a   73 (80)
T d2cqha1          37 SGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   73 (80)
T ss_dssp             TTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEc
Confidence            4899999999999999999999997 99999999996

>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=98.08  E-value=1.8e-06  Score=61.03  Aligned_cols=36  Identities=19%  Similarity=0.420  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.+++.
T Consensus        58 ~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~a   93 (101)
T d2cpea1          58 KGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLA   93 (101)
T ss_dssp             CSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECS
T ss_pred             cceeeEEecCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            489999999999999999999999999999999996

>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=98.07  E-value=2.4e-06  Score=59.30  Aligned_cols=37  Identities=32%  Similarity=0.590  Sum_probs=35.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|.+||.|.++++|..|+..|||-.+.|++|.++|.
T Consensus        43 ~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~a   79 (86)
T d2cpda1          43 IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   79 (86)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            3689999999999999999999999999999999995

>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=98.07  E-value=2e-06  Score=62.28  Aligned_cols=37  Identities=27%  Similarity=0.329  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|..|++.|||..|.|++|.+++..
T Consensus        46 kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   82 (114)
T d2f9da1          46 RGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYN   82 (114)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            5899999999999999999999999999999999964

>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=98.07  E-value=2.1e-06  Score=59.02  Aligned_cols=38  Identities=24%  Similarity=0.379  Sum_probs=36.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      ..|..||.|.+.++|++|++.|||.-+.|++|.++|.|
T Consensus        32 ~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~   69 (75)
T d1wi6a1          32 YKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQP   69 (75)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeC
Confidence            36899999999999999999999999999999999987

>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=98.06  E-value=1.7e-06  Score=61.06  Aligned_cols=37  Identities=24%  Similarity=0.457  Sum_probs=35.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||.-|.|++|.|+|.+
T Consensus        40 kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~   76 (88)
T d1wg1a_          40 KRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             GTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            5899999999999999999999999999999999986

>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=98.05  E-value=2.3e-06  Score=60.06  Aligned_cols=36  Identities=31%  Similarity=0.457  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.+.++|+.|++.|||..+.|++|.++|.
T Consensus        49 ~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_          49 KGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             ccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            588999999999999999999999999999999985

>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=98.04  E-value=2.4e-06  Score=60.19  Aligned_cols=36  Identities=28%  Similarity=0.599  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|.+|++.|||..+.|++|.++|+
T Consensus        46 ~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~a   81 (91)
T d1nu4a_          46 RGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   81 (91)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            589999999999999999999999999999999996

>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=98.04  E-value=2.1e-06  Score=61.38  Aligned_cols=37  Identities=32%  Similarity=0.472  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|++.|||..|.|++|.++|+.
T Consensus        40 kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1          40 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            4899999999999999999999999999999999964

>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=98.03  E-value=2.5e-06  Score=60.49  Aligned_cols=37  Identities=24%  Similarity=0.501  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|.+||+|.++++|..|++.|||..+.|++|.|+|.
T Consensus        59 ~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   95 (102)
T d2cpxa1          59 MRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG   95 (102)
T ss_dssp             SCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             ccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeC
Confidence            3589999999999999999999999999999999996

>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=98.02  E-value=2.4e-06  Score=60.67  Aligned_cols=36  Identities=25%  Similarity=0.530  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.+.++|++|++.|||..+.|++|.++|+
T Consensus        53 ~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a   88 (96)
T d1fjca_          53 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             ccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            588999999999999999999999999999999996

>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=98.01  E-value=2.6e-06  Score=58.56  Aligned_cols=36  Identities=22%  Similarity=0.639  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|.+|++.|||..+.|++|.+++.
T Consensus        41 ~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a   76 (83)
T d1x5ta1          41 KGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   76 (83)
T ss_dssp             CSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             CceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEe
Confidence            589999999999999999999999999999999985

>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=98.01  E-value=2.3e-06  Score=60.05  Aligned_cols=36  Identities=31%  Similarity=0.463  Sum_probs=34.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||-++.|++|.+++.
T Consensus        47 kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1          47 RGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             SSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             cceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            589999999999999999999999999999999986

>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=97.99  E-value=3.4e-06  Score=59.86  Aligned_cols=37  Identities=22%  Similarity=0.422  Sum_probs=35.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.+.++|+.|++.|||.-+.|++|.++|.+
T Consensus        49 kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~   85 (93)
T d1h2vz_          49 CGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDA   85 (93)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEES
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            5889999999999999999999999999999999975

