Psyllid ID: psy13181

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------
Protein Sequence
MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQHQDKG
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccEEEEccccccccHHHHHHHcccccEEEEEEcccccccccccEEEEEEccHHHHHHHHHHcccccccccEEEEEcccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccccccccccccccccccEEEEEEcccccccHHHHHHHHHcccEEEEEEEEcccccccccEEEEEEccHHHHHHHHHccccEEEcccEEEEEEccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
madysyggyperygrnqktlpteppytafvgnlpngitqgdverffpeqkLVSVRLVKdketdrfkgfcyveFVDVENLRQALLkdgritvdglqvrldiadgkrndnkggfnnkqnrgggsggmggnkynqhqdkg
Flexible Loop (DISEMBL)
madysyggyperygrnqktlptEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALlkdgritvdglqvrldiadgkrndnkggfnnkqnrgggsggmggnkynqhqdkg
Low Complexity Region (SEG)
MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRgggsggmggNKYNQHQDKG
Disordered region (IsUnstruct)
*************************YTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA************************************
Disordered Region (DISOPRED)
**************************TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR****************************************
Disordered Region (DISEMBL)
MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQHQDKG
Disordered Region (DISPRO)
******************TLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD***********************************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQHQDKG
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	137	2.2.26 [Sep-21-2011]
Q15056	248	Eukaryotic translation in	yes	N/A	0.766	0.423	0.474	3e-24
Q5XI72	248	Eukaryotic translation in	yes	N/A	0.671	0.370	0.559	4e-24
Q9WUK2	248	Eukaryotic translation in	yes	N/A	0.671	0.370	0.559	4e-24
Q5RBR8	228	Eukaryotic translation in	yes	N/A	0.678	0.407	0.553	6e-24
Q1JPH6	228	Eukaryotic translation in	yes	N/A	0.678	0.407	0.553	7e-24
O14369	388	Probable RNA-binding prot	yes	N/A	0.671	0.237	0.414	2e-11
Q04836	329	31 kDa ribonucleoprotein,	yes	N/A	0.664	0.276	0.350	1e-08
Q8BGD9	611	Eukaryotic translation in	no	N/A	0.627	0.140	0.352	5e-08
Q9FVQ1	557	Nucleolin 1 OS=Arabidopsi	no	N/A	0.824	0.202	0.352	1e-07
P23588	611	Eukaryotic translation in	no	N/A	0.627	0.140	0.340	1e-07

>sp|Q15056|IF4H_HUMAN Eukaryotic translation initiation factor 4H OS=Homo sapiens GN=EIF4H PE=1 SV=5

 Score =  110 bits (274), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 56/118 (47%), Positives = 83/118 (70%), Gaps = 13/118 (11%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           R+QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF 
Sbjct: 31  RSQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFD 90

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRN------------DNKGGFNNKQNRGG 120
           +V++L++AL  DG +  D   +R+DIA+G++             D++G  +++++RGG
Sbjct: 91  EVDSLKEALTYDGALLGD-RSLRVDIAEGRKQDKGGFGFRKGGPDDRGMGSSRESRGG 147

Stimulates the RNA helicase activity of EIF4A in the translation initiation complex. Binds weakly mRNA.
Homo sapiens (taxid: 9606)

>sp|Q5XI72|IF4H_RAT Eukaryotic translation initiation factor 4H OS=Rattus norvegicus GN=Eif4h PE=1 SV=1

 Score =  110 bits (274), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 52/93 (55%), Positives = 72/93 (77%), Gaps = 1/93 (1%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           R+QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF 
Sbjct: 31  RSQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFD 90

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
           +V++L++AL  DG +  D   +R+DIA+G++ D
Sbjct: 91  EVDSLKEALTYDGALLGD-RSLRVDIAEGRKQD 122

Stimulates the RNA helicase activity of EIF4A in the translation initiation complex. Binds weakly mRNA.

Rattus norvegicus (taxid: 10116)

>sp|Q9WUK2|IF4H_MOUSE Eukaryotic translation initiation factor 4H OS=Mus musculus GN=Eif4h PE=1 SV=3

 Score =  110 bits (274), Expect = 4e-24,   Method: Compositional matrix adjust.
 Identities = 52/93 (55%), Positives = 72/93 (77%), Gaps = 1/93 (1%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           R+QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF 
Sbjct: 31  RSQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFD 90

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
           +V++L++AL  DG +  D   +R+DIA+G++ D
Sbjct: 91  EVDSLKEALTYDGALLGD-RSLRVDIAEGRKQD 122

Stimulates the RNA helicase activity of EIF4A in the translation initiation complex. Binds weakly mRNA.

Mus musculus (taxid: 10090)

>sp|Q5RBR8|IF4H_PONAB Eukaryotic translation initiation factor 4H OS=Pongo abelii GN=EIF4H PE=2 SV=1

 Score =  109 bits (272), Expect = 6e-24,   Method: Compositional matrix adjust.
 Identities = 52/94 (55%), Positives = 72/94 (76%), Gaps = 1/94 (1%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
            R+QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF
Sbjct: 30  SRSQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF 89

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
            +V++L++AL  DG +  D   +R+DIA+G++ D
Sbjct: 90  DEVDSLKEALTYDGALLGD-RSLRVDIAEGRKQD 122

Stimulates the RNA helicase activity of EIF4A in the translation initiation complex. Binds weakly mRNA.

Pongo abelii (taxid: 9601)

>sp|Q1JPH6|IF4H_BOVIN Eukaryotic translation initiation factor 4H OS=Bos taurus GN=EIF4H PE=2 SV=1

 Score =  108 bits (271), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 52/94 (55%), Positives = 72/94 (76%), Gaps = 1/94 (1%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
            R+QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF
Sbjct: 30  SRSQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF 89

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
            +V++L++AL  DG +  D   +R+DIA+G++ D
Sbjct: 90  DEVDSLKEALTYDGALLGD-RSLRVDIAEGRKQD 122

Stimulates the RNA helicase activity of EIF4A in the translation initiation complex. Binds weakly mRNA.

Bos taurus (taxid: 9913)

>sp|O14369|SCE3_SCHPO Probable RNA-binding protein sce3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=sce3 PE=1 SV=1

 Score = 67.8 bits (164), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/94 (41%), Positives = 57/94 (60%), Gaps = 2/94 (2%)

Query: 13  YGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVE 72
           Y R+   +P+EPP+TA VGNL   +T+ D+  FF E  + S+RLV D  T+R +GF YVE
Sbjct: 81  YQRDAIPIPSEPPFTAHVGNLSFDLTENDLGDFFGEG-VTSIRLVIDPLTERSRGFGYVE 139

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
           F   + L  AL   G   + G  VR+ +A+ +R+
Sbjct: 140 FETADTLSAALALSGEDLM-GRPVRITVAEPRRS 172

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

>sp|Q04836|ROC3_ARATH 31 kDa ribonucleoprotein, chloroplastic OS=Arabidopsis thaliana GN=RBP31 PE=1 SV=1

 Score = 58.2 bits (139), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 34/97 (35%), Positives = 54/97 (55%), Gaps = 6/97 (6%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRF 65
           G  PER  R       EP +  +VGNLP  +  G +E+ F E  K+V  R+V D+ET R 
Sbjct: 230 GSRPERAPRVY-----EPAFRVYVGNLPWDVDNGRLEQLFSEHGKVVEARVVYDRETGRS 284

Query: 66  KGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD 102
           +GF +V   DV+ L +A+       ++G  +R+++A+
Sbjct: 285 RGFGFVTMSDVDELNEAISALDGQNLEGRAIRVNVAE 321

Probably involved in the 3'-end processing of chloroplast mRNA's.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8BGD9|IF4B_MOUSE Eukaryotic translation initiation factor 4B OS=Mus musculus GN=Eif4b PE=1 SV=1

 Score = 56.2 bits (134), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 31/88 (35%), Positives = 51/88 (57%), Gaps = 2/88 (2%)

Query: 16  NQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFV 74
           ++  LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    DR KGF Y EF 
Sbjct: 86  DRSRLPKSPPYTAFLGNLPYDVTEDSIKDFFRGLNISAVRLPREPSNPDRLKGFGYAEF- 144

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIAD 102
           +  +   + L     ++   ++R+D+AD
Sbjct: 145 EDLDSLLSALSLNEESLGNRRIRVDVAD 172

Required for the binding of mRNA to ribosomes. Functions in close association with EIF4-F and EIF4-A. Binds near the 5'-terminal cap of mRNA in presence of EIF-4F and ATP. Promotes the ATPase activity and the ATP-dependent RNA unwinding activity of both EIF4-A and EIF4-F.

Mus musculus (taxid: 10090)

>sp|Q9FVQ1|NUCL1_ARATH Nucleolin 1 OS=Arabidopsis thaliana GN=NUCL1 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 43/122 (35%), Positives = 60/122 (49%), Gaps = 9/122 (7%)

Query: 11  ERYGRNQKTLPTEPPY----TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRF 65
           E+    Q   P+ P      T F  NL   I + DVE FF E  ++V VR   +++   F
Sbjct: 278 EKSSAKQPKTPSTPAAGGSKTLFAANLSFNIERADVENFFKEAGEVVDVRFSTNRDDGSF 337

Query: 66  KGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD--GKRNDNKGGFNNKQN-RGGGS 122
           +GF +VEF   E  ++AL   GR  + G ++RLDIA   G+R +         N R GG 
Sbjct: 338 RGFGHVEFASSEEAQKALEFHGRPLL-GREIRLDIAQERGERGERPAFTPQSGNFRSGGD 396

Query: 123 GG 124
           GG
Sbjct: 397 GG 398

Involved in pre-rRNA processing and ribosome assembly. Is associated with intranucleolar chromatin and pre-ribosomal particles and plays a role in controlling activation and repression of a specific subset of rRNA genes located in distinctive nucleolar organizer regions. Binds specifically rDNA chromatin and may be required to maintain rDNA chromatin structure, but is probably not required for the overall histone methylation status of 45S rRNA genes.

Arabidopsis thaliana (taxid: 3702)

>sp|P23588|IF4B_HUMAN Eukaryotic translation initiation factor 4B OS=Homo sapiens GN=EIF4B PE=1 SV=2

 Score = 55.5 bits (132), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 30/88 (34%), Positives = 51/88 (57%), Gaps = 2/88 (2%)

Query: 16  NQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFV 74
           ++  LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    +R KGF Y EF 
Sbjct: 86  DRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF- 144

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIAD 102
           +  +   + L     ++   ++R+D+AD
Sbjct: 145 EDLDSLLSALSLNEESLGNRRIRVDVAD 172

Required for the binding of mRNA to ribosomes. Functions in close association with EIF4-F and EIF4-A. Binds near the 5'-terminal cap of mRNA in presence of EIF-4F and ATP. Promotes the ATPase activity and the ATP-dependent RNA unwinding activity of both EIF4-A and EIF4-F.

Homo sapiens (taxid: 9606)

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	137
380027391	270	PREDICTED: eukaryotic translation initia	0.744	0.377	0.626	6e-29
48103761	274	PREDICTED: eukaryotic translation initia	0.744	0.372	0.626	9e-29
340722741	280	PREDICTED: eukaryotic translation initia	0.744	0.364	0.607	3e-27
346468341	273	hypothetical protein [Amblyomma maculatu	0.788	0.395	0.513	1e-26
350424096	278	PREDICTED: eukaryotic translation initia	0.700	0.345	0.62	1e-26
332022959	285	Eukaryotic translation initiation factor	0.722	0.347	0.564	1e-26
345484780	277	PREDICTED: eukaryotic translation initia	0.671	0.332	0.586	5e-26
383858995	286	PREDICTED: eukaryotic translation initia	0.656	0.314	0.6	9e-26
307203767	249	Eukaryotic translation initiation factor	0.678	0.373	0.580	7e-25
195164911	300	GL20267 [Drosophila persimilis] gi|19410	0.737	0.336	0.574	8e-25

>gi|380027391|ref|XP_003697409.1| PREDICTED: eukaryotic translation initiation factor 4H-like [Apis florea]

 Score =  132 bits (331), Expect = 6e-29,   Method: Compositional matrix adjust.
 Identities = 67/107 (62%), Positives = 82/107 (76%), Gaps = 5/107 (4%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFK 66
           GGY  R GR  K LPTEPPYTAFVGNLPNGI QGDV++ F +  +  +RLVKDKETDRFK
Sbjct: 15  GGY--RSGR--KPLPTEPPYTAFVGNLPNGIVQGDVDKIFKKLNVKGIRLVKDKETDRFK 70

Query: 67  GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFN 113
           GFCYVEF D+ +L  AL  DG + VD   +++D+A+GKRND +GGF+
Sbjct: 71  GFCYVEFEDLADLEAALEMDGAVEVDKSVIKIDVAEGKRND-RGGFD 116

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|48103761|ref|XP_392894.1| PREDICTED: eukaryotic translation initiation factor 4H-like [Apis mellifera]

 Score =  131 bits (329), Expect = 9e-29,   Method: Compositional matrix adjust.
 Identities = 67/107 (62%), Positives = 82/107 (76%), Gaps = 5/107 (4%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFK 66
           GGY  R GR  K LPTEPPYTAFVGNLPNGI QGDV++ F +  +  +RLVKDKETDRFK
Sbjct: 15  GGY--RSGR--KPLPTEPPYTAFVGNLPNGIVQGDVDKIFKKLNVKGIRLVKDKETDRFK 70

Query: 67  GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFN 113
           GFCYVEF D+ +L  AL  DG + VD   +++D+A+GKRND +GGF+
Sbjct: 71  GFCYVEFEDLADLEAALEMDGAVEVDKSVIKIDVAEGKRND-RGGFD 116

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340722741|ref|XP_003399761.1| PREDICTED: eukaryotic translation initiation factor 4H-like [Bombus terrestris]

 Score =  126 bits (317), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 65/107 (60%), Positives = 80/107 (74%), Gaps = 5/107 (4%)

Query: 1   MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDK 60
           + DY  GGY  R GR  K LPTEPPYTAFVGNLPNGI QGDV++ F +  +  +RLVKDK
Sbjct: 10  LRDYG-GGY--RSGR--KPLPTEPPYTAFVGNLPNGIVQGDVDKIFKKLNVKGIRLVKDK 64

Query: 61  ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
           ETDRFKGFCYVEF ++ +L  AL  DG + VD   +++D+A+GKRND
Sbjct: 65  ETDRFKGFCYVEFEELADLEAALEMDGAVEVDKSVIKIDVAEGKRND 111

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|346468341|gb|AEO34015.1| hypothetical protein [Amblyomma maculatum]

 Score =  124 bits (312), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 56/109 (51%), Positives = 83/109 (76%), Gaps = 1/109 (0%)

Query: 6   YGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRF 65
           +GG+ + YG+  + +PTEPP+TAFVGNLP+G+ Q D++  F   K+ S RLV+DKETD+F
Sbjct: 13  FGGHRDHYGKPSRPMPTEPPFTAFVGNLPDGVVQSDIDEIFHGIKIKSTRLVRDKETDKF 72

Query: 66  KGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           KG+CYVEF D+++L++AL  D    + G  +R+DIA+G+R+D  GGF+N
Sbjct: 73  KGYCYVEFFDLDSLKEALEFDS-ADLQGRSLRVDIAEGRRSDRGGGFSN 120

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350424096|ref|XP_003493687.1| PREDICTED: eukaryotic translation initiation factor 4H-like [Bombus impatiens]

 Score =  124 bits (312), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 62/100 (62%), Positives = 76/100 (76%), Gaps = 4/100 (4%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFK 66
           GGY  R GR  K LPTEPPYTAFVGNLPNGI QGDV++ F +  +  +RLVKDKETDRFK
Sbjct: 15  GGY--RSGR--KPLPTEPPYTAFVGNLPNGIVQGDVDKIFKKLNVKGIRLVKDKETDRFK 70