>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=97.98  E-value=3.3e-06  Score=58.83  Aligned_cols=37  Identities=30%  Similarity=0.459  Sum_probs=35.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|+.|++.|||..|.|++|.+++.
T Consensus        46 ~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a   82 (90)
T d1x5sa1          46 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   82 (90)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             ccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            4689999999999999999999999999999999995

>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=97.98  E-value=3.7e-06  Score=59.75  Aligned_cols=37  Identities=22%  Similarity=0.482  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHh-cCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL-SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L-NGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.| ||..+.|++|.++|..
T Consensus        51 rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A~   88 (94)
T d2cpha1          51 RGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   88 (94)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             ccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEcC
Confidence            589999999999999999998 8999999999999974

>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=97.97  E-value=3.5e-06  Score=59.74  Aligned_cols=36  Identities=33%  Similarity=0.412  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.|++.
T Consensus        51 kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A   86 (93)
T d1x5ua1          51 QGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   86 (93)
T ss_dssp             CSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             ccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            589999999999999999999999999999999885

>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=97.96  E-value=4.1e-06  Score=57.62  Aligned_cols=36  Identities=19%  Similarity=0.330  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|.+|+..|||.++.|++|.++|.
T Consensus        39 ~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a   74 (79)
T d2bz2a1          39 RNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA   74 (79)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEEC
T ss_pred             CCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            488999999999999999999999999999999996

>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=97.95  E-value=3.9e-06  Score=57.89  Aligned_cols=36  Identities=36%  Similarity=0.577  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        43 kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a   78 (85)
T d2cpfa1          43 MGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS   78 (85)
T ss_dssp             EEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECS
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            488999999999999999999999999999999986

>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=97.95  E-value=3.7e-06  Score=62.91  Aligned_cols=36  Identities=22%  Similarity=0.367  Sum_probs=34.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.+.++|+.|++.|||.+|.|++|.|+|.
T Consensus        84 rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          84 RGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             EEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             cceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            588999999999999999999999999999999996

>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=97.94  E-value=3.2e-06  Score=61.85  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|.+|++.|||..|.|++|.|+|..
T Consensus        46 ~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~   82 (104)
T d1weya_          46 FKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             TTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeecc
Confidence            4779999999999999999999999999999999974

>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=97.92  E-value=4.8e-06  Score=58.96  Aligned_cols=37  Identities=24%  Similarity=0.382  Sum_probs=34.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|+.|++.|||-.|.|++|.++|..
T Consensus        53 ~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          53 PPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            5789999999999999999999999999999999853

>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=97.92  E-value=5.2e-06  Score=59.03  Aligned_cols=37  Identities=30%  Similarity=0.418  Sum_probs=35.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|++|++.|||..|.|++|.+++..
T Consensus        50 ~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~   86 (99)
T d1whwa_          50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             CSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             CcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            5899999999999999999999999999999999864

>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=97.92  E-value=4.7e-06  Score=59.63  Aligned_cols=36  Identities=31%  Similarity=0.630  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.+.++|++|++.|||..|.|++|.+++.
T Consensus        50 ~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a   85 (104)
T d1p1ta_          50 KGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             EEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             CCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            588999999999999999999999999999999985

>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=97.89  E-value=2.4e-06  Score=61.33  Aligned_cols=37  Identities=14%  Similarity=0.302  Sum_probs=34.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|++|++.|||..+.||||.+..+
T Consensus        58 ~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~   94 (101)
T d1x5oa1          58 SRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPT   94 (101)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCS
T ss_pred             cccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCC
Confidence            3589999999999999999999999999999988665

>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=97.88  E-value=5.3e-06  Score=57.87  Aligned_cols=36  Identities=22%  Similarity=0.429  Sum_probs=33.5

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.+.++|++|++ |||..|+|++|.++++
T Consensus        47 ~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a   82 (86)
T d2ghpa3          47 NNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLA   82 (86)
T ss_dssp             CCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEEC
T ss_pred             cceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEc
Confidence            35889999999999999995 9999999999999996

>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=97.88  E-value=3.2e-06  Score=59.19  Aligned_cols=36  Identities=17%  Similarity=0.218  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++||..|||..|.|++|.+++.
T Consensus        35 ~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~   70 (87)
T d3begb1          35 DGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   70 (87)
T ss_dssp             TSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             cceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEE
Confidence            489999999999999999999999999999998875

>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=97.87  E-value=7.8e-06  Score=57.76  Aligned_cols=36  Identities=33%  Similarity=0.459  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|.+|++.|||..+.|++|.+++.
T Consensus        51 kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A   86 (93)
T d2cq3a1          51 KGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA   86 (93)
T ss_dssp             CCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            588999999999999999999999999999999985

>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=97.87  E-value=5.7e-06  Score=57.97  Aligned_cols=37  Identities=19%  Similarity=0.222  Sum_probs=35.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||+|.++++|++|++.|||.-+.|++|.|++.+
T Consensus        44 k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A~   80 (86)
T d2cpja1          44 KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   80 (86)
T ss_dssp             TTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            4889999999999999999999999999999999964

>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=97.87  E-value=3.4e-06  Score=59.13  Aligned_cols=36  Identities=28%  Similarity=0.482  Sum_probs=34.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.|||..+.|++|.+++.
T Consensus        48 kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a   83 (89)
T d1cvja2          48 KGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   83 (89)
T ss_dssp             CSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEEC
T ss_pred             cceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            489999999999999999999999999999999986

>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=97.86  E-value=7.5e-06  Score=58.81  Aligned_cols=41  Identities=32%  Similarity=0.348  Sum_probs=35.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCCCcc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVTDFR   44 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVtdF~   44 (216)
                      .|..||+|.++++|++|++ ||+.++.||+|.+.++......
T Consensus        57 kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~~~~~~~   97 (104)
T d1wg5a_          57 TGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKSSRAEVR   97 (104)
T ss_dssp             CSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEECTTTSC
T ss_pred             ceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEECCHHHhc
Confidence            5899999999999999985 9999999999999987544443

>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=97.85  E-value=7.1e-06  Score=56.46  Aligned_cols=33  Identities=30%  Similarity=0.384  Sum_probs=31.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIV   35 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~a   35 (216)
                      .|..||+|.+.++|++|++.|||..|+|++|.+
T Consensus        51 ~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          51 RGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             ccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            588999999999999999999999999999975

>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=97.82  E-value=6e-06  Score=58.97  Aligned_cols=36  Identities=28%  Similarity=0.495  Sum_probs=33.1

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||+|.++++|++|++ |||..|+||+|.+.++
T Consensus        49 ~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~   84 (103)
T d2cpya1          49 GLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVV   84 (103)
T ss_dssp             CSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEE
T ss_pred             cCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEEC
Confidence            36999999999999999996 9999999999999774

>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=97.82  E-value=9.4e-06  Score=56.18  Aligned_cols=35  Identities=26%  Similarity=0.542  Sum_probs=32.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEf   37 (216)
                      .|..||+|.++++|.+|++.|||..+.|  ++|.+.|
T Consensus        48 ~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2          48 RGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             ceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            5899999999999999999999999977  9999986

>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=97.81  E-value=1.1e-05  Score=56.51  Aligned_cols=36  Identities=31%  Similarity=0.519  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.+.++|..|++.|||-.+.|++|.+++.
T Consensus        48 ~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a   83 (90)
T d2cqia1          48 DPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWA   83 (90)
T ss_dssp             CCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             ceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            578999999999999999999999999999999996

>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=97.80  E-value=1.1e-05  Score=57.68  Aligned_cols=36  Identities=28%  Similarity=0.448  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|+..|||..+.|++|.++|.
T Consensus        54 kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~a   89 (96)
T d1x4ga1          54 KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWG   89 (96)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            588999999999999999999999999999999985

>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=97.79  E-value=1.2e-05  Score=55.95  Aligned_cols=35  Identities=34%  Similarity=0.613  Sum_probs=32.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEf   37 (216)
                      .|..||.|.++++|++|++.|||..+.|  ++|.|.|
T Consensus        48 kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2          48 RGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEe
Confidence            5889999999999999999999999998  5688876

>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=97.77  E-value=9.8e-06  Score=56.51  Aligned_cols=37  Identities=14%  Similarity=0.344  Sum_probs=35.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++++|+.|++.|||..+.|++|.+++..
T Consensus        43 rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_          43 KGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             ceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            5899999999999999999999999999999999975

>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=97.76  E-value=9.3e-06  Score=58.24  Aligned_cols=38  Identities=18%  Similarity=0.202  Sum_probs=34.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEeccCC
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSPVT   41 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsPVt   41 (216)
                      .|..||+|.++++|++|++ ||+..+.||+|.++++...
T Consensus        55 ~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s~~~   92 (102)
T d1weza_          55 TGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLNSTA   92 (102)
T ss_dssp             EEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEECCC
T ss_pred             eEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEcCCC
Confidence            5899999999999999986 8999999999999997543