Query: 67  GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
           GFCYVEF ++ +L  AL  DG + VD   +++D+A+GKRN
Sbjct: 71  GFCYVEFEELADLEAALEMDGAVEVDKSVIKIDVAEGKRN 110

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332022959|gb|EGI63225.1| Eukaryotic translation initiation factor 4H [Acromyrmex echinatior]

 Score =  124 bits (311), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 57/101 (56%), Positives = 77/101 (76%), Gaps = 2/101 (1%)

Query: 6   YGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRF 65
           +G YP    R++K LPTEPPYTA+VGNLPNGI QGDV++ F +  +  +RLVKD++TD+F
Sbjct: 27  HGDYPTH--RSRKPLPTEPPYTAYVGNLPNGIVQGDVDKIFEKLNVKVIRLVKDRDTDKF 84

Query: 66  KGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
           KGFCYVEF D+ +L  AL  DG + VD   +++D+A+GKRN
Sbjct: 85  KGFCYVEFEDLADLEAALEMDGAVEVDKCLIKIDVAEGKRN 125

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345484780|ref|XP_001599359.2| PREDICTED: eukaryotic translation initiation factor 4H-like [Nasonia vitripennis]

 Score =  122 bits (306), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 54/92 (58%), Positives = 74/92 (80%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           R+ K LPTEPPYTA+VGNLPNGI QGDV++ F    + ++RLVKD+ETDRFKGFCYVEF 
Sbjct: 17  RSSKPLPTEPPYTAYVGNLPNGIVQGDVDKIFQNMNVKNIRLVKDRETDRFKGFCYVEFE 76

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
           D+ +L+ A+  +G + V+G  +++D+A+GKRN
Sbjct: 77  DLSDLKNAIKLNGCVEVEGSLLKIDVAEGKRN 108

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383858995|ref|XP_003704984.1| PREDICTED: eukaryotic translation initiation factor 4H-like [Megachile rotundata]

 Score =  121 bits (304), Expect = 9e-26,   Method: Compositional matrix adjust.
 Identities = 54/90 (60%), Positives = 71/90 (78%)

Query: 17  QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDV 76
           +K LPTEPPYTA+VGNLPNG+ QGDV++ F +  +  +RLVKDKETD+FKGFCYVEF D+
Sbjct: 21  RKPLPTEPPYTAYVGNLPNGVVQGDVDKIFEKLNVKGIRLVKDKETDKFKGFCYVEFEDL 80

Query: 77  ENLRQALLKDGRITVDGLQVRLDIADGKRN 106
            +L  AL  DG + VD   +++D+A+GKRN
Sbjct: 81  ADLEMALDMDGAVEVDKSLIKIDVAEGKRN 110

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307203767|gb|EFN82710.1| Eukaryotic translation initiation factor 4H [Harpegnathos saltator]

 Score =  118 bits (296), Expect = 7e-25,   Method: Compositional matrix adjust.
 Identities = 54/93 (58%), Positives = 72/93 (77%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           R++K LPT PPYTA+VGNLPNGI QGDV++ F +  +  +RLVKDK+TD+FKGFCYVEF 
Sbjct: 3   RSRKPLPTGPPYTAYVGNLPNGIVQGDVDKIFEKLNVKVIRLVKDKDTDKFKGFCYVEFE 62

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRND 107
           D+ +L  AL  DG + VD   +++D+A+ KRND
Sbjct: 63  DLADLEAALEMDGAVEVDKSLIKIDVAEIKRND 95

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195164911|ref|XP_002023289.1| GL20267 [Drosophila persimilis] gi|194105394|gb|EDW27437.1| GL20267 [Drosophila persimilis]

 Score =  118 bits (295), Expect = 8e-25,   Method: Compositional matrix adjust.
 Identities = 62/108 (57%), Positives = 76/108 (70%), Gaps = 7/108 (6%)

Query: 7   GGYPERYG-----RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE 61
           GGY    G     R  K LPTEPP+ AFVGNLP G+ QGDV + F + ++ +VRLVKD+E
Sbjct: 5   GGYEHARGGFGGERQMKVLPTEPPFLAFVGNLPQGLVQGDVMKIFQDFEVKNVRLVKDRE 64

Query: 62  TDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQ--VRLDIADGKRND 107
           TD FKGFCYVEF  +ENL +AL  DGRI +D L   +R+DIAD K+ND
Sbjct: 65  TDMFKGFCYVEFETLENLERALEFDGRIKLDDLSAPLRIDIADRKKND 112

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

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	137
FB|FBgn0262734	358	Rbp2 "RNA-binding protein 2" [	0.766	0.293	0.562	3.7e-29
ZFIN|ZDB-GENE-010328-19	263	eif4h "eukaryotic translation	0.751	0.391	0.561	1.9e-26
UNIPROTKB|E1BZH4	254	LOC100859865 "Uncharacterized	0.759	0.409	0.554	2.5e-26
UNIPROTKB|F1NYA2	146	LOC100859865 "Uncharacterized	0.759	0.712	0.554	2.5e-26
UNIPROTKB|A7MBG9	222	WBSCR1 "WBSCR1 protein" [Bos t	0.751	0.463	0.546	2.5e-26
UNIPROTKB|Q1JPH6	228	EIF4H "Eukaryotic translation	0.751	0.451	0.546	2.5e-26
UNIPROTKB|E2RQG8	251	EIF4H "Uncharacterized protein	0.751	0.410	0.546	2.5e-26
UNIPROTKB|Q15056	248	EIF4H "Eukaryotic translation	0.751	0.415	0.546	2.5e-26
UNIPROTKB|I3L594	228	EIF4H "Uncharacterized protein	0.751	0.451	0.546	2.5e-26
UNIPROTKB|I3LRD5	248	EIF4H "Uncharacterized protein	0.751	0.415	0.546	2.5e-26

FB|FBgn0262734 Rbp2 "RNA-binding protein 2" [Drosophila melanogaster (taxid:7227)]

 Score = 300 (110.7 bits), Expect = 3.7e-29, Sum P(2) = 3.7e-29
 Identities = 63/112 (56%), Positives = 79/112 (70%)

Query:     7 GGYPE-RYG----RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE 61
             GGY   R G    R  K LPTEPP+ AFVGNLP G+ QGDV + F + ++  VRLVKD+E
Sbjct:     5 GGYEHARSGFGGDRASKQLPTEPPFIAFVGNLPQGLVQGDVIKIFQDFEVKYVRLVKDRE 64

Query:    62 TDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQ--VRLDIADGKRNDNKGG 111
             TD+FKGFCYVEF  ++NL +AL  DGRI +D L   +R+DIAD ++ND  GG
Sbjct:    65 TDQFKGFCYVEFETLDNLERALECDGRIKLDDLSAPLRIDIADRRKNDRPGG 116

GO:0003729 "mRNA binding" evidence=ISS;NAS

GO:0006413 "translational initiation" evidence=ISS

GO:0005829 "cytosol" evidence=ISS

GO:0003743 "translation initiation factor activity" evidence=ISS

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005875 "microtubule associated complex" evidence=IDA

ZFIN|ZDB-GENE-010328-19 eif4h "eukaryotic translation initiation factor 4h" [Danio rerio (taxid:7955)]

 Score = 298 (110.0 bits), Expect = 1.9e-26, P = 1.9e-26
 Identities = 59/105 (56%), Positives = 76/105 (72%)

Query:     7 GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFK 66
             GG P    R QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DKETD+FK
Sbjct:    26 GGGPSG-PRKQKELPTEPPYTAYVGNLPFNTVQGDIDAIFRDLSVRSVRLVRDKETDKFK 84

Query:    67 GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
             GFCYVEF D+E+L++AL  DG +  D   +R+DIA+G+R +  GG
Sbjct:    85 GFCYVEFDDLESLKEALTYDGALLGDR-SLRVDIAEGRRQERGGG 128

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1BZH4 LOC100859865 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 61/110 (55%), Positives = 79/110 (71%)

Query:     7 GGYPERYG----RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKET 62
             GG   R G    R QK LPTEPP+TA+VGNLP    QGD++  F +  + SVRLV+DKET
Sbjct:    17 GGRGSRGGGLGSRKQKELPTEPPFTAYVGNLPFNTVQGDIDAIFKDLSVRSVRLVRDKET 76

Query:    63 DRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             D+FKGFCYVEF +VE+L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    77 DKFKGFCYVEFDEVESLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 124

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0019953 "sexual reproduction" evidence=IEA

GO:0048589 "developmental growth" evidence=IEA

UNIPROTKB|F1NYA2 LOC100859865 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 61/110 (55%), Positives = 79/110 (71%)

Query:     7 GGYPERYG----RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKET 62
             GG   R G    R QK LPTEPP+TA+VGNLP    QGD++  F +  + SVRLV+DKET
Sbjct:    17 GGRGSRGGGLGSRKQKELPTEPPFTAYVGNLPFNTVQGDIDAIFKDLSVRSVRLVRDKET 76

Query:    63 DRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             D+FKGFCYVEF +VE+L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    77 DKFKGFCYVEFDEVESLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 124

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|A7MBG9 WBSCR1 "WBSCR1 protein" [Bos taurus (taxid:9913)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    24 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 80

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    81 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 126

GO:0048589 "developmental growth" evidence=IEA

GO:0019953 "sexual reproduction" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q1JPH6 EIF4H "Eukaryotic translation initiation factor 4H" [Bos taurus (taxid:9913)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    24 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 80

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    81 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 126

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0048589 "developmental growth" evidence=IEA

GO:0019953 "sexual reproduction" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E2RQG8 EIF4H "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    27 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 83

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    84 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 129

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|Q15056 EIF4H "Eukaryotic translation initiation factor 4H" [Homo sapiens (taxid:9606)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    24 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 80

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    81 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 126

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003743 "translation initiation factor activity" evidence=IEA

GO:0019048 "virus-host interaction" evidence=IEA

GO:0019953 "sexual reproduction" evidence=IEA

GO:0048589 "developmental growth" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0003723 "RNA binding" evidence=TAS

GO:0006446 "regulation of translational initiation" evidence=TAS

GO:0008135 "translation factor activity, nucleic acid binding" evidence=TAS

GO:0016281 "eukaryotic translation initiation factor 4F complex" evidence=TAS

GO:0005829 "cytosol" evidence=TAS

GO:0006412 "translation" evidence=TAS

GO:0006413 "translational initiation" evidence=TAS

GO:0010467 "gene expression" evidence=TAS

GO:0044267 "cellular protein metabolic process" evidence=TAS

GO:0005515 "protein binding" evidence=IPI

UNIPROTKB|I3L594 EIF4H "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    24 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 80

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    81 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 126

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|I3LRD5 EIF4H "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 297 (109.6 bits), Expect = 2.5e-26, P = 2.5e-26
 Identities = 59/108 (54%), Positives = 80/108 (74%)

Query:     5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
             S GG+  R   +QK LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+
Sbjct:    24 SAGGHGSR---SQKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDK 80

Query:    65 FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGF 112
             FKGFCYVEF +V++L++AL  DG +  D   +R+DIA+G++ D KGGF
Sbjct:    81 FKGFCYVEFDEVDSLKEALTYDGALLGDR-SLRVDIAEGRKQD-KGGF 126

GO:0048589 "developmental growth" evidence=IEA

GO:0019953 "sexual reproduction" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9WUK2	IF4H_MOUSE	No assigned EC number	0.5591	0.6715	0.3709	yes	N/A
Q5XI72	IF4H_RAT	No assigned EC number	0.5591	0.6715	0.3709	yes	N/A
Q5RBR8	IF4H_PONAB	No assigned EC number	0.5531	0.6788	0.4078	yes	N/A
Q1JPH6	IF4H_BOVIN	No assigned EC number	0.5531	0.6788	0.4078	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	137
cd12401	76	cd12401, RRM_eIF4H, RNA recognition motif in eukar	8e-33
cd12402	77	cd12402, RRM_eIF4B, RNA recognition motif in eukar	3e-16
cd12272	72	cd12272, RRM2_PHIP1, RNA recognition motif 2 in Ar	7e-15
smart00360	73	smart00360, RRM, RNA recognition motif	1e-14
cd12448	73	cd12448, RRM2_gar2, RNA recognition motif 2 in yea	7e-14
cd12450	77	cd12450, RRM1_NUCLs, RNA recognition motif 1 found	1e-12
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	2e-12
cd12283	73	cd12283, RRM1_RBM39_like, RNA recognition motif 1	5e-12
cd12400	74	cd12400, RRM_Nop6, RNA recognition motif in Saccha	9e-12
cd12391	72	cd12391, RRM1_SART3, RNA recognition motif 1 in sq	1e-11
pfam14259	69	pfam14259, RRM_6, RNA recognition motif (a	2e-11
cd12395	73	cd12395, RRM2_RBM34, RNA recognition motif 2 in RN	2e-11
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	2e-10
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-10
COG0724	306	COG0724, COG0724, RNA-binding proteins (RRM domain	4e-09
cd12411	89	cd12411, RRM_ist3_like, RNA recognition motif in i	5e-09
cd12313	84	cd12313, RRM1_RRM2_RBM5_like, RNA recognition moti	6e-09
cd12344	81	cd12344, RRM1_SECp43_like, RNA recognition motif 1	5e-08
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	6e-08
cd12447	76	cd12447, RRM1_gar2, RNA recognition motif 1 in yea	6e-08
cd12413	79	cd12413, RRM1_RBM28_like, RNA recognition motif 1	6e-08
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	2e-07
cd12674	79	cd12674, RRM1_Nop4p, RNA recognition motif 1 in ye	3e-07
cd12242	73	cd12242, RRM_SLIRP, RNA recognition motif found in	3e-07
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	4e-07
cd12316	74	cd12316, RRM3_RBM19_RRM2_MRD1, RNA recognition mot	5e-07
cd12393	78	cd12393, RRM_ZCRB1, RNA recognition motif in Zinc	8e-07
cd12306	73	cd12306, RRM_II_PABPs, RNA recognition motif in ty	2e-06
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	4e-06
cd12566	79	cd12566, RRM2_MRD1, RNA recognition motif 2 in yea	4e-06
cd12449	80	cd12449, RRM_CIRBP_RBM3, RNA recognition motif in	6e-06
cd12671	75	cd12671, RRM_CSTF2_CSTF2T, RNA recognition motif i	7e-06
cd12237	93	cd12237, RRM_snRNP35, RNA recognition motif found	7e-06
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	8e-06
cd12670	79	cd12670, RRM2_Nop12p_like, RNA recognition motif 2	1e-05
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	1e-05
cd12378	80	cd12378, RRM1_I_PABPs, RNA recognition motif 1 in	1e-05
TIGR01622	457	TIGR01622, SF-CC1, splicing factor, CC1-like famil	3e-05
cd12225	77	cd12225, RRM1_2_CID8_like, RNA recognition motif 1	3e-05
cd12307	74	cd12307, RRM_NIFK_like, RNA recognition motif in n	4e-05
cd12312	84	cd12312, RRM_SRSF10_SRSF12, RNA recognition motif	5e-05
cd12296	71	cd12296, RRM1_Prp24, RNA recognition motif 1 in fu	6e-05
cd12328	73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	7e-05
cd12236	91	cd12236, RRM_snRNP70, RNA recognition motif in U1	8e-05
cd12633	80	cd12633, RRM1_FCA, RNA recognition motif 1 in plan	8e-05
cd12231	77	cd12231, RRM2_U2AF65, RNA recognition motif 2 foun	8e-05
cd12363	78	cd12363, RRM_TRA2, RNA recognition motif in transf	9e-05
cd12617	80	cd12617, RRM2_TIAR, RNA recognition motif 2 in nuc	1e-04
cd12408	77	cd12408, RRM_eIF3G_like, RNA recognition motif in	1e-04
cd12329	75	cd12329, RRM2_hnRNPD_like, RNA recognition motif 2	1e-04
cd12536	85	cd12536, RRM1_RBM39, RNA recognition motif 1 in ve	1e-04
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	1e-04
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	2e-04
cd12514	73	cd12514, RRM4_RBM12_like, RNA recognition motif 4	2e-04
cd12345	80	cd12345, RRM2_SECp43_like, RNA recognition motif 2	2e-04
cd12383	83	cd12383, RRM_RBM42, RNA recognition motif in RNA-b	3e-04
cd12618	80	cd12618, RRM2_TIA1, RNA recognition motif 2 in nuc	3e-04
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	3e-04
cd12254	73	cd12254, RRM_hnRNPH_ESRPs_RBM12_like, RNA recognit	4e-04
cd12354	73	cd12354, RRM3_TIA1_like, RNA recognition motif 2 i	4e-04
cd12552	77	cd12552, RRM_Nop15p, RNA recognition motif in yeas	5e-04
cd12537	85	cd12537, RRM1_RBM23, RNA recognition motif 1 in ve	7e-04
cd12297	78	cd12297, RRM2_Prp24, RNA recognition motif 2 in fu	9e-04
cd12394	91	cd12394, RRM1_RBM34, RNA recognition motif 1 in RN	9e-04
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	0.001
cd12599	72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	0.002
PLN03134	144	PLN03134, PLN03134, glycine-rich RNA-binding prote	0.002
cd12559	84	cd12559, RRM_SRSF10, RNA recognition motif in seri	0.002
cd12560	84	cd12560, RRM_SRSF12, RNA recognition motif in seri	0.002
cd12323	74	cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-	0.002
cd12446	84	cd12446, RRM_RBM25, RNA recognition motif in eukar	0.002
cd12642	79	cd12642, RRM_TRA2A, RNA recognition motif in trans	0.002
cd12550	76	cd12550, RRM_II_PABPN1, RNA recognition motif in t	0.002
cd12320	76	cd12320, RRM6_RBM19_RRM5_MRD1, RNA recognition mot	0.003
cd12561	81	cd12561, RRM1_RBM5_like, RNA recognition motif 1 i	0.003
cd12406	78	cd12406, RRM4_NCL, RNA recognition motif 4 in vert	0.004
cd12574	82	cd12574, RRM1_DAZAP1, RNA recognition motif 1 in D	0.004