>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=97.75  E-value=1.6e-05  Score=53.04  Aligned_cols=35  Identities=11%  Similarity=0.134  Sum_probs=32.0

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      ..|..||.|.++++|++|++ |||..+.|++|.|..
T Consensus        40 ~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~   74 (75)
T d2msta_          40 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             SCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEE
T ss_pred             cCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEE
Confidence            45889999999999999996 999999999999864

>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=97.71  E-value=7.8e-06  Score=58.80  Aligned_cols=37  Identities=16%  Similarity=0.188  Sum_probs=35.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||.|.++++|++||+.|||.-|.|+.|.+.|..
T Consensus        50 ~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          50 DGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             cceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            5899999999999999999999999999999999964

>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=97.70  E-value=2e-05  Score=54.66  Aligned_cols=37  Identities=24%  Similarity=0.242  Sum_probs=33.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc-CCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY-AGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY-aGR~I~aEfsP   39 (216)
                      .|..||+|.++++|.+|+..|||.-+ .|++|.++|+-
T Consensus        48 ~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2          48 RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             cceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            47899999999999999999999765 79999999973

>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=97.66  E-value=1.1e-05  Score=53.93  Aligned_cols=33  Identities=18%  Similarity=0.189  Sum_probs=30.7

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeE
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPII   34 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~   34 (216)
                      ..|..||.|.++++|++|++.|||.-|.|++|.
T Consensus        39 ~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1          39 CKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             ccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            468999999999999999999999999999873

>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=97.57  E-value=3.5e-05  Score=54.46  Aligned_cols=35  Identities=29%  Similarity=0.353  Sum_probs=33.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|++||+ |||..+.|++|.+++.
T Consensus        54 kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~a   88 (91)
T d1fjeb1          54 RKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   88 (91)
T ss_dssp             TTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECC
T ss_pred             cEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEec
Confidence            5899999999999999996 9999999999999875

>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=97.57  E-value=3.7e-05  Score=53.56  Aligned_cols=36  Identities=33%  Similarity=0.522  Sum_probs=33.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc------CcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLS------GRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN------GRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|.+|++.||      |..+.|++|.+++.
T Consensus        50 ~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~~a   91 (98)
T d1x4ha1          50 KGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLA   91 (98)
T ss_dssp             CSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECC
T ss_pred             cceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEEEC
Confidence            5899999999999999999997      67889999999986

>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=97.57  E-value=4.2e-05  Score=52.68  Aligned_cols=36  Identities=22%  Similarity=0.315  Sum_probs=32.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc-CCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY-AGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY-aGR~I~aEfs   38 (216)
                      .|..||.|.+.++|..|++.|||.-+ +|++|.++|+
T Consensus        45 ~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~a   81 (83)
T d2b0ga1          45 HDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFA   81 (83)
T ss_dssp             CSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEEC
T ss_pred             ceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEe
Confidence            47899999999999999999999666 6899999986

>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=97.52  E-value=4e-05  Score=54.45  Aligned_cols=35  Identities=29%  Similarity=0.378  Sum_probs=31.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||+|.++++|++|+ .||+..|.|++|.+++.
T Consensus        57 ~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a   91 (104)
T d1wi8a_          57 KGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             CSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             ceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEEC
Confidence            589999999999998666 69999999999999985

>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=97.52  E-value=4.4e-05  Score=52.14  Aligned_cols=34  Identities=18%  Similarity=0.227  Sum_probs=31.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||+|.++++|++|+ .||+..|+|++|.++.
T Consensus        40 ~~~afV~F~~~~~a~~Al-~~~~~~i~g~~i~V~~   73 (75)
T d2ghpa2          40 FRFARIEFARYDGALAAI-TKTHKVVGQNEIIVSH   73 (75)
T ss_dssp             SEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEE
T ss_pred             ceEEEEEEcchHHhHHHH-HhcCcEECCEEEEEEE
Confidence            478999999999999998 5899999999999875

>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=97.50  E-value=3e-05  Score=56.00  Aligned_cols=36  Identities=39%  Similarity=0.545  Sum_probs=33.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|..||.|.++++|++|+. |||..|.|++|.+.++
T Consensus        59 ~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~a   94 (101)
T d2cq4a1          59 SKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQAS   94 (101)
T ss_dssp             CCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEEH
T ss_pred             ccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEEC
Confidence            46899999999999999995 9999999999999885

>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=97.48  E-value=6e-05  Score=53.40  Aligned_cols=37  Identities=27%  Similarity=0.405  Sum_probs=33.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCC--eeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAG--RPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaG--R~I~aEfsP   39 (216)
                      .|..||+|.++++|+.|++.|||..+.|  ++|.++|..
T Consensus        53 ~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          53 DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             ccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            4789999999999999999999999987  589999963

>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=97.46  E-value=4e-05  Score=55.01  Aligned_cols=36  Identities=25%  Similarity=0.313  Sum_probs=33.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.+.++|++|++.||+ .+.|++|.|.+..
T Consensus        52 kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a~   87 (103)
T d2cqda1          52 RGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLAY   87 (103)
T ss_dssp             CSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEEST
T ss_pred             CCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEcC
Confidence            58999999999999999999998 7899999998853

>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=97.46  E-value=7.7e-05  Score=51.71  Aligned_cols=37  Identities=16%  Similarity=0.337  Sum_probs=33.5

Q ss_pred             cceEEEEeCCHHHHHHHHHHh--cCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL--SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L--NGRwYaGR~I~aEfsP   39 (216)
                      .|.+||+|.++++|+.|++.|  ++.-+.|++|.++|+.
T Consensus        44 ~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk   82 (88)
T d2cq1a1          44 KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   82 (88)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             ceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECC
Confidence            588999999999999999976  5779999999999985

>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=97.39  E-value=9.8e-05  Score=51.96  Aligned_cols=37  Identities=19%  Similarity=0.428  Sum_probs=33.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHh--cCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSL--SGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~L--NGRwYaGR~I~aEfsP   39 (216)
                      .+..||+|.+.++|..|++.|  ++-.+.|++|.++|+.
T Consensus        45 k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~   83 (89)
T d1x4da1          45 INEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   83 (89)
T ss_dssp             SSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             ceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECC
Confidence            367999999999999999977  6779999999999974

>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=97.37  E-value=5e-05  Score=55.23  Aligned_cols=35  Identities=29%  Similarity=0.353  Sum_probs=32.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.+.++|++|++ |||..++||+|.+..+
T Consensus        60 ~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~   94 (112)
T d1wela1          60 TGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI   94 (112)
T ss_dssp             EEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             eeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEc
Confidence            5899999999999999996 9999999999998765

>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=97.36  E-value=9.2e-05  Score=53.23  Aligned_cols=37  Identities=27%  Similarity=0.278  Sum_probs=33.7

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc--CCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY--AGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY--aGR~I~aEfsP   39 (216)
                      .|..||+|.++++|+.|++.|||.-+  .|++|.+.|+.
T Consensus        45 ~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1          45 QFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             EEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             CCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            48899999999999999999999976  68999999973

>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=97.36  E-value=9.7e-05  Score=52.81  Aligned_cols=37  Identities=19%  Similarity=0.385  Sum_probs=34.0

Q ss_pred             cceEEEEeCCHHHHHHHHH--HhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALK--SLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~--~LNGRwYaGR~I~aEfsP   39 (216)
                      .|.+||+|.++++|..|++  .+++-.|.|++|.++|+.
T Consensus        55 k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~   93 (99)
T d1x4fa1          55 KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE   93 (99)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             CCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcC
Confidence            4889999999999999998  578999999999999984

>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=97.32  E-value=0.00011  Score=49.85  Aligned_cols=33  Identities=21%  Similarity=0.299  Sum_probs=30.3

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      .|..||.|.++++|++|++ |++-.+.|++|.|.
T Consensus        41 kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~   73 (75)
T d1hd0a_          41 RGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPK   73 (75)
T ss_dssp             CSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEEC
T ss_pred             CceEEEEECCHHHHHHHHh-cCCCEECCCEEEee
Confidence            5899999999999999997 78889999999874

>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=97.25  E-value=0.00013  Score=50.62  Aligned_cols=35  Identities=23%  Similarity=0.484  Sum_probs=32.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|.+||.|.++++|++|++ |+|--|.|++|.+.+.
T Consensus        47 kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~   81 (85)
T d1zh5a2          47 KGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   81 (85)
T ss_dssp             EEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEG
T ss_pred             ceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEc
Confidence            5899999999999999996 7999999999999874