>gnl|CDD|240847 cd12401, RRM_eIF4H, RNA recognition motif in eukaryotic translation initiation factor 4H (eIF-4H) and similar proteins

 Score =  110 bits (276), Expect = 8e-33
 Identities = 45/77 (58%), Positives = 58/77 (75%), Gaps = 1/77 (1%)

Query: 25  PYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           P+TAFVGNLP    QGD++  F +  + SVRLV+DKETD+FKGFCYVEF DVE+L++AL 
Sbjct: 1   PFTAFVGNLPFNTVQGDLDAIFKDLSVKSVRLVRDKETDKFKGFCYVEFEDVESLKEALE 60

Query: 85  KDGRITVDGLQVRLDIA 101
            DG +  D   +R+DIA
Sbjct: 61  YDGAL-FDDRSLRVDIA 76

This subfamily corresponds to the RRM of eIF-4H, also termed Williams-Beuren syndrome chromosomal region 1 protein, which, together with elf-4B/eIF-4G, serves as the accessory protein of RNA helicase eIF-4A. eIF-4H contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). It stimulates protein synthesis by enhancing the helicase activity of eIF-4A in the initiation step of mRNA translation. . Length = 76

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

 Score = 68.2 bits (167), Expect = 3e-16
 Identities = 33/79 (41%), Positives = 50/79 (63%), Gaps = 4/79 (5%)

Query: 25  PYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDK-ETDRFKGFCYVEFVDVENLRQAL 83
           PYTA++GNLP  +T+ D++ FF    + SVRL ++  +  R +GF Y EF D ++L QAL
Sbjct: 1   PYTAYLGNLPYDVTEEDIKEFFRGLNVSSVRLPREPGDPGRLRGFGYAEFEDRDSLLQAL 60

Query: 84  -LKDGRITVDGLQVRLDIA 101
            L D  +     ++R+DIA
Sbjct: 61  SLNDESLK--NRRIRVDIA 77

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

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

 Score = 64.3 bits (157), Expect = 7e-15
 Identities = 31/61 (50%), Positives = 39/61 (63%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
          T ++GNL   IT+ DV  FF   ++ SVRL  DKET  FKGF +V+F D E+L  AL  D
Sbjct: 1  TVYIGNLAWDITEDDVREFFKGCEITSVRLATDKETGEFKGFGHVDFADEESLDAALKLD 60

Query: 87 G 87
          G
Sbjct: 61 G 61

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

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

 Score = 63.8 bits (156), Expect = 1e-14
 Identities = 30/73 (41%), Positives = 43/73 (58%), Gaps = 1/73 (1%)

Query: 27 TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          T FVGNLP   T+ ++   F    K+ SVRLV+DKET + KGF +VEF   E+  +AL  
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKVESVRLVRDKETGKSKGFAFVEFESEEDAEKALEA 60

Query: 86 DGRITVDGLQVRL 98
               +DG  +++
Sbjct: 61 LNGKELDGRPLKV 73

Length = 73

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

 Score = 61.6 bits (150), Expect = 7e-14
 Identities = 29/72 (40%), Positives = 37/72 (51%), Gaps = 1/72 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVGNL     +  +   F E  ++ SVRL  D ++ R KGF YVEF   E  + AL   G
Sbjct: 2  FVGNLSFDADEDSIYEAFGEYGEISSVRLPTDPDSGRPKGFGYVEFSSQEAAQAALDALG 61

Query: 88 RITVDGLQVRLD 99
             + G  VRLD
Sbjct: 62 GTDLLGRPVRLD 73

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

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

 Score = 58.5 bits (142), Expect = 1e-12
 Identities = 32/76 (42%), Positives = 46/76 (60%), Gaps = 3/76 (3%)

Query: 27  TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T FVGNL     Q D+E FF E  ++V VR+ +D +  R KGF +VEF   E  ++AL K
Sbjct: 1   TLFVGNLSWSAEQDDLEEFFKECGEVVDVRIAQDDD-GRSKGFGHVEFATEEGAQKALEK 59

Query: 86  DGRITVDGLQVRLDIA 101
            G   + G ++R+D+A
Sbjct: 60  SGE-ELLGREIRVDLA 74

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

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

 Score = 58.0 bits (141), Expect = 2e-12
 Identities = 23/76 (30%), Positives = 39/76 (51%), Gaps = 1/76 (1%)

Query: 27  TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
             +VGNLP  +T+ D++  F    ++ S R++ D+ET R +GF +VE    E    A+ K
Sbjct: 1   NLYVGNLPYNVTEEDLKDLFGQFGEVTSARVITDRETGRSRGFGFVEMETAEEANAAIEK 60

Query: 86  DGRITVDGLQVRLDIA 101
                  G  + ++ A
Sbjct: 61  LNGTDFGGRTLTVNEA 76

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

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

 Score = 56.8 bits (138), Expect = 5e-12
 Identities = 23/64 (35%), Positives = 36/64 (56%), Gaps = 1/64 (1%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          T FV  L   + + D+  FF +  K+  VR+++D+ + R KG  YVEF D E++  AL  
Sbjct: 1  TVFVMQLSLKVRERDLYEFFSKAGKVRDVRIIRDRNSRRSKGVAYVEFYDEESVPLALGL 60

Query: 86 DGRI 89
           G+ 
Sbjct: 61 TGQR 64

This subfamily corresponds to the RRM1 of RNA-binding protein 39 (RBM39), RNA-binding protein 23 (RBM23) and similar proteins. RBM39 (also termed HCC1) is a nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Although the cellular function of RBM23 remains unclear, it shows high sequence homology to RBM39 and contains two RRMs. It may possibly function as a pre-mRNA splicing factor. . Length = 73

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

 Score = 56.6 bits (137), Expect = 9e-12
 Identities = 28/74 (37%), Positives = 38/74 (51%), Gaps = 7/74 (9%)

Query: 26 YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL- 83
          +  FVGNLP   T  D+   F       SVRL+ DK+T + KG  +VEF   E + +AL 
Sbjct: 1  FILFVGNLPYDTTAEDLLAHFKNAGAPPSVRLLTDKKTGKSKGCAFVEFDTAEAMTKALK 60

Query: 84 -----LKDGRITVD 92
               LK  +I V+
Sbjct: 61 LHHTLLKGRKINVE 74

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

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

 Score = 56.1 bits (136), Expect = 1e-11
 Identities = 23/68 (33%), Positives = 40/68 (58%), Gaps = 3/68 (4%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          T FV NL   + + ++ + F +   +  VRLVK+ +  + KG+ YVEF + E++++AL  
Sbjct: 1  TVFVSNLDYSVPEDELRKLFSKCGEITDVRLVKNYKG-KSKGYAYVEFENEESVQEALKL 59

Query: 86 DGRITVDG 93
          D R  + G
Sbjct: 60 D-RELIKG 66

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

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

 Score = 55.6 bits (135), Expect = 2e-11
 Identities = 29/70 (41%), Positives = 42/70 (60%), Gaps = 3/70 (4%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          +V NLP  +T+ D+  FF P  K+  VRLV++K  DR +GF +VEF   E+   AL K  
Sbjct: 2  YVRNLPPSVTEEDLREFFSPYGKVEGVRLVRNK--DRPRGFAFVEFASPEDAEAALKKLN 59

Query: 88 RITVDGLQVR 97
           + +DG  +R
Sbjct: 60 GLVLDGRTLR 69

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

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

 Score = 55.2 bits (134), Expect = 2e-11
 Identities = 26/73 (35%), Positives = 45/73 (61%), Gaps = 2/73 (2%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          + FVGNLP  I + ++ + F +   V +VR+V+D++T   KGF YV F   +++  AL  
Sbjct: 1  SVFVGNLPFDIEEEELRKHFEDCGDVEAVRIVRDRKTGIGKGFGYVLFKTKDSVALALKL 60

Query: 86 DGRITVDGLQVRL 98
          +G I + G ++R+
Sbjct: 61 NG-IKLKGRKIRV 72

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

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

 Score = 53.0 bits (128), Expect = 2e-10
 Identities = 28/70 (40%), Positives = 42/70 (60%), Gaps = 2/70 (2%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVGNLP   T+ D++  F +   + S+R+V+D ET R KGF +VEF D E+  +AL    
Sbjct: 2  FVGNLPPDTTEEDLKDLFSKFGPIESIRIVRD-ETGRSKGFAFVEFEDEEDAEKALEALN 60

Query: 88 RITVDGLQVR 97
             + G ++R
Sbjct: 61 GKELGGRELR 70

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

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

 Score = 52.7 bits (127), Expect = 2e-10
 Identities = 26/72 (36%), Positives = 42/72 (58%), Gaps = 2/72 (2%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVGNLP   T+ D+   F +  ++ SVR+V+DK   + KGF +VEF   E+  +AL    
Sbjct: 2  FVGNLPPDTTEEDLRELFSKFGEIESVRIVRDK-DGKSKGFAFVEFESPEDAEKALEALN 60

Query: 88 RITVDGLQVRLD 99
             +DG ++++ 
Sbjct: 61 GKELDGRKLKVS 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|223796 COG0724, COG0724, RNA-binding proteins (RRM domain) [General function prediction only]

 Score = 53.0 bits (126), Expect = 4e-09
 Identities = 30/99 (30%), Positives = 48/99 (48%), Gaps = 1/99 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
             E   T FVGNLP  +T+ D+   F +   +  VRLV+D+ET + +GF +VEF   E+ 
Sbjct: 111 SKEENNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESA 170

Query: 80  RQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
            +A+ +     ++G  +R+  A           NN    
Sbjct: 171 EKAIEELNGKELEGRPLRVQKAQPASQPRSELSNNLDAS 209

Length = 306

>gnl|CDD|240857 cd12411, RRM_ist3_like, RNA recognition motif in ist3 family

 Score = 49.9 bits (120), Expect = 5e-09
 Identities = 24/72 (33%), Positives = 40/72 (55%), Gaps = 8/72 (11%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVD-------VENLR 80
          ++G LP  +T+GD+   F +  ++V + LV+DK+T + KGF ++ + D       V+NL 
Sbjct: 13 YIGGLPYELTEGDILCVFSQYGEIVDINLVRDKKTGKSKGFAFLAYEDQRSTILAVDNLN 72

Query: 81 QALLKDGRITVD 92
             L    I VD
Sbjct: 73 GIKLLGRTIRVD 84

This subfamily corresponds to the RRM of the ist3 family that includes fungal U2 small nuclear ribonucleoprotein (snRNP) component increased sodium tolerance protein 3 (ist3), X-linked 2 RNA-binding motif proteins (RBMX2) found in Metazoa and plants, and similar proteins. Gene IST3 encoding ist3, also termed U2 snRNP protein SNU17 (Snu17p), is a novel yeast Saccharomyces cerevisiae protein required for the first catalytic step of splicing and for progression of spliceosome assembly. It binds specifically to the U2 snRNP and is an intrinsic component of prespliceosomes and spliceosomes. Yeast ist3 contains an atypical RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). In the yeast pre-mRNA retention and splicing complex, the atypical RRM of ist3 functions as a scaffold that organizes the other two constituents, Bud13p (bud site selection 13) and Pml1p (pre-mRNA leakage 1). Fission yeast Schizosaccharomyces pombe gene cwf29 encoding ist3, also termed cell cycle control protein cwf29, is an RNA-binding protein complexed with cdc5 protein 29. It also contains one RRM. The biological function of RBMX2 remains unclear. It shows high sequence similarity to yeast ist3 protein and harbors one RRM as well. . Length = 89

>gnl|CDD|240759 cd12313, RRM1_RRM2_RBM5_like, RNA recognition motif 1 and 2 in RNA-binding protein 5 (RBM5) and similar proteins

 Score = 49.5 bits (119), Expect = 6e-09
 Identities = 22/76 (28%), Positives = 34/76 (44%), Gaps = 6/76 (7%)

Query: 32  NLPNGITQGDVERFF---PEQKLVSVRLVKDKETDRFKGFCYVEFVDVEN---LRQALLK 85
            L    T+ D+ +         +  VRL++DK T   +GF +VEF  +E+      AL  
Sbjct: 9   GLDLLTTEEDILQALSAIASVPIKDVRLIRDKLTGTSRGFAFVEFPSLEDATQWMDALNN 68

Query: 86  DGRITVDGLQVRLDIA 101
                +DG  VR+  A
Sbjct: 69  LDPFVIDGRVVRVSYA 84

This subfamily includes the RRM1 and RRM2 of RNA-binding protein 5 (RBM5 or LUCA15 or H37) and RNA-binding protein 10 (RBM10 or S1-1), and the RRM2 of RNA-binding protein 6 (RBM6 or NY-LU-12 or g16 or DEF-3). These RBMs share high sequence homology and may play an important role in regulating apoptosis. RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor. RBM6 has been predicted to be a nuclear factor based on its nuclear localization signal. Both, RBM6 and RBM5, specifically bind poly(G) RNA. RBM10 is a paralog of RBM5. It may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. All family members contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain. . Length = 84

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

 Score = 46.9 bits (112), Expect = 5e-08
 Identities = 16/60 (26%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 27 TAFVGNLPNGITQGDVER-FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          T ++G+L   + +  +   F    ++ SV+++++K+T +  G+ +VEF   E   QAL  
Sbjct: 1  TLWMGDLEPWMDEAYIYSAFAECGEVTSVKIIRNKQTGKSAGYGFVEFATHEAAEQALQS 60

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

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

 Score = 46.5 bits (111), Expect = 6e-08
 Identities = 26/74 (35%), Positives = 40/74 (54%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVGN+P   T+  +   F E   +VS RLV D++T + KG+ + EF D+E    A+    
Sbjct: 2   FVGNIPYDATEEQLIEIFSEVGPVVSFRLVTDRDTGKPKGYGFCEFEDIETAASAIRNLN 61

Query: 88  RITVDGLQVRLDIA 101
               +G  +R+D A
Sbjct: 62  GYEFNGRALRVDFA 75

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

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

 Score = 46.6 bits (111), Expect = 6e-08
 Identities = 23/76 (30%), Positives = 41/76 (53%), Gaps = 1/76 (1%)

Query: 27  TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T FVGNL   +    ++  F +   +V  R++ D+ET R +GF YV+F   E+ ++A+  
Sbjct: 1   TLFVGNLSWSVDDEWLKAEFEKFGTVVGARVITDRETGRSRGFGYVDFESPEDAKKAIEA 60

Query: 86  DGRITVDGLQVRLDIA 101
                +DG  + +D +
Sbjct: 61  MDGKELDGRPINVDFS 76

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

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

 Score = 46.5 bits (111), Expect = 6e-08
 Identities = 26/79 (32%), Positives = 41/79 (51%), Gaps = 1/79 (1%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T FV NLP   T   +E FF E   +    +VKDK + + +GF YV F   E+ ++AL +
Sbjct: 1   TLFVRNLPYDTTDEQLEEFFSEVGPIKRCFVVKDKGSKKCRGFGYVTFALEEDAKRALEE 60

Query: 86  DGRITVDGLQVRLDIADGK 104
             +    G ++ ++ A  K
Sbjct: 61  KKKTKFGGRKIHVEFAKKK 79

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

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

 Score = 48.4 bits (115), Expect = 2e-07
 Identities = 26/82 (31%), Positives = 38/82 (46%), Gaps = 5/82 (6%)

Query: 11  ERYGRNQKTLPTEPP----YTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRF 65
           +R        P         T FV  L     + D+  FF +  K+  V+ +KD+ + R 
Sbjct: 71  DRRSGRNTKEPLTEAERDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRS 130

Query: 66  KGFCYVEFVDVENLRQALLKDG 87
           KG  YVEF DVE++ +AL   G
Sbjct: 131 KGVAYVEFYDVESVIKALALTG 152

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

 Score = 44.8 bits (106), Expect = 3e-07
 Identities = 27/76 (35%), Positives = 41/76 (53%), Gaps = 1/76 (1%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T FV NL   +TQ D+  FF +   +    +V D ET   +G+ +V F  +E+ ++AL K
Sbjct: 1   TLFVRNLAFSVTQEDLTDFFSDVAPIKHAVVVTDPETGESRGYGFVTFAMLEDAQEALAK 60

Query: 86  DGRITVDGLQVRLDIA 101
                + G  +RLDIA
Sbjct: 61  LKNKKLHGRILRLDIA 76

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

>gnl|CDD|240688 cd12242, RRM_SLIRP, RNA recognition motif found in SRA stem-loop-interacting RNA-binding protein (SLIRP) and similar proteins

 Score = 44.6 bits (106), Expect = 3e-07
 Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 4/74 (5%)

Query: 27 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
            FVGNLP  +   +++ +F +  K+ S  +  DKET   KG+ +V F   + L  AL K
Sbjct: 1  KLFVGNLPWTVGSKELKEYFSQFGKVKSCNVPFDKETGLSKGYGFVSFSSRDGLENALQK 60

Query: 86 DGRITVDG--LQVR 97
            +  ++G  LQV+
Sbjct: 61 Q-KHILEGNKLQVQ 73

This subfamily corresponds to the RRM of SLIRP, a widely expressed small steroid receptor RNA activator (SRA) binding protein, which binds to STR7, a functional substructure of SRA. SLIRP is localized predominantly to the mitochondria and plays a key role in modulating several nuclear receptor (NR) pathways. It functions as a co-repressor to repress SRA-mediated nuclear receptor coactivation. It modulates SHARP- and SKIP-mediated co-regulation of NR activity. SLIRP contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is required for SLIRP's corepression activities. . Length = 73

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

 Score = 44.6 bits (106), Expect = 4e-07
 Identities = 22/56 (39%), Positives = 36/56 (64%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          +VGNL   IT+ D+   F P  ++  V+L +D ET R KG+ +++F D E+ ++AL
Sbjct: 2  YVGNLHFNITEDDLRGIFEPFGEIEFVQLQRDPETGRSKGYGFIQFADAEDAKKAL 57

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

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

 Score = 44.2 bits (105), Expect = 5e-07
 Identities = 22/67 (32%), Positives = 32/67 (47%), Gaps = 1/67 (1%)

Query: 28 AFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FV NLP   T+ ++   F    ++  V L  DKET R KGF +V F+  E+  +A  + 
Sbjct: 2  LFVRNLPFTTTEEELRELFEAFGEISEVHLPLDKETKRSKGFAFVSFMFPEHAVKAYSEL 61

Query: 87 GRITVDG 93
                G
Sbjct: 62 DGSIFQG 68

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

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

 Score = 43.5 bits (103), Expect = 8e-07
 Identities = 22/57 (38%), Positives = 34/57 (59%), Gaps = 1/57 (1%)

Query: 27 TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
          T +V NLP  +T  D+ + F    K+V V +VKDKET + KG  ++ F+D E+  + 
Sbjct: 3  TVYVSNLPFSLTNNDLHKIFSKYGKVVKVTIVKDKETRKSKGVAFILFLDREDAHKC 59

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

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

 Score = 42.7 bits (101), Expect = 2e-06
 Identities = 20/60 (33%), Positives = 35/60 (58%), Gaps = 1/60 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVGN+  G T  +++  F     ++ + ++ DK T + KGF Y+EF+D  ++  ALL + 
Sbjct: 3  FVGNVDYGTTPEELQEHFKSCGTINRITILCDKFTGQPKGFAYIEFLDKSSVENALLLNE 62

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

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

 Score = 41.8 bits (99), Expect = 4e-06
 Identities = 25/82 (30%), Positives = 44/82 (53%), Gaps = 8/82 (9%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVEN----LR 80
           T F+ NLP   T+ +++  F  Q  ++   R+VKDK T   KG  +V+F   E+    L 
Sbjct: 2   TVFIRNLPFDATEEELKELF-SQFGEVKYARIVKDKLTGHSKGTAFVKFKTKESAQKCLE 60

Query: 81  QAL-LKDGRITVDGLQVRLDIA 101
            A   +D  +++DG ++ + +A
Sbjct: 61  AADNAEDSGLSLDGRRLIVTLA 82

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

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

 Score = 42.0 bits (99), Expect = 4e-06
 Identities = 23/63 (36%), Positives = 37/63 (58%), Gaps = 2/63 (3%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
          FV NLP    + D+E+ F    +L  V +  DK++ + KGF YV F+D E+  +A  + D
Sbjct: 6  FVRNLPYSCKEDDLEKLFSKFGELSEVHVAIDKKSGKSKGFAYVLFLDPEDAVKAYKELD 65

Query: 87 GRI 89
          G++
Sbjct: 66 GKV 68

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

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

 Score = 41.4 bits (97), Expect = 6e-06
 Identities = 25/74 (33%), Positives = 44/74 (59%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+G L     +  +E+ F +   +S V +VKD+ET R +GF +V F + ++ + A++   
Sbjct: 4   FIGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENPDDAKDAMMAMN 63

Query: 88  RITVDGLQVRLDIA 101
             +VDG Q+R+D A
Sbjct: 64  GKSVDGRQIRVDQA 77

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

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

 Score = 41.3 bits (97), Expect = 7e-06
 Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVGN+P   T+  ++  F E   +VS RLV D+ET + KG+ + E+ D E    A+    
Sbjct: 2   FVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYKDQETALSAMRNLN 61

Query: 88  RITVDGLQVRLDIA 101
              ++G Q+R+D A
Sbjct: 62  GYELNGRQLRVDNA 75

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

>gnl|CDD|240683 cd12237, RRM_snRNP35, RNA recognition motif found in U11/U12 small nuclear ribonucleoprotein 35 kDa protein (U11/U12-35K) and similar proteins

 Score = 41.5 bits (98), Expect = 7e-06
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 1/78 (1%)

Query: 23 EPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
          +P  T FVG L    T+  +   F     +  +RLV+D  T   KG+ +VE+    +  +
Sbjct: 1  DPYLTLFVGRLSLQTTEETLREVFSRYGDIRRLRLVRDIVTGFSKGYAFVEYEHERDALR 60

Query: 82 ALLKDGRITVDGLQVRLD 99
          A     ++ +DG ++ +D
Sbjct: 61 AYRDAHKLVIDGSEIFVD 78

This subfamily corresponds to the RRM of U11/U12-35K, also termed protein HM-1, or U1 snRNP-binding protein homolog, and is one of the components of the U11/U12 snRNP, which is a subunit of the minor (U12-dependent) spliceosome required for splicing U12-type nuclear pre-mRNA introns. U11/U12-35K is highly conserved among bilateria and plants, but lacks in some organisms, such as Saccharomyces cerevisiae and Caenorhabditis elegans. Moreover, U11/U12-35K shows significant sequence homology to U1 snRNP-specific 70 kDa protein (U1-70K or snRNP70). It contains a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by an adjacent glycine-rich region, and Arg-Asp and Arg-Glu dipeptide repeats rich domain, making U11/U12-35K a possible functional analog of U1-70K. It may facilitate 5' splice site recognition in the minor spliceosome and play a role in exon bridging, interacting with components of the major spliceosome bound to the pyrimidine tract of an upstream U2-type intron. The family corresponds to the RRM of U11/U12-35K that may directly contact the U11 or U12 snRNA through the RRM domain. Length = 93

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

 Score = 41.1 bits (97), Expect = 8e-06
 Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FV  L    T+ ++E  F    ++  V L+KD ET   +GF +V F  VE+   A+    
Sbjct: 5   FVSGLSTRTTEKELEALFSKFGRVEEVLLMKDPETGESRGFGFVTFESVEDADAAIRDLN 64

Query: 88  RITVDGLQVRLDIA 101
              ++G  ++++ A
Sbjct: 65  GKELEGRVIKVEKA 78

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

>gnl|CDD|241114 cd12670, RRM2_Nop12p_like, RNA recognition motif 2 in yeast nucleolar protein 12 (Nop12p) and similar proteins

 Score = 40.6 bits (95), Expect = 1e-05
 Identities = 22/61 (36%), Positives = 34/61 (55%), Gaps = 1/61 (1%)

Query: 29 FVGNLP-NGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVGNL    + +G    F     +  VR+V+D +T+  KGF YV+F D   + +ALL + 
Sbjct: 3  FVGNLGFEDVEEGLWRVFGKCGGIEYVRIVRDPKTNVGKGFAYVQFKDENAVEKALLLNE 62

Query: 88 R 88
          +
Sbjct: 63 K 63

This subgroup corresponds to the RRM2 of Nop12p, which is encoded by YOL041C from Saccharomyces cerevisiae. It is a novel nucleolar protein required for pre-25S rRNA processing and normal rates of cell growth at low temperatures. Nop12p shares high sequence similarity with nucleolar protein 13 (Nop13p). Both, Nop12p and Nop13p, are not essential for growth. However, unlike Nop13p that localizes primarily to the nucleolus but is also present in the nucleoplasm to a lesser extent, Nop12p is localized to the nucleolus. Nop12p contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). . Length = 79

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

 Score = 40.5 bits (95), Expect = 1e-05
 Identities = 23/74 (31%), Positives = 43/74 (58%), Gaps = 7/74 (9%)

Query: 25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
           +  FV  LP  +T+ ++E+ F +   + SVRLV ++ + + KG  YVE+ +  +  QA+
Sbjct: 2  KHKLFVSGLPFSVTKEELEKLFKKHGVVKSVRLVTNR-SGKPKGLAYVEYENESSASQAV 60

Query: 84 LKDGRITVDGLQVR 97
          LK     +DG +++
Sbjct: 61 LK-----MDGTEIK 69

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

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

 Score = 40.2 bits (95), Expect = 1e-05
 Identities = 17/56 (30%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          +VG+L   +T+  +   F P   ++S+R+ +D  T R  G+ YV F +  +  +AL
Sbjct: 3  YVGDLHPDVTEAMLYEIFSPAGPVLSIRVCRDLITRRSLGYAYVNFQNPADAERAL 58

This subfamily corresponds to the RRM1 of type I poly(A)-binding proteins (PABPs), highly conserved proteins that bind to the poly(A) tail present at the 3' ends of most eukaryotic mRNAs. They have been implicated in the regulation of poly(A) tail length during the polyadenylation reaction, translation initiation, mRNA stabilization by influencing the rate of deadenylation and inhibition of mRNA decapping. The family represents type I polyadenylate-binding proteins (PABPs), including polyadenylate-binding protein 1 (PABP-1 or PABPC1), polyadenylate-binding protein 3 (PABP-3 or PABPC3), polyadenylate-binding protein 4 (PABP-4 or APP-1 or iPABP), polyadenylate-binding protein 5 (PABP-5 or PABPC5), polyadenylate-binding protein 1-like (PABP-1-like or PABPC1L), polyadenylate-binding protein 1-like 2 (PABPC1L2 or RBM32), polyadenylate-binding protein 4-like (PABP-4-like or PABPC4L), yeast polyadenylate-binding protein, cytoplasmic and nuclear (PABP or ACBP-67), and similar proteins. PABP-1 is a ubiquitously expressed multifunctional protein that may play a role in 3' end formation of mRNA, translation initiation, mRNA stabilization, protection of poly(A) from nuclease activity, mRNA deadenylation, inhibition of mRNA decapping, and mRNP maturation. Although PABP-1 is thought to be a cytoplasmic protein, it is also found in the nucleus. PABP-1 may be involved in nucleocytoplasmic trafficking and utilization of mRNP particles. PABP-1 contains four copies of RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a less well conserved linker region, and a proline-rich C-terminal conserved domain (CTD). PABP-3 is a testis-specific poly(A)-binding protein specifically expressed in round spermatids. It is mainly found in mammalian and may play an important role in the testis-specific regulation of mRNA homeostasis. PABP-3 shows significant sequence similarity to PABP-1. However, it binds to poly(A) with a lower affinity than PABP-1. Moreover, PABP-1 possesses an A-rich sequence in its 5'-UTR and allows binding of PABP and blockage of translation of its own mRNA. In contrast, PABP-3 lacks the A-rich sequence in its 5'-UTR. PABP-4 is an inducible poly(A)-binding protein (iPABP) that is primarily localized to the cytoplasm. It shows significant sequence similarity to PABP-1 as well. The RNA binding properties of PABP-1 and PABP-4 appear to be identical. PABP-5 is encoded by PABPC5 gene within the X-specific subinterval, and expressed in fetal brain and in a range of adult tissues in mammals, such as ovary and testis. It may play an important role in germ cell development. Moreover, unlike other PABPs, PABP-5 contains only four RRMs, but lacks both the linker region and the CTD. PABP-1-like and PABP-1-like 2 are the orthologs of PABP-1. PABP-4-like is the ortholog of PABP-5. Their cellular functions remain unclear. The family also includes yeast PABP, a conserved poly(A) binding protein containing poly(A) tails that can be attached to the 3'-ends of mRNAs. The yeast PABP and its homologs may play important roles in the initiation of translation and in mRNA decay. Like vertebrate PABP-1, the yeast PABP contains four RRMs, a linker region, and a proline-rich CTD as well. The first two RRMs are mainly responsible for specific binding to poly(A). The proline-rich region may be involved in protein-protein interactions. . Length = 80