>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=97.22  E-value=0.0002  Score=51.12  Aligned_cols=37  Identities=16%  Similarity=0.313  Sum_probs=33.1

Q ss_pred             cceEEEEeCCHHHHHHHHHHhc--CcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREEEQAARALKSLS--GRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LN--GRwYaGR~I~aEfsP   39 (216)
                      .|.+||+|.++++|+.|+..|+  +-.++|++|.++|+.
T Consensus        51 k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~   89 (104)
T d1wexa_          51 KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             ceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcC
Confidence            5889999999999999999884  567899999999974

>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=97.17  E-value=0.00022  Score=48.04  Aligned_cols=34  Identities=15%  Similarity=0.178  Sum_probs=30.6

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|++|++ |||.-+.||+|.+..
T Consensus        44 ~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~   77 (79)
T d1l3ka2          44 RGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRK   77 (79)
T ss_dssp             EEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEE
T ss_pred             ccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEE
Confidence            5899999999998888885 899999999999864

>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=97.17  E-value=0.00016  Score=50.75  Aligned_cols=36  Identities=28%  Similarity=0.369  Sum_probs=32.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc--CCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY--AGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY--aGR~I~aEfs   38 (216)
                      .|..||+|.+.++|+.|++.|++-.+  .|++|.+++.
T Consensus        45 rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A   82 (96)
T d2disa1          45 RGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWA   82 (96)
T ss_dssp             CCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEES
T ss_pred             CCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEc
Confidence            58999999999999999999976554  6999999985

>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=97.10  E-value=0.0002  Score=50.52  Aligned_cols=34  Identities=21%  Similarity=0.277  Sum_probs=31.0

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|++.++  .++|++|.|.+.
T Consensus        50 rG~aFV~f~~~~~a~~al~~~~--~l~Gr~i~v~~a   83 (90)
T d2cqga1          50 KGFGFVRFTEYETQVKVMSQRH--MIDGRWCDCKLP   83 (90)
T ss_dssp             EEEEEEEESSHHHHHHHHHSCE--EETTEEEEEECC
T ss_pred             CCEEEEEECCHHHHHHHHhcCC--ccCCEEeEEEeC
Confidence            5899999999999999999765  899999999885

>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=97.06  E-value=0.00015  Score=49.77  Aligned_cols=34  Identities=18%  Similarity=0.196  Sum_probs=31.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      .|..||.|.++++|.+|++ ||+-.++||+|.+..
T Consensus        42 kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~   75 (77)
T d1uawa_          42 RGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKV   75 (77)
T ss_dssp             SSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEE
T ss_pred             cceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEE
Confidence            5899999999999999997 799999999999864

>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=96.98  E-value=0.00039  Score=48.04  Aligned_cols=35  Identities=17%  Similarity=0.175  Sum_probs=31.2

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      ..|..||.|.++++|++|++ +++-.+.|++|.+..
T Consensus        47 ~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~   81 (84)
T d1l3ka1          47 SRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKR   81 (84)
T ss_dssp             EEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEE
T ss_pred             cccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEe
Confidence            36899999999999999997 588999999998864

>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=96.91  E-value=0.00033  Score=50.58  Aligned_cols=36  Identities=17%  Similarity=0.168  Sum_probs=32.3

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      ..|.+||.|.+.++|++|++ |+|-.+.|++|.|.+.
T Consensus        61 ~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~a   96 (103)
T d1x4ba1          61 SRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKRA   96 (103)
T ss_dssp             CCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEECC
T ss_pred             ccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEEC
Confidence            35899999999999999985 7999999999999874

>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=96.88  E-value=0.00036  Score=48.85  Aligned_cols=31  Identities=23%  Similarity=0.384  Sum_probs=27.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPII   34 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~   34 (216)
                      .|.+||+|.++++|++|++ |||.-++|+.|.
T Consensus        39 ~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~v   69 (81)
T d1wwha1          39 GNWMHIRYQSKLQARKALS-KDGRIFGESIMI   69 (81)
T ss_dssp             SSEEEEEESSHHHHHHHHT-TTTCEETTTEEC
T ss_pred             CCEEEEEEcccHHHHHHHh-cCCCeECCcEEE
Confidence            4889999999999999996 999999999653

>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=96.87  E-value=4.3e-05  Score=53.09  Aligned_cols=33  Identities=15%  Similarity=0.514  Sum_probs=30.8