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

 Score = 42.2 bits (99), Expect = 3e-05
 Identities = 25/77 (32%), Positives = 40/77 (51%), Gaps = 3/77 (3%)

Query: 12  RYGRNQKTLPTEPP--YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGF 68
           R  +     P + P     +VGNL   IT+ ++ + F P   +  V+L +D ET R KGF
Sbjct: 171 RAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGF 230

Query: 69  CYVEFVDVENLRQALLK 85
            +++F D E  ++AL  
Sbjct: 231 GFIQFHDAEEAKEALEV 247

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

 Score = 39.6 bits (93), Expect = 3e-05
 Identities = 22/72 (30%), Positives = 35/72 (48%), Gaps = 4/72 (5%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          T  VG +   +++ D++ FF     V+ VRL  D++      F +VEF D E+   AL  
Sbjct: 2  TIHVGGIDGSLSEDDLKEFFSNCGEVTRVRLCGDRQHS--ARFAFVEFADAESALSALNL 59

Query: 86 DGRITVDGLQVR 97
           G   + G  +R
Sbjct: 60 SG-TLLGGHPLR 70

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

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

 Score = 39.1 bits (92), Expect = 4e-05
 Identities = 16/51 (31%), Positives = 32/51 (62%), Gaps = 3/51 (5%)

Query: 29 FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVE 77
          ++G+LP+G  + ++ ++F  Q   +  +RL + K+T + KG+ +VEF   E
Sbjct: 3  YIGHLPHGFYEPELRKYF-SQFGTVTRLRLSRSKKTGKSKGYAFVEFESPE 52

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

>gnl|CDD|240758 cd12312, RRM_SRSF10_SRSF12, RNA recognition motif in serine/arginine-rich splicing factor SRSF10, SRSF12 and similar proteins

 Score = 38.9 bits (91), Expect = 5e-05
 Identities = 24/80 (30%), Positives = 38/80 (47%), Gaps = 1/80 (1%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           + +V N+ +     D+ R F +   +V V +  D  T R +GF YV+F DV +   AL  
Sbjct: 2   SLYVRNVADATRPDDLRRLFGKYGPIVDVYIPLDFYTRRPRGFAYVQFEDVRDAEDALYY 61

Query: 86  DGRITVDGLQVRLDIADGKR 105
             R    G ++ +  A G R
Sbjct: 62  LDRTRFLGREIEIQFAQGDR 81

This subfamily corresponds to the RRM of SRSF10 and SRSF12. SRSF10, also termed 40 kDa SR-repressor protein (SRrp40), or FUS-interacting serine-arginine-rich protein 1 (FUSIP1), or splicing factor SRp38, or splicing factor, arginine/serine-rich 13A (SFRS13A), or TLS-associated protein with Ser-Arg repeats (TASR). It is a serine-arginine (SR) protein that acts as a potent and general splicing repressor when dephosphorylated. It mediates global inhibition of splicing both in M phase of the cell cycle and in response to heat shock. SRSF10 emerges as a modulator of cholesterol homeostasis through the regulation of low-density lipoprotein receptor (LDLR) splicing efficiency. It also regulates cardiac-specific alternative splicing of triadin pre-mRNA and is required for proper Ca2+ handling during embryonic heart development. In contrast, the phosphorylated SRSF10 functions as a sequence-specific splicing activator in the presence of a nuclear cofactor. It activates distal alternative 5' splice site of adenovirus E1A pre-mRNA in vivo. Moreover, SRSF10 strengthens pre-mRNA recognition by U1 and U2 snRNPs. SRSF10 localizes to the nuclear speckles and can shuttle between nucleus and cytoplasm. SRSF12, also termed 35 kDa SR repressor protein (SRrp35), or splicing factor, arginine/serine-rich 13B (SFRS13B), or splicing factor, arginine/serine-rich 19 (SFRS19), is a serine/arginine (SR) protein-like alternative splicing regulator that antagonizes authentic SR proteins in the modulation of alternative 5' splice site choice. For instance, it activates distal alternative 5' splice site of the adenovirus E1A pre-mRNA in vivo. Both, SRSF10 and SRSF12, contain a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

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

 Score = 38.4 bits (90), Expect = 6e-05
 Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 3/62 (4%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
          T  V NLP   T+  + +FF +     +R VK  E++       +EF   +    AL KD
Sbjct: 2  TVKVKNLPKDTTENKIRQFFKDCG--EIREVKIVESEGGL-VAVIEFETEDEALAALTKD 58

Query: 87 GR 88
           +
Sbjct: 59 HK 60

This subfamily corresponds to the RRM1 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 71

>gnl|CDD|240774 cd12328, RRM2_hnRNPA_like, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A subfamily

 Score = 38.4 bits (90), Expect = 7e-05
 Identities = 20/58 (34%), Positives = 35/58 (60%), Gaps = 1/58 (1%)

Query: 29 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          FVG L   +T+ D+  +F +   + SV +V DKET + +GF +V F D + + + +L+
Sbjct: 3  FVGGLKEDVTEEDLREYFSQYGNVESVEIVTDKETGKKRGFAFVTFDDYDPVDKIVLQ 60

This subfamily corresponds to the RRM2 of hnRNP A0, hnRNP A1, hnRNP A2/B1, hnRNP A3 and similar proteins. hnRNP A0 is a low abundance hnRNP protein that has been implicated in mRNA stability in mammalian cells. It has been identified as the substrate for MAPKAP-K2 and may be involved in the lipopolysaccharide (LPS)-induced post-transcriptional regulation of tumor necrosis factor-alpha (TNF-alpha), cyclooxygenase 2 (COX-2) and macrophage inflammatory protein 2 (MIP-2). hnRNP A1 is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A2/B1 is an RNA trafficking response element-binding protein that interacts with the hnRNP A2 response element (A2RE). Many mRNAs, such as myelin basic protein (MBP), myelin-associated oligodendrocytic basic protein (MOBP), carboxyanhydrase II (CAII), microtubule-associated protein tau, and amyloid precursor protein (APP) are trafficked by hnRNP A2/B1. hnRNP A3 is also a RNA trafficking response element-binding protein that participates in the trafficking of A2RE-containing RNA. The hnRNP A subfamily is characterized by two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. . Length = 73

>gnl|CDD|240682 cd12236, RRM_snRNP70, RNA recognition motif in U1 small nuclear ribonucleoprotein 70 kDa (U1-70K) and similar proteins

 Score = 38.8 bits (91), Expect = 8e-05
 Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 3/80 (3%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL-L 84
           T FV  L    T+  + R F E   +  +RLV+DK+T + +G+ ++EF    +++ A   
Sbjct: 3   TLFVARLNYDTTESKLRREFEEYGPIKRIRLVRDKKTGKPRGYAFIEFEHERDMKAAYKY 62

Query: 85  KDGRITVDGLQVRLDIADGK 104
            DG   +DG +V +D+  G+
Sbjct: 63  ADG-KKIDGRRVLVDVERGR 81

This subfamily corresponds to the RRM of U1-70K, also termed snRNP70, a key component of the U1 snRNP complex, which is one of the key factors facilitating the splicing of pre-mRNA via interaction at the 5' splice site, and is involved in regulation of polyadenylation of some viral and cellular genes, enhancing or inhibiting efficient poly(A) site usage. U1-70K plays an essential role in targeting the U1 snRNP to the 5' splice site through protein-protein interactions with regulatory RNA-binding splicing factors, such as the RS protein ASF/SF2. Moreover, U1-70K protein can specifically bind to stem-loop I of the U1 small nuclear RNA (U1 snRNA) contained in the U1 snRNP complex. It also mediates the binding of U1C, another U1-specific protein, to the U1 snRNP complex. U1-70K contains a conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by an adjacent glycine-rich region at the N-terminal half, and two serine/arginine-rich (SR) domains at the C-terminal half. The RRM is responsible for the binding of stem-loop I of U1 snRNA molecule. Additionally, the most prominent immunodominant region that can be recognized by auto-antibodies from autoimmune patients may be located within the RRM. The SR domains are involved in protein-protein interaction with SR proteins that mediate 5' splice site recognition. For instance, the first SR domain is necessary and sufficient for ASF/SF2 Binding. The family also includes Drosophila U1-70K that is an essential splicing factor required for viability in flies, but its SR domain is dispensable. The yeast U1-70k doesn't contain easily recognizable SR domains and shows low sequence similarity in the RRM region with other U1-70k proteins and therefore not included in this family. The RRM domain is dispensable for yeast U1-70K function. Length = 91

>gnl|CDD|241077 cd12633, RRM1_FCA, RNA recognition motif 1 in plant flowering time control protein FCA and similar proteins

 Score = 38.4 bits (89), Expect = 8e-05
 Identities = 18/56 (32%), Positives = 33/56 (58%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          FVG++P  IT+ +V   F E   ++ V ++KDK T   +G C+V++   +   +A+
Sbjct: 3  FVGSVPRTITEQEVRPMFEEHGNVLEVAIIKDKRTGHQQGCCFVKYSTRDEADRAI 58

This subgroup corresponds to the RRM1 of FCA, a gene controlling flowering time in Arabidopsis, encoding a flowering time control protein that functions in the posttranscriptional regulation of transcripts involved in the flowering process. FCA contains two RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNP (ribonucleoprotein domains), and a WW protein interaction domain. . Length = 80

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

 Score = 38.4 bits (90), Expect = 8e-05
 Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 29 FVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
          F+G LPN +++  V E      KL +  LVKD  T   KG+ + E++D  
Sbjct: 4  FIGGLPNYLSEDQVKELLESFGKLKAFNLVKDSATGLSKGYAFCEYLDPS 53

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

>gnl|CDD|240809 cd12363, RRM_TRA2, RNA recognition motif in transformer-2 protein homolog TRA2-alpha, TRA2-beta and similar proteins

 Score = 38.4 bits (90), Expect = 9e-05
 Identities = 19/59 (32%), Positives = 37/59 (62%), Gaps = 3/59 (5%)

Query: 43  ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 101
            R+ P +K   V++V D++T R +GF +V F  VE+ ++A  +   + +DG ++R+D +
Sbjct: 21  SRYGPIEK---VQVVYDQKTGRSRGFGFVYFESVEDAKEAKERLNGMEIDGRRIRVDYS 76

This subfamily corresponds to the RRM of two mammalian homologs of Drosophila transformer-2 (Tra2), TRA2-alpha, TRA2-beta (also termed SFRS10), and similar proteins found in eukaryotes. TRA2-alpha is a 40-kDa serine/arginine-rich (SR) protein that specifically binds to gonadotropin-releasing hormone (GnRH) exonic splicing enhancer on exon 4 (ESE4) and is necessary for enhanced GnRH pre-mRNA splicing. It strongly stimulates GnRH intron A excision in a dose-dependent manner. In addition, TRA2-alpha can interact with either 9G8 or SRp30c, which may also be crucial for ESE-dependent GnRH pre-mRNA splicing. TRA2-beta is a serine/arginine-rich (SR) protein that controls the pre-mRNA alternative splicing of the calcitonin/calcitonin gene-related peptide (CGRP), the survival motor neuron 1 (SMN1) protein and the tau protein. Both, TRA2-alpha and TRA2-beta, contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), flanked by the N- and C-terminal arginine/serine (RS)-rich regions. . Length = 78

>gnl|CDD|241061 cd12617, RRM2_TIAR, RNA recognition motif 2 in nucleolysin TIAR and similar proteins

 Score = 38.1 bits (88), Expect = 1e-04
 Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 26  YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FVG+L   IT  D++  F P  K+   R+VKD  T + KG+ +V F +  +   A++
Sbjct: 2   FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 61

Query: 85  KDGRITVDGLQVRLDIA 101
             G   + G Q+R + A
Sbjct: 62  HMGGQWLGGRQIRTNWA 78

This subgroup corresponds to the RRM2 of nucleolysin TIAR, also termed TIA-1-related protein, a cytotoxic granule-associated RNA-binding protein that shows high sequence similarity with 40-kDa isoform of T-cell-restricted intracellular antigen-1 (p40-TIA-1). TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. TIAR possesses nucleolytic activity against cytolytic lymphocyte (CTL) target cells. It can trigger DNA fragmentation in permeabilized thymocytes, and thus may function as an effector responsible for inducing apoptosis. TIAR is composed of three N-terminal, highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. It interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 80

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

 Score = 37.9 bits (89), Expect = 1e-04
 Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 2/61 (3%)

Query: 30 VGNLPNGITQGDVER-FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-DG 87
          V NL     + D+   F P   +  V L KDKET + +GF +V F   E+  +A+ K +G
Sbjct: 4  VTNLSEDADEDDLRELFRPFGPISRVYLAKDKETGQSRGFAFVTFHTREDAERAIEKLNG 63

Query: 88 R 88
           
Sbjct: 64 F 64

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

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

 Score = 37.7 bits (88), Expect = 1e-04
 Identities = 21/74 (28%), Positives = 39/74 (52%), Gaps = 2/74 (2%)

Query: 29  FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG L    T+  +  +F +   +V + L  DK+T++ +GFC++ F D E   + +L+  
Sbjct: 3   FVGGLSPETTEEKIREYFGKFGNIVEIELPMDKKTNKRRGFCFITF-DSEEPVKKILETQ 61

Query: 88  RITVDGLQVRLDIA 101
              + G +V +  A
Sbjct: 62  FHVIGGKKVEVKKA 75

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

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

 Score = 38.1 bits (88), Expect = 1e-04
 Identities = 21/50 (42%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 27 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVD 75
          T F   L   I   D+E FF    K+  VR++ D+ + R KG  YVEFVD
Sbjct: 3  TVFCMQLAARIRPRDLEEFFSTVGKVRDVRMISDRNSRRSKGIAYVEFVD 52

This subgroup corresponds to the RRM1 of RBM39, also termed hepatocellular carcinoma protein 1, or RNA-binding region-containing protein 2, or splicing factor HCC1, a nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). An octapeptide sequence called the RS-ERK motif is repeated six times in the RS region of RBM39. Based on the specific domain composition, RBM39 has been classified into a family of non-snRNP (small nuclear ribonucleoprotein) splicing factors that are usually not complexed to snRNAs. . Length = 85

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

 Score = 37.6 bits (88), Expect = 1e-04
 Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          +VG L   + +  +   F P   +  +++  D ET + +GF +VEF + E+   A+
Sbjct: 2  YVGGLAEEVDEKVLHAAFIPFGDIKDIQIPLDYETQKHRGFAFVEFEEPEDAAAAI 57

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

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

 Score = 37.2 bits (87), Expect = 2e-04
 Identities = 20/67 (29%), Positives = 36/67 (53%), Gaps = 4/67 (5%)

Query: 29 FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
          FVG LP   T   + ++F  Q  ++    ++ D++T + +G+ +V F D E+  +A  KD
Sbjct: 4  FVGGLPYHTTDDSLRKYF-SQFGEIEEAVVITDRQTGKSRGYGFVTFKDKESAERA-CKD 61

Query: 87 GRITVDG 93
              +DG
Sbjct: 62 PNPIIDG 68

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

>gnl|CDD|240958 cd12514, RRM4_RBM12_like, RNA recognition motif 4 in RNA-binding protein RBM12, RBM12B and similar proteins

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 3/54 (5%)

Query: 32 NLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          N+P  +T+G+V  FF    +    + ++ DK T +  G  YVEFV  E+  +A 
Sbjct: 6  NIPFDVTKGEVLAFFAGIAIAEQGIHILYDK-TGKTLGEAYVEFVSEEDAMRAE 58