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEE
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVD   36 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aE   36 (216)
                      .|..||.|.++++|++|++ |||-.|.|++|.+.
T Consensus        48 kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_          48 KNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIR   80 (90)
T ss_dssp             TTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCB
T ss_pred             ceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEEC
Confidence            5899999999999999985 99999999999985

>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=96.26  E-value=0.00093  Score=45.57  Aligned_cols=35  Identities=14%  Similarity=0.239  Sum_probs=30.4

Q ss_pred             CcceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEe
Q 027939            2 QVGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDF   37 (216)
Q Consensus         2 L~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEf   37 (216)
                      ..|..||.|.+.++|++|++. ++.+++|++|.+.+
T Consensus        40 ~rG~~FV~f~~~~~a~~al~~-~~~~i~g~~i~vk~   74 (75)
T d1x0fa1          40 RRGFCFITFKEEEPVKKIMEK-KYHNVGLSKCEIKV   74 (75)
T ss_dssp             TTCCEEEEESSSHHHHHHTTC-SSCCBTTBCCEEEC
T ss_pred             cccEEEEEECCHHHHHHHHhh-CCCEECCEEeEEEE
Confidence            368999999999999999975 77899999998753

>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=96.18  E-value=0.00088  Score=46.34  Aligned_cols=34  Identities=12%  Similarity=0.187  Sum_probs=30.9

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|++|+.  ++--+.|++|.|++.
T Consensus        42 ~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a   75 (88)
T d1wf0a_          42 RAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNA   75 (88)
T ss_dssp             CSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECC
T ss_pred             CceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeC
Confidence            5889999999999999985  788899999999986

>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=96.09  E-value=0.0032  Score=44.99  Aligned_cols=29  Identities=21%  Similarity=0.350  Sum_probs=25.4

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCccc-CCe
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFY-AGR   31 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwY-aGR   31 (216)
                      .|..||+|.+.++|.+|++.|||... .|.
T Consensus        56 k~~aFV~f~~~e~A~~A~~~lng~~i~~~~   85 (101)
T d2cq2a1          56 KPYSFARYRTTEESKRAYVTLNGKEVVDDL   85 (101)
T ss_dssp             CSCEEEEESSHHHHHHHHHHTTTCEEECTT
T ss_pred             ccEEEEEECCHHHHHHHHHHhCCCCCCCCC
Confidence            47899999999999999999999876 443

>d1m9oa_ g.66.1.1 (A:) Tristetraproline (ttp, tis11, nup475) {Mouse (Mus musculus) [TaxId: 10090]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Tristetraproline (ttp, tis11, nup475)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.99  E-value=0.0019  Score=40.84  Aligned_cols=30  Identities=27%  Similarity=0.754  Sum_probs=26.2

Q ss_pred             ccCCCcccceecccc-cCcCCCCCCCCcccc
Q 027939           38 SPVTDFREATCRQYE-ENTCNRGGYCNFMHL   67 (216)
Q Consensus        38 sPVtdF~eA~Crq~~-~g~C~RGg~CNFmHv   67 (216)
                      +....|+...|+.|. .|.|+.|..|.|.|-
T Consensus         2 t~~~~yKT~lC~~~~~~g~C~~G~~C~FAHg   32 (40)
T d1m9oa_           2 TTSSRYKTELCRTYSESGRCRYGAKCQFAHG   32 (40)
T ss_dssp             CCSSCCCSCCCSGGGGTSCCTTTTTCSSCSS
T ss_pred             CCCCccccccChhhhcCCcCCCCCCCCCCCC
Confidence            456789999999986 589999999999994

>d2cqea2 g.66.1.1 (A:429-457) Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Zinc finger CCCH domain-containing protein C19orf7 (KIAA1064)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.91  E-value=0.0016  Score=39.18  Aligned_cols=23  Identities=30%  Similarity=0.720  Sum_probs=20.9

Q ss_pred             cceecccccCcCCCCCCCCcccc
Q 027939           45 EATCRQYEENTCNRGGYCNFMHL   67 (216)
Q Consensus        45 eA~Crq~~~g~C~RGg~CNFmHv   67 (216)
                      .-+|.-|..|-|.||..|-|||-
T Consensus         6 kelCKfYvqGyCtrgenC~ymH~   28 (29)
T d2cqea2           6 RELCKFYITGFCARAENCPYMHG   28 (29)
T ss_dssp             CSBCTTTTTTCCSCSTTCSSBSS
T ss_pred             hhhhhhheeeeecCCcCcccccC
Confidence            45899999999999999999993