This subfamily corresponds to the RRM4 of RBM12 and RBM12B. RBM12, also termed SH3/WW domain anchor protein in the nucleus (SWAN), is ubiquitously expressed. It contains five distinct RNA binding motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two proline-rich regions, and several putative transmembrane domains. RBM12B show high sequence semilarity with RBM12. It contains five distinct RRMs as well. The biological roles of both RBM12 and RBM12B remain unclear. . Length = 73

>gnl|CDD|240791 cd12345, RRM2_SECp43_like, RNA recognition motif 2 in tRNA selenocysteine-associated protein 1 (SECp43) and similar proteins

 Score = 37.3 bits (87), Expect = 2e-04
 Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 4/61 (6%)

Query: 26 YTAFVGNLPNGITQGDVERFFPEQKLVSVRLVK---DKETDRFKGFCYVEFVDVENLRQA 82
          ++ FVG+L   +T   ++  F   +  SVR  K   D  T R KG+ +V F D +   +A
Sbjct: 2  HSIFVGDLAPDVTDYMLQETF-RARYPSVRGAKVVMDPVTGRSKGYGFVRFGDEDERDRA 60

Query: 83 L 83
          L
Sbjct: 61 L 61

This subfamily corresponds to the RRM2 in tRNA selenocysteine-associated protein 1 (SECp43), yeast negative growth regulatory protein NGR1 (RBP1), yeast protein NAM8, and similar proteins. SECp43 is an RNA-binding protein associated specifically with eukaryotic selenocysteine tRNA [tRNA(Sec)]. It may play an adaptor role in the mechanism of selenocysteine insertion. SECp43 is located primarily in the nucleus and contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal polar/acidic region. Yeast proteins, NGR1 and NAM8, show high sequence similarity with SECp43. NGR1 is a putative glucose-repressible protein that binds both RNA and single-stranded DNA (ssDNA). It may function in regulating cell growth in early log phase, possibly through its participation in RNA metabolism. NGR1 contains three RRMs, two of which are followed by a glutamine-rich stretch that may be involved in transcriptional activity. In addition, NGR1 has an asparagine-rich region near the C-terminus which also harbors a methionine-rich region. NAM8 is a putative RNA-binding protein that acts as a suppressor of mitochondrial splicing deficiencies when overexpressed in yeast. It may be a non-essential component of the mitochondrial splicing machinery. NAM8 also contains three RRMs. . Length = 80

>gnl|CDD|240829 cd12383, RRM_RBM42, RNA recognition motif in RNA-binding protein 42 (RBM42) and similar proteins

 Score = 37.2 bits (87), Expect = 3e-04
 Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 1/59 (1%)

Query: 26 YTAFVGNLPNGITQGDVERFFPEQK-LVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          +  FVG+L N +T   + R F +       ++V+DK T + KG+ +V F D  +  +A+
Sbjct: 7  FRIFVGDLGNEVTDEVLARAFSKYPSFQKAKVVRDKRTGKSKGYGFVSFSDPNDYLKAM 65

This subfamily corresponds to the RRM of RBM42 which has been identified as a heterogeneous nuclear ribonucleoprotein K (hnRNP K)-binding protein. It also directly binds the 3' untranslated region of p21 mRNA that is one of the target mRNAs for hnRNP K. Both, hnRNP K and RBM42, are components of stress granules (SGs). Under nonstress conditions, RBM42 predominantly localizes within the nucleus and co-localizes with hnRNP K. Under stress conditions, hnRNP K and RBM42 form cytoplasmic foci where the SG marker TIAR localizes, and may play a role in the maintenance of cellular ATP level by protecting their target mRNAs. RBM42 contains an RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). . Length = 83

>gnl|CDD|241062 cd12618, RRM2_TIA1, RNA recognition motif 2 in nucleolysin TIA-1 isoform p40 (p40-TIA-1) and similar proteins

 Score = 37.0 bits (85), Expect = 3e-04
 Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 1/77 (1%)

Query: 26  YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FVG+L   IT  D++  F P  ++   R+VKD  T + KG+ +V F +  +   A+ 
Sbjct: 2   FHVFVGDLSPEITTDDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 61

Query: 85  KDGRITVDGLQVRLDIA 101
           + G   + G Q+R + A
Sbjct: 62  QMGGQWLGGRQIRTNWA 78

This subgroup corresponds to the RRM2 of p40-TIA-1, the 40-kDa isoform of T-cell-restricted intracellular antigen-1 (TIA-1), and a cytotoxic granule-associated RNA-binding protein mainly found in the granules of cytotoxic lymphocytes. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis, and function as the granule component responsible for inducing apoptosis in cytolytic lymphocyte (CTL) targets. It is composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 interacts with RNAs containing short stretches of uridylates and its RRM2 can mediate the specific binding to uridylate-rich RNAs. . Length = 80

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

 Score = 36.7 bits (86), Expect = 3e-04
 Identities = 26/82 (31%), Positives = 39/82 (47%), Gaps = 19/82 (23%)

Query: 29 FVGNLPNGITQGDVERFF------------PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 76
          +VGNLP GIT+ ++  FF            P   ++SV++  +K       F +VEF  V
Sbjct: 5  YVGNLPPGITEEELVDFFNQAMLAAGLNQAPGNPVLSVQINPEKN------FAFVEFRTV 58

Query: 77 ENLRQALLKDGRITVDGLQVRL 98
          E    AL  DG I   G  +++
Sbjct: 59 EEATAALALDG-IIFKGQPLKI 79

The subfamily corresponds to the RRM1 of U2AF65 and dU2AF50. U2AF65, also termed U2AF2, is the large subunit of U2 small nuclear ribonucleoprotein (snRNP) auxiliary factor (U2AF), which has been implicated in the recruitment of U2 snRNP to pre-mRNAs and is a highly conserved heterodimer composed of large and small subunits. U2AF65 specifically recognizes the intron polypyrimidine tract upstream of the 3' splice site and promotes binding of U2 snRNP to the pre-mRNA branchpoint. U2AF65 also plays an important role in the nuclear export of mRNA. It facilitates the formation of a messenger ribonucleoprotein export complex, containing both the NXF1 receptor and the RNA substrate. Moreover, U2AF65 interacts directly and specifically with expanded CAG RNA, and serves as an adaptor to link expanded CAG RNA to NXF1 for RNA export. U2AF65 contains an N-terminal RS domain rich in arginine and serine, followed by a proline-rich segment and three C-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The N-terminal RS domain stabilizes the interaction of U2 snRNP with the branch point (BP) by contacting the branch region, and further promotes base pair interactions between U2 snRNA and the BP. The proline-rich segment mediates protein-protein interactions with the RRM domain of the small U2AF subunit (U2AF35 or U2AF1). The RRM1 and RRM2 are sufficient for specific RNA binding, while RRM3 is responsible for protein-protein interactions. The family also includes Splicing factor U2AF 50 kDa subunit (dU2AF50), the Drosophila ortholog of U2AF65. dU2AF50 functions as an essential pre-mRNA splicing factor in flies. It associates with intronless mRNAs and plays a significant and unexpected role in the nuclear export of a large number of intronless mRNAs. Length = 82

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

 Score = 36.4 bits (85), Expect = 4e-04
 Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 3/59 (5%)

Query: 32 NLPNGITQGDVERFF--PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
           LP   T+ D+  FF   +     + +V D +  R  G  YVEF   E+ R+AL K   
Sbjct: 6  GLPFSATEEDIRDFFSGLDIPPDGIHIVYDDDG-RPTGEAYVEFASPEDARRALRKHNN 63

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

>gnl|CDD|240800 cd12354, RRM3_TIA1_like, RNA recognition motif 2 in granule-associated RNA binding proteins (p40-TIA-1 and TIAR), and yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1

 Score = 36.4 bits (85), Expect = 4e-04
 Identities = 18/48 (37%), Positives = 29/48 (60%), Gaps = 7/48 (14%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEF 73
          T +VGNLP+G+T+ +++R F     +  VR+ KD      KG+ +V F
Sbjct: 2  TVYVGNLPHGLTEEELQRTFSPFGAIEEVRVFKD------KGYAFVRF 43

This subfamily corresponds to the RRM3 of TIA-1, TIAR, and PUB1. Nucleolysin TIA-1 isoform p40 (p40-TIA-1 or TIA-1) and nucleolysin TIA-1-related protein (TIAR) are granule-associated RNA binding proteins involved in inducing apoptosis in cytotoxic lymphocyte (CTL) target cells. They share high sequence similarity and are expressed in a wide variety of cell types. TIA-1 can be phosphorylated by a serine/threonine kinase that is activated during Fas-mediated apoptosis.TIAR is mainly localized in the nucleus of hematopoietic and nonhematopoietic cells. It is translocated from the nucleus to the cytoplasm in response to exogenous triggers of apoptosis. Both TIA-1 and TIAR bind specifically to poly(A) but not to poly(C) homopolymers. They are composed of three N-terminal highly homologous RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a glutamine-rich C-terminal auxiliary domain containing a lysosome-targeting motif. TIA-1 and TIAR interact with RNAs containing short stretches of uridylates and their RRM2 can mediate the specific binding to uridylate-rich RNAs. The C-terminal auxiliary domain may be responsible for interacting with other proteins. In addition, TIA-1 and TIAR share a potential serine protease-cleavage site (Phe-Val-Arg) localized at the junction between their RNA binding domains and their C-terminal auxiliary domains. This subfamily also includes a yeast nuclear and cytoplasmic polyadenylated RNA-binding protein PUB1, termed ARS consensus-binding protein ACBP-60, or poly uridylate-binding protein, or poly(U)-binding protein, which has been identified as both a heterogeneous nuclear RNA-binding protein (hnRNP) and a cytoplasmic mRNA-binding protein (mRNP). It may be stably bound to a translationally inactive subpopulation of mRNAs within the cytoplasm. PUB1 is distributed in both, the nucleus and the cytoplasm, and binds to poly(A)+ RNA (mRNA or pre-mRNA). Although it is one of the major cellular proteins cross-linked by UV light to polyadenylated RNAs in vivo, PUB1 is nonessential for cell growth in yeast. PUB1 also binds to T-rich single stranded DNA (ssDNA); however, there is no strong evidence implicating PUB1 in the mechanism of DNA replication. PUB1 contains three RRMs, and a GAR motif (glycine and arginine rich stretch) that is located between RRM2 and RRM3. . Length = 73

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

 Score = 36.3 bits (84), Expect = 5e-04
 Identities = 12/52 (23%), Positives = 34/52 (65%), Gaps = 1/52 (1%)

Query: 27 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
            ++G+LP+G  + +++++F +   + +VR+ + K+T   K + +++F++ E
Sbjct: 1  VIYIGHLPHGFLEKELKKYFSQFGTVKNVRVARSKKTGNSKHYGFIQFLNPE 52

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

>gnl|CDD|240981 cd12537, RRM1_RBM23, RNA recognition motif 1 in vertebrate probable RNA-binding protein 23 (RBM23)

 Score = 36.2 bits (83), Expect = 7e-04
 Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 27 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          T F   L   I   D+E FF    K+  VR++ D+ + R KG  YVEF +++++  A+
Sbjct: 3  TVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI 60

This subgroup corresponds to the RRM1 of RBM23, also termed RNA-binding region-containing protein 4, or splicing factor SF2, which may function as a pre-mRNA splicing factor. It shows high sequence homology to RNA-binding protein 39 (RBM39 or HCC1), a nuclear autoantigen that contains an N-terminal arginine/serine rich (RS) motif and three RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). In contrast to RBM39, RBM23 contains only two RRMs. . Length = 85

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

 Score = 35.6 bits (83), Expect = 9e-04
 Identities = 23/78 (29%), Positives = 38/78 (48%), Gaps = 10/78 (12%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQ--KLVSVRL--VKDKETDRFKGFCYVEFVDVENLRQA 82
          T +V N P    Q D+   F EQ  +++S+R   ++  +T RF   CYV+F   E+   A
Sbjct: 2  TLWVTNFPPSFDQSDIRDLF-EQYGEILSIRFPSLRFNKTRRF---CYVQFTSPESAAAA 57

Query: 83 LLKDGRITVDG--LQVRL 98
          +        +G  L V++
Sbjct: 58 VALLNGKLGEGYKLVVKI 75

This subfamily corresponds to the RRM2 of Prp24, also termed U4/U6 snRNA-associated-splicing factor PRP24 (U4/U6 snRNP), an RNA-binding protein with four well conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). It facilitates U6 RNA base-pairing with U4 RNA during spliceosome assembly. Prp24 specifically binds free U6 RNA primarily with RRMs 1 and 2 and facilitates pairing of U6 RNA bases with U4 RNA bases. Additionally, it may also be involved in dissociation of the U4/U6 complex during spliceosome activation. . Length = 78

>gnl|CDD|240840 cd12394, RRM1_RBM34, RNA recognition motif 1 in RNA-binding protein 34 (RBM34) and similar proteins

 Score = 35.7 bits (83), Expect = 9e-04
 Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 21/92 (22%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLV-SVRL----------------VKDKETDRFKGFC 69
          T FVGNLP    + D+++ F +   + SVR                 +K K  D+ K   
Sbjct: 2  TVFVGNLPLTTKKKDLKKLFKQFGPIESVRFRSVPVKEKKLPKKVAAIKKKFHDK-KDNV 60

Query: 70 --YVEFVDVENLRQALLKDGRITVDGLQVRLD 99
            YV F + E+  +AL  +G    +G  +R+D
Sbjct: 61 NAYVVFKEEESAEKALKLNGT-EFEGHHIRVD 91

This subfamily corresponds to the RRM1 of RBM34, a putative RNA-binding protein containing two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). Although the function of RBM34 remains unclear currently, its RRM domains may participate in mRNA processing. RBM34 may act as an mRNA processing-related protein. . Length = 91

>gnl|CDD|240776 cd12330, RRM2_Hrp1p, RNA recognition motif 2 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins

 Score = 35.0 bits (81), Expect = 0.001
 Identities = 23/69 (33%), Positives = 41/69 (59%), Gaps = 2/69 (2%)

Query: 29 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          FVG LP  +T+ + + +F +  K+V  +L++D +T R +GF +V F D E+  + +   G
Sbjct: 3  FVGGLPPDVTEEEFKEYFSQFGKVVDAQLMQDHDTGRSRGFGFVTF-DSESAVERVFSAG 61

Query: 88 RITVDGLQV 96
           + + G QV
Sbjct: 62 MLELGGKQV 70

This subfamily corresponds to the RRM1 of Hrp1p and similar proteins. Hrp1p or Nab4p, also termed cleavage factor IB (CFIB), is a sequence-specific trans-acting factor that is essential for mRNA 3'-end formation in yeast Saccharomyces cerevisiae. It can be UV cross-linked to RNA and specifically recognizes the (UA)6 RNA element required for both, the cleavage and poly(A) addition steps. Moreover, Hrp1p can shuttle between the nucleus and the cytoplasm, and play an additional role in the export of mRNAs to the cytoplasm. Hrp1p also interacts with Rna15p and Rna14p, two components of CF1A. In addition, Hrp1p functions as a factor directly involved in modulating the activity of the nonsense-mediated mRNA decay (NMD) pathway; it binds specifically to a downstream sequence element (DSE)-containing RNA and interacts with Upf1p, a component of the surveillance complex, further triggering the NMD pathway. Hrp1p contains two central RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and an arginine-glycine-rich region harboring repeats of the sequence RGGF/Y. . Length = 75

>gnl|CDD|241043 cd12599, RRM1_SF2_plant_like, RNA recognition motif 1 in plant pre-mRNA-splicing factor SF2 and similar proteins

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 22/75 (29%), Positives = 38/75 (50%), Gaps = 4/75 (5%)