>d1rgoa1 g.66.1.1 (A:151-186) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.34  E-value=0.0016  Score=40.44  Aligned_cols=28  Identities=36%  Similarity=0.802  Sum_probs=24.6

Q ss_pred             CCcccceecccc-cCcCCCCCCCCccccc
Q 027939           41 TDFREATCRQYE-ENTCNRGGYCNFMHLK   68 (216)
Q Consensus        41 tdF~eA~Crq~~-~g~C~RGg~CNFmHvk   68 (216)
                      +.|+...|+.|. .|.|+.|..|.|.|-.
T Consensus         2 ~kyKT~lC~~~~~~g~C~~G~~C~FAHg~   30 (36)
T d1rgoa1           2 TRYKTELCRPFEESGTCKYGEKCQFAHGF   30 (36)
T ss_dssp             TTTTSSBCHHHHHHSCCTTGGGCSSBSSG
T ss_pred             CCcchhhCcchhcCCcCCCCCcCCCcCCH
Confidence            579999999885 5899999999999953

>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=95.10  E-value=0.0074  Score=43.55  Aligned_cols=37  Identities=16%  Similarity=0.118  Sum_probs=32.5

Q ss_pred             cceEEEEeCCH-HHHHHHHHHhcCcccCCeeeEEEecc
Q 027939            3 VGNVYVQFREE-EQAARALKSLSGRFYAGRPIIVDFSP   39 (216)
Q Consensus         3 ~GNVYVkF~~e-e~A~~Av~~LNGRwYaGR~I~aEfsP   39 (216)
                      .|..||.|.++ ++|.+|+.+||+..+.++.+.+.+..
T Consensus        47 kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~~~   84 (113)
T d1owxa_          47 AKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEV   84 (113)
T ss_dssp             CSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEE
T ss_pred             CceEEEEecCcHHHHHHHHHHhcCCceecCceEEEEee
Confidence            47899999995 78999999999999999999887754

>d1rgoa2 g.66.1.1 (A:187-220) Butyrate response factor 2 (Tis11D) {Human (Homo sapiens) [TaxId: 9606]}

class: Small proteins
fold: CCCH zinc finger
superfamily: CCCH zinc finger
family: CCCH zinc finger
domain: Butyrate response factor 2 (Tis11D)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.09  E-value=0.0021  Score=39.56  Aligned_cols=26  Identities=27%  Similarity=0.819  Sum_probs=23.6

Q ss_pred             Ccccceeccccc-CcCCCCCCCCcccc
Q 027939           42 DFREATCRQYEE-NTCNRGGYCNFMHL   67 (216)
Q Consensus        42 dF~eA~Crq~~~-g~C~RGg~CNFmHv   67 (216)
                      .|+...|+.|.. |.|+-|..|+|.|-
T Consensus         5 kyKT~lC~~f~~~g~C~yG~~C~FaHg   31 (34)
T d1rgoa2           5 KYKTELCRTFHTIGFCPYGPRCHFIHN   31 (34)
T ss_dssp             TTTCSBCHHHHHHSCCTTGGGCSSBCC
T ss_pred             CccchhccccCCCCcCCCCCcccCcCC
Confidence            689999999954 99999999999994

>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=85.58  E-value=0.38  Score=35.13  Aligned_cols=35  Identities=17%  Similarity=0.244  Sum_probs=27.2

Q ss_pred             cceEEEEeCCHHHHHHHHHHhcCcccCCeeeEEEec
Q 027939            3 VGNVYVQFREEEQAARALKSLSGRFYAGRPIIVDFS   38 (216)
Q Consensus         3 ~GNVYVkF~~ee~A~~Av~~LNGRwYaGR~I~aEfs   38 (216)
                      .|..||.|.++++|.+|+..+++. ..+++|.+...
T Consensus        48 ~g~afv~f~~~~~a~~a~~~~~~~-~~~~~~~~~~~   82 (183)
T d1u1qa_          48 RGFGFVTYATVEEVDAAMNARPHK-VDGRVVEPKRA   82 (183)
T ss_dssp             EEEEEEEESSHHHHHHHHHTCSCE-ETTEECEEEEC
T ss_pred             cCceecccCCHHHHHHHHHhcCCc-ccccchhhhhh
Confidence            589999999999999999876655 55666665543