Query: 27  TAFVGNLPNGITQGDVER-FFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T +VGNLP  I + +VE  F+    +V + L   K   R  G+ ++EF D  +   A+  
Sbjct: 1   TVYVGNLPGDIREREVEDLFYKYGPIVDIDL---KLPPRPPGYAFIEFEDARDAEDAIRG 57

Query: 86  DGRITVDGLQVRLDI 100
                 DG ++R+++
Sbjct: 58  RDGYDFDGQRLRVEL 72

This subgroup corresponds to the RRM1 of SF2, also termed SR1 protein, a plant serine/arginine (SR)-rich phosphoprotein similar to the mammalian splicing factor SF2/ASF. It promotes splice site switching in mammalian nuclear extracts. SF2 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a C-terminal domain rich in proline, serine and lysine residues (PSK domain), a composition reminiscent of histones. This PSK domain harbors a putative phosphorylation site for the mitotic kinase cyclin/p34cdc2. . Length = 72

>gnl|CDD|178680 PLN03134, PLN03134, glycine-rich RNA-binding protein 4; Provisional

 Score = 35.8 bits (82), Expect = 0.002
 Identities = 25/100 (25%), Positives = 45/100 (45%), Gaps = 1/100 (1%)

Query: 29  FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+G L  G     +   F     +V  +++ D+ET R +GF +V F D      A+ +  
Sbjct: 38  FIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMD 97

Query: 88  RITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGG 127
              ++G  +R++ A+ + +  +         GGG G  GG
Sbjct: 98  GKELNGRHIRVNPANDRPSAPRAYGGGGGYSGGGGGYGGG 137

Length = 144

>gnl|CDD|241003 cd12559, RRM_SRSF10, RNA recognition motif in serine/arginine-rich splicing factor 10 (SRSF10) and similar proteins

 Score = 34.9 bits (80), Expect = 0.002
 Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FV N+ +     D+ R F     +V V +  D  T R +GF YV+F DV +   AL    
Sbjct: 4   FVRNIADDTRSEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYVQFEDVRDAEDALHNLD 63

Query: 88  RITVDGLQVRLDIADGKR 105
           R  + G Q+ +  A G R
Sbjct: 64  RKWICGRQIEIQFAQGDR 81

This subgroup corresponds to the RRM of SRSF10, also termed 40 kDa SR-repressor protein (SRrp40), or FUS-interacting serine-arginine-rich protein 1 (FUSIP1), or splicing factor SRp38, or splicing factor, arginine/serine-rich 13A (SFRS13A), or TLS-associated protein with Ser-Arg repeats (TASR). SRSF10 is a serine-arginine (SR) protein that acts as a potent and general splicing repressor when dephosphorylated. It mediates global inhibition of splicing both in M phase of the cell cycle and in response to heat shock. SRSF10 emerges as a modulator of cholesterol homeostasis through the regulation of low-density lipoprotein receptor (LDLR) splicing efficiency. It also regulates cardiac-specific alternative splicing of triadin pre-mRNA and is required for proper Ca2+ handling during embryonic heart development. In contrast, the phosphorylated SRSF10 functions as a sequence-specific splicing activator in the presence of a nuclear cofactor. It activates distal alternative 5' splice site of adenovirus E1A pre-mRNA in vivo. Moreover, SRSF10 strengthens pre-mRNA recognition by U1 and U2 snRNPs. SRSF10 localizes to the nuclear speckles and can shuttle between nucleus and cytoplasm. It contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

>gnl|CDD|241004 cd12560, RRM_SRSF12, RNA recognition motif in serine/arginine-rich splicing factor 12 (SRSF12) and similar proteins

 Score = 35.0 bits (80), Expect = 0.002
 Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 1/78 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FV N+ +     D+ R F     +V V +  D  T R +GF Y++F DV +   AL    
Sbjct: 4   FVRNVADATRPEDLRREFGRYGPIVDVYVPLDFYTRRPRGFAYIQFEDVRDAEDALYNLN 63

Query: 88  RITVDGLQVRLDIADGKR 105
           R  V G Q+ +  A G R
Sbjct: 64  RKWVCGRQIEIQFAQGDR 81

This subgroup corresponds to the RRM of SRSF12, also termed 35 kDa SR repressor protein (SRrp35), or splicing factor, arginine/serine-rich 13B (SFRS13B), or splicing factor, arginine/serine-rich 19 (SFRS19). SRSF12 is a serine/arginine (SR) protein-like alternative splicing regulator that antagonizes authentic SR proteins in the modulation of alternative 5' splice site choice. For instance, it activates distal alternative 5' splice site of the adenovirus E1A pre-mRNA in vivo. SRSF12 contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a C-terminal RS domain rich in serine-arginine dipeptides. . Length = 84

>gnl|CDD|240769 cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-binding protein Musashi homologs Musashi-1, Musashi-2 and similar proteins

 Score = 34.7 bits (80), Expect = 0.002
 Identities = 18/46 (39%), Positives = 29/46 (63%), Gaps = 1/46 (2%)

Query: 29 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEF 73
          FVG L    T+ DV+++F +  K+    L+ DK+T+R +GF +V F
Sbjct: 3  FVGGLSANTTEDDVKKYFSQFGKVEDAMLMFDKQTNRHRGFGFVTF 48

This subfamily corresponds to the RRM2.in Musashi-1 (also termed Msi1), a neural RNA-binding protein putatively expressed in central nervous system (CNS) stem cells and neural progenitor cells, and associated with asymmetric divisions in neural progenitor cells. It is evolutionarily conserved from invertebrates to vertebrates. Musashi-1 is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). It has been implicated in the maintenance of the stem-cell state, differentiation, and tumorigenesis. It translationally regulates the expression of a mammalian numb gene by binding to the 3'-untranslated region of mRNA of Numb, encoding a membrane-associated inhibitor of Notch signaling, and further influences neural development. Moreover, Musashi-1 represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-2 (also termed Msi2) has been identified as a regulator of the hematopoietic stem cell (HSC) compartment and of leukemic stem cells after transplantation of cells with loss and gain of function of the gene. It influences proliferation and differentiation of HSCs and myeloid progenitors, and further modulates normal hematopoiesis and promotes aggressive myeloid leukemia. Both, Musashi-1 and Musashi-2, contain two conserved N-terminal tandem RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), along with other domains of unknown function. . Length = 74

>gnl|CDD|240892 cd12446, RRM_RBM25, RNA recognition motif in eukaryotic RNA-binding protein 25 and similar proteins

 Score = 34.5 bits (80), Expect = 0.002
 Identities = 23/73 (31%), Positives = 37/73 (50%), Gaps = 8/73 (10%)

Query: 27 TAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL-- 83
          T FVGN+P G++   + +   +  K++S + VKD  T + K F + EF D E   +AL  
Sbjct: 2  TVFVGNIPEGVSDDFIRKLLEKCGKVLSWKRVKDPSTGKLKAFGFCEFEDPEGALRALRL 61

Query: 84 -----LKDGRITV 91
               L   ++ V
Sbjct: 62 LNGLELGGKKLLV 74

This subfamily corresponds to the RRM of RBM25, also termed Arg/Glu/Asp-rich protein of 120 kDa (RED120), or protein S164, or RNA-binding region-containing protein 7, an evolutionary-conserved splicing coactivator SRm160 (SR-related nuclear matrix protein of 160 kDa, )-interacting protein. RBM25 belongs to a family of RNA-binding proteins containing a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), at the N-terminus, a RE/RD-rich (ER) central region, and a C-terminal proline-tryptophan-isoleucine (PWI) motif. It localizes to the nuclear speckles and associates with multiple splicing components, including splicing cofactors SRm160/300, U snRNAs, assembled splicing complexes, and spliced mRNAs. It may play an important role in pre-mRNA processing by coupling splicing with mRNA 3'-end formation. Additional research indicates that RBM25 is one of the RNA-binding regulators that direct the alternative splicing of apoptotic factors. It can activate proapoptotic Bcl-xS 5'ss by binding to the exonic splicing enhancer, CGGGCA, and stabilize the pre-mRNA-U1 snRNP through interaction with hLuc7A, a U1 snRNP-associated factor. . Length = 84

>gnl|CDD|241086 cd12642, RRM_TRA2A, RNA recognition motif in transformer-2 protein homolog alpha (TRA-2 alpha) and similar proteins

 Score = 34.6 bits (79), Expect = 0.002
 Identities = 18/63 (28%), Positives = 35/63 (55%), Gaps = 1/63 (1%)

Query: 38 TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV 96
          T+ D+   F     L  V +V D+ T R +GF +V F  +++ ++A+     + +DG ++
Sbjct: 12 TERDLREVFSRYGPLAGVNVVYDQRTGRSRGFAFVYFERIDDSKEAMEHANGMELDGRRI 71

Query: 97 RLD 99
          R+D
Sbjct: 72 RVD 74

This subgroup corresponds to the RRM of TRA2-alpha or TRA-2-alpha, also termed transformer-2 protein homolog A, a mammalian homolog of Drosophila transformer-2 (Tra2). TRA2-alpha is a 40-kDa serine/arginine-rich (SR) protein (SRp40) that specifically binds to gonadotropin-releasing hormone (GnRH) exonic splicing enhancer on exon 4 (ESE4) and is necessary for enhanced GnRH pre-mRNA splicing. It strongly stimulates GnRH intron A excision in a dose-dependent manner. In addition, TRA2-alpha can interact with either 9G8 or SRp30c, which may also be crucial for ESE-dependent GnRH pre-mRNA splicing. TRA2-alpha contains a well conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), flanked by the N- and C-terminal arginine/serine (RS)-rich regions. . Length = 79

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

 Score = 34.4 bits (79), Expect = 0.002
 Identities = 23/62 (37%), Positives = 35/62 (56%), Gaps = 1/62 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          +VGN+  G T  ++E  F     V+ V ++ DK +   KGF Y+EF D E++R AL  D 
Sbjct: 3  YVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTALALDE 62

Query: 88 RI 89
           +
Sbjct: 63 SL 64

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

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

 Score = 34.1 bits (79), Expect = 0.003
 Identities = 21/58 (36%), Positives = 32/58 (55%), Gaps = 5/58 (8%)

Query: 30 VGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFV---DVENLRQAL 83
          V N+P   T+ ++   F P  ++ SVRL K K     +GF +VEFV   + +N  +AL
Sbjct: 5  VRNVPFEATKKELRELFSPFGQVKSVRLPK-KFDGSHRGFAFVEFVTKQEAQNAMEAL 61

This subfamily corresponds to the RRM6 of RBM19 and RRM5 of MRD1. RBM19, also termed RNA-binding domain-1 (RBD-1), is a nucleolar protein conserved in eukaryotes. It is involved in ribosome biogenesis by processing rRNA and is essential for preimplantation development. It has a unique domain organization containing 6 conserved RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). MRD1 is encoded by a novel yeast gene MRD1 (multiple RNA-binding domain). It is well-conserved in yeast and its homologs exist in all eukaryotes. MRD1 is present in the nucleolus and the nucleoplasm. It interacts with the 35 S precursor rRNA (pre-rRNA) and U3 small nucleolar RNAs (snoRNAs). It is essential for the initial processing at the A0-A2 cleavage sites in the 35 S pre-rRNA. MRD1 contains 5 conserved RRMs, which may play an important structural role in organizing specific rRNA processing events. . Length = 76

>gnl|CDD|241005 cd12561, RRM1_RBM5_like, RNA recognition motif 1 in RNA-binding protein 5 (RBM5) and similar proteins

 Score = 34.3 bits (79), Expect = 0.003
 Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 6/58 (10%)

Query: 24 PPYTAFVGNLPNGITQGD----VERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
          P  T  +  LP  +T+ D    +     E K   VRL++ K T   +GF +VEF+ +E
Sbjct: 1  PNNTIMLRGLPLSVTEEDIRNALVSHGVEPK--DVRLMRRKTTGASRGFAFVEFMSLE 56

This subgroup corresponds to the RRM1 of RNA-binding protein 5 (RBM5 or LUCA15 or H37), RNA-binding protein 10 (RBM10 or S1-1) and similar proteins. RBM5 is a known modulator of apoptosis. It may also act as a tumor suppressor or an RNA splicing factor; it specifically binds poly(G) RNA. RBM10, a paralog of RBM5, may play an important role in mRNA generation, processing and degradation in several cell types. The rat homolog of human RBM10 is protein S1-1, a hypothetical RNA binding protein with poly(G) and poly(U) binding capabilities. Both, RBM5 and RBM10, contain two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), two C2H2-type zinc fingers, and a G-patch/D111 domain. . Length = 81

>gnl|CDD|240852 cd12406, RRM4_NCL, RNA recognition motif 4 in vertebrate nucleolin

 Score = 33.8 bits (77), Expect = 0.004
 Identities = 27/80 (33%), Positives = 42/80 (52%), Gaps = 6/80 (7%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA--LL 84
           T FV  L    T+  ++  F     ++ R+V D++T   KGF +V+F   E+ + A   +
Sbjct: 2   TLFVKGLSEDTTEETLKESF--DGSIAARIVTDRDTGSSKGFGFVDFSSEEDAKAAKEAM 59

Query: 85  KDGRITVDGLQVRLDIADGK 104
           +DG I  DG +V LD A  K
Sbjct: 60  EDGEI--DGNKVTLDFAKPK 77

This subfamily corresponds to the RRM4 of ubiquitously expressed protein nucleolin, also termed protein C23, is a multifunctional major nucleolar phosphoprotein that has been implicated in various metabolic processes, such as ribosome biogenesis, cytokinesis, nucleogenesis, cell proliferation and growth, cytoplasmic-nucleolar transport of ribosomal components, transcriptional repression, replication, signal transduction, inducing chromatin decondensation, etc. Nucleolin exhibits intrinsic self-cleaving, DNA helicase, RNA helicase and DNA-dependent ATPase activities. It can be phosphorylated by many protein kinases, such as the major mitotic kinase Cdc2, casein kinase 2 (CK2), and protein kinase C-zeta. Nucleolin shares similar domain architecture with gar2 from Schizosaccharomyces pombe and NSR1 from Saccharomyces cerevisiae. The highly phosphorylated N-terminal domain of nucleolin is made up of highly acidic regions separated from each other by basic sequences, and contains multiple phosphorylation sites. The central domain of nucleolin contains four closely adjacent N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), which suggests that nucleolin is potentially able to interact with multiple RNA targets. The C-terminal RGG (or GAR) domain of nucleolin is rich in glycine, arginine and phenylalanine residues, and contains high levels of NG,NG-dimethylarginines. . Length = 78

>gnl|CDD|241018 cd12574, RRM1_DAZAP1, RNA recognition motif 1 in Deleted in azoospermia-associated protein 1 (DAZAP1) and similar proteins

 Score = 34.0 bits (78), Expect = 0.004
 Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 7/70 (10%)

Query: 29 FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-- 85
          FVG L    TQ  + R+F +  ++V   ++KDK T+R +GF +V+F D   +   L    
Sbjct: 3  FVGGLSWETTQETLRRYFSQYGEVVDCVIMKDKTTNRSRGFGFVKFKDPNCVGTVLAGGP 62

Query: 86 ---DGRITVD 92
             DGR T+D
Sbjct: 63 HTLDGR-TID 71

This subfamily corresponds to the RRM1 of DAZAP1 or DAZ-associated protein 1, also termed proline-rich RNA binding protein (Prrp), a multi-functional ubiquitous RNA-binding protein expressed most abundantly in the testis and essential for normal cell growth, development, and spermatogenesis. DAZAP1 is a shuttling protein whose acetylated form is predominantly nuclear and the nonacetylated form is in cytoplasm. It also functions as a translational regulator that activates translation in an mRNA-specific manner. DAZAP1 was initially identified as a binding partner of Deleted in Azoospermia (DAZ). It also interacts with numerous hnRNPs, including hnRNP U, hnRNP U like-1, hnRNPA1, hnRNPA/B, and hnRNP D, suggesting DAZAP1 might associate and cooperate with hnRNP particles to regulate adenylate-uridylate-rich elements (AU-rich element or ARE)-containing mRNAs. DAZAP1 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal proline-rich domain. . Length = 82

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	137
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.86
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.77
KOG0121|consensus	153		99.69
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.69
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.66
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.65
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.63
KOG0122|consensus	270		99.62
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	99.57
KOG0149|consensus	247		99.57
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.54
KOG0105|consensus	241		99.54
KOG0107|consensus	195		99.53
KOG0113|consensus	335		99.52
KOG4207|consensus	256		99.51
PLN03120	260	nucleic acid binding protein; Provisional	99.51
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.5
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.5
KOG0130|consensus	170		99.49
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.49
KOG0125|consensus	376		99.48
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.48
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.47
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.47
KOG0126|consensus	219		99.47
KOG0144|consensus	510		99.46
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.45
KOG0111|consensus	298		99.44
PLN03121	243	nucleic acid binding protein; Provisional	99.43
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.42
KOG0145|consensus	360		99.42
smart00362	72	RRM_2 RNA recognition motif.	99.41
PLN03213	759	repressor of silencing 3; Provisional	99.39
smart00360	71	RRM RNA recognition motif.	99.38
COG0724	306	RNA-binding proteins (RRM domain) [General functio	99.37
KOG0144|consensus	510		99.36
KOG0131|consensus	203		99.36
KOG0148|consensus	321		99.36
KOG0117|consensus	506		99.34
KOG0108|consensus	435		99.33
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	99.33
KOG0114|consensus	124		99.33
KOG0148|consensus	321		99.3
KOG4212|consensus	608		99.29
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.28
KOG0117|consensus	506		99.27
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.27
KOG0127|consensus	678		99.24
KOG0127|consensus	678		99.2
KOG0109|consensus	346		99.2
KOG0415|consensus	479		99.18
KOG0145|consensus	360		99.18
KOG0146|consensus	371		99.17
KOG0116|consensus	419		99.17
KOG0146|consensus	371		99.14
KOG0124|consensus	544		99.14
smart00361	70	RRM_1 RNA recognition motif.	99.08
KOG0147|consensus	549		99.07
KOG4205|consensus	311		99.06
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.06
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	99.04
KOG4208|consensus	214		99.01
KOG0124|consensus	544		99.01
KOG0153|consensus	377		99.0
KOG4206|consensus	221		98.96
KOG0109|consensus	346		98.95
KOG0131|consensus	203		98.95
KOG4205|consensus	311		98.95
KOG0123|consensus	369		98.88
KOG0132|consensus	894		98.86
KOG4211|consensus	510		98.86
KOG0533|consensus	243		98.79
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	98.7
KOG0123|consensus	369		98.68
KOG1457|consensus	284		98.67
KOG0226|consensus	290		98.65
KOG4211|consensus	510		98.65
KOG0110|consensus	725		98.65
KOG0110|consensus	725		98.64
KOG4661|consensus	940		98.62
KOG4209|consensus	231		98.58
KOG4212|consensus	608		98.51
KOG0106|consensus	216		98.46
KOG4849|consensus	498		98.36
KOG1548|consensus	382		98.33
KOG4454|consensus	267		98.32
KOG0151|consensus	877		98.3
KOG4660|consensus	549		98.28
KOG1995|consensus	351		98.23
KOG4210|consensus	285		98.04
KOG0120|consensus	500		98.03
KOG0147|consensus	549		97.99
KOG1457|consensus	284		97.94
KOG1365|consensus	508		97.88
KOG1190|consensus	492		97.84
KOG4206|consensus	221		97.8
KOG4307|consensus	944		97.77
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	97.73
KOG0129|consensus	520		97.58
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.55
KOG0106|consensus	216		97.46
KOG1365|consensus	508		97.39
KOG1190|consensus	492		97.25
KOG0129|consensus	520		97.24
COG5175	480	MOT2 Transcriptional repressor [Transcription]	97.14
KOG4307|consensus	944		96.98
KOG0105|consensus	241		96.89
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	96.82
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	96.81
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	96.67
PF10309	62	DUF2414: Protein of unknown function (DUF2414); In	96.53
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	96.36
KOG2193|consensus	584		96.34
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.2
KOG1456|consensus	494		96.2
KOG0120|consensus	500		96.18
KOG1456|consensus	494		96.16
KOG2416|consensus	718		96.14
KOG0128|consensus	881		95.81
KOG1548|consensus	382		95.76
KOG3152|consensus	278		95.68
PF07576	110	BRAP2: BRCA1-associated protein 2; InterPro: IPR01	95.59
KOG2314|consensus	698		95.57
KOG1855|consensus	484		95.16
KOG0112|consensus	975		95.14
KOG0128|consensus	881		95.06
KOG1996|consensus	378		94.61
KOG0804|consensus	493		94.44
KOG4676|consensus	479		93.75
KOG0115|consensus	275		93.57
KOG2202|consensus	260		92.84
KOG0112|consensus	975		92.32
PRK11634	629	ATP-dependent RNA helicase DeaD; Provisional	92.22
KOG2591|consensus	684		91.99
KOG2068|consensus	327		91.69
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	90.8
KOG4660|consensus	549		90.75
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	90.69
KOG4410|consensus	396		88.97
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	88.54
KOG4210|consensus	285		88.08
KOG2253|consensus	668		87.56
KOG4285|consensus	350		86.86
KOG2135|consensus	526		86.53
KOG4483|consensus	528		86.42
PF15023	166	DUF4523: Protein of unknown function (DUF4523)	83.61

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

Probab=99.86  E-value=1.6e-20  Score=124.79  Aligned_cols=85  Identities=25%  Similarity=0.473  Sum_probs=79.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||+.++|++|+++|++| .|..|.++.++.|+++++||||+|.+.++|++||. |++ ..|+++.|+|.++
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng-~~i~Gr~l~V~~a  111 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDG-KELNGRHIRVNPA  111 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCC-CEECCEEEEEEeC
Confidence            45789999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCCCCCC
Q psy13181        102 DGKRNDNK  109 (137)
Q Consensus       102 ~~~~~~~~  109 (137)
                      .+++...+
T Consensus       112 ~~~~~~~~  119 (144)
T PLN03134        112 NDRPSAPR  119 (144)
T ss_pred             CcCCCCCC
Confidence            87765433

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.77  E-value=1.7e-17  Score=124.20  Aligned_cols=83  Identities=22%  Similarity=0.413  Sum_probs=75.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v   98 (137)
                      ...++|||+|||..+++++|+++|++| .|..+.++.++.+++++++|||+|.+.++|++||+ |++ ..|.+  ++|.|
T Consensus       191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng-~~~~g~~~~l~V  269 (346)
T TIGR01659       191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKLTGTPRGVAFVRFNKREEAQEAISALNN-VIPEGGSQPLTV  269 (346)
T ss_pred             cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC-CccCCCceeEEE
Confidence            456789999999999999999999999 99999999999999999999999999999999999 999 87765  78999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++.....
T Consensus       270 ~~a~~~~~  277 (346)
T TIGR01659       270 RLAEEHGK  277 (346)
T ss_pred             EECCcccc
Confidence            99886543

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).

>KOG0121|consensus

Probab=99.69  E-value=5.7e-17  Score=103.31  Aligned_cols=94  Identities=22%  Similarity=0.363  Sum_probs=86.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..+.+|||+||+..++|++|.++|+.+ .|..|.|-.|+.+..++|||||+|.+.++|+.|+. +++ ..|+.+.|++.+
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~Alryisg-trLddr~ir~D~  112 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISG-TRLDDRPIRIDW  112 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhcc-Ccccccceeeec
Confidence            467899999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCCCCCCCCCCCCCC
Q psy13181        101 ADGKRNDNKGGFNNKQN  117 (137)
Q Consensus       101 a~~~~~~~~~~~~~~~~  117 (137)
                      ...-...|+.++|.-+|
T Consensus       113 D~GF~eGRQyGRG~sGG  129 (153)
T KOG0121|consen  113 DAGFVEGRQYGRGKSGG  129 (153)
T ss_pred             cccchhhhhhcCCCCCC
Confidence            98888888877665433

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.69  E-value=3.9e-16  Score=116.96  Aligned_cols=81  Identities=21%  Similarity=0.379  Sum_probs=76.8

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+|||+|||..+++++|.++|++| .|..+.++.++.|+.++|||||+|.+.++|.+|+. ||| ..|+|+.|+|.++.
T Consensus       269 ~~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t~~skG~aFV~F~~~~~A~~Ai~~lnG-~~~~gr~i~V~~~~  347 (352)
T TIGR01661       269 GYCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTTNQCKGYGFVSMTNYDEAAMAILSLNG-YTLGNRVLQVSFKT  347 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCCCCccceEEEEECCHHHHHHHHHHhCC-CEECCeEEEEEEcc
Confidence            4579999999999999999999999 99999999999999999999999999999999999 999 99999999999998


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      .+..
T Consensus       348 ~~~~  351 (352)
T TIGR01661       348 NKAY  351 (352)
T ss_pred             CCCC
Confidence            7653

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

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.66  E-value=6.2e-16  Score=115.81  Aligned_cols=82  Identities=21%  Similarity=0.376  Sum_probs=76.6

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||++++|++|+++|+.| .|..|.+++|+.++++++||||+|.++++|+.||+ |++ ..|.+++|+|
T Consensus       103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG-~~l~gr~i~V  181 (346)
T TIGR01659       103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNG-ITVRNKRLKV  181 (346)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCC-CccCCceeee
Confidence            33456899999999999999999999999 99999999999999999999999999999999999 999 9999999999


Q ss_pred             EecCC
Q psy13181         99 DIADG  103 (137)
Q Consensus        99 ~~a~~  103 (137)
                      .++.+
T Consensus       182 ~~a~p  186 (346)
T TIGR01659       182 SYARP  186 (346)
T ss_pred             ecccc
Confidence            98765

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.65  E-value=1.3e-15  Score=114.10  Aligned_cols=81  Identities=23%  Similarity=0.436  Sum_probs=76.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||..++|++|+++|++| .|..|.+++++.+++++|||||+|.+.++|.+||. |++ ..|.|+.|.|.++
T Consensus         2 ~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~~g~s~g~afV~f~~~~~A~~Ai~~l~g-~~l~g~~i~v~~a   80 (352)
T TIGR01661         2 SKTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKVTGQSLGYGFVNYVRPEDAEKAVNSLNG-LRLQNKTIKVSYA   80 (352)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCCCCccceEEEEEECcHHHHHHHHhhccc-EEECCeeEEEEee
Confidence            35799999999999999999999999 99999999999999999999999999999999999 999 9999999999998


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .+..
T Consensus        81 ~~~~   84 (352)
T TIGR01661        81 RPSS   84 (352)
T ss_pred             cccc
Confidence            7655

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

>PF00076 RRM_1: RNA recognition motif

Probab=99.63  E-value=4.5e-15  Score=86.35  Aligned_cols=68  Identities=31%  Similarity=0.687  Sum_probs=64.0

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      |||+|||..+++++|+++|++| .+..+.+..+ .++..+++|||+|.+.+++++|+. +++ ..++++.|+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g-~~~~~~~ir   70 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNG-KKINGRKIR   70 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTT-EEETTEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCC-CEECccCcC
Confidence            7999999999999999999999 9999999887 568899999999999999999999 999 999999875

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

>KOG0122|consensus

Probab=99.62  E-value=2.4e-15  Score=105.19  Aligned_cols=80  Identities=29%  Similarity=0.438  Sum_probs=76.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|.|.||+.+++|++|+++|.+| .|..|.+.+|+.||.++|||||.|.++++|.+||. |+| .-++.--|+|+|+
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~TG~~kGFAFVtF~sRddA~rAI~~LnG-~gyd~LILrvEws  266 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKETGLSKGFAFVTFESRDDAARAIADLNG-YGYDNLILRVEWS  266 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEEccccCcccceEEEEEecHHHHHHHHHHccC-cccceEEEEEEec
Confidence            45789999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      +|+
T Consensus       267 kP~  269 (270)
T KOG0122|consen  267 KPS  269 (270)
T ss_pred             CCC
Confidence            886

>PF14259 RRM_6: RNA recognition motif (a

Probab=99.57  E-value=5.5e-14  Score=82.13  Aligned_cols=68  Identities=35%  Similarity=0.692  Sum_probs=62.2

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      |+|+|||+.+++++|.++|+.+ .+..+.+..++. +..+++|||+|.+.++|..|+. +++ ..|+|+.|+
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~-~~~~g~~l~   70 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNG-KEIDGRKLR   70 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTT-EEETTEEEE
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCC-cEECCEEcC
Confidence            7999999999999999999999 999999999877 8999999999999999999999 888 999999874

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 ....

>KOG0149|consensus

Probab=99.57  E-value=5.1e-15  Score=103.09  Aligned_cols=79  Identities=27%  Similarity=0.436  Sum_probs=73.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +.-++|||++|++++..++|+++|++| +|++..++.|+.|++++||+||+|.+.++|.+|++-.. ..|+|++..|.+|
T Consensus        10 T~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp~-piIdGR~aNcnlA   88 (247)
T KOG0149|consen   10 TTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDPN-PIIDGRKANCNLA   88 (247)
T ss_pred             ceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCCC-Ccccccccccchh
Confidence            455799999999999999999999999 99999999999999999999999999999999999444 8999999999887


Q ss_pred             C
Q psy13181        102 D  102 (137)
Q Consensus       102 ~  102 (137)
                      .
T Consensus        89 ~   89 (247)
T KOG0149|consen   89 S   89 (247)
T ss_pred             h
Confidence            5

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

Probab=99.54  E-value=7.7e-14  Score=110.38  Aligned_cols=83  Identities=13%  Similarity=0.310  Sum_probs=77.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||.++++++|+++|+.| .|..+.+.+++.+++++|||||+|.+.+++..|+. ||+ ..|+|+.|+|.++
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg-~elgGr~LrV~kA  281 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNL-FDLGGQYLRVGKC  281 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCC-CeeCCeEEEEEec
Confidence            34789999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCCCC
Q psy13181        102 DGKRND  107 (137)
Q Consensus       102 ~~~~~~  107 (137)
                      .+.+..
T Consensus       282 i~pP~~  287 (612)
T TIGR01645       282 VTPPDA  287 (612)
T ss_pred             CCCccc
Confidence            865543

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.

>KOG0105|consensus

Probab=99.54  E-value=7.2e-14  Score=94.48  Aligned_cols=77  Identities=27%  Similarity=0.544  Sum_probs=67.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||.++.|.+|.++|-+| .|.+|.+-..   .....||||+|++..+|+.||. -++ ..+++..|+|+++
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r---~g~ppfafVeFEd~RDAeDAiygRdG-Ydydg~rLRVEfp   80 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKNR---PGPPPFAFVEFEDPRDAEDAIYGRDG-YDYDGCRLRVEFP   80 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEeccC---CCCCCeeEEEecCccchhhhhhcccc-cccCcceEEEEec
Confidence            45789999999999999999999999 9999877433   2345699999999999999999 999 9999999999997


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ..-
T Consensus        81 rgg   83 (241)
T KOG0105|consen   81 RGG   83 (241)
T ss_pred             cCC
Confidence            643

>KOG0107|consensus

Probab=99.53  E-value=1.1e-13  Score=92.73  Aligned_cols=78  Identities=29%  Similarity=0.519  Sum_probs=70.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+||+..+++.+|...|..| .+..|.|-..     ..|||||+|++..+|+.|+. |+| ..|.|..|+|+++
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArn-----PPGfAFVEFed~RDA~DAvr~LDG-~~~cG~r~rVE~S   82 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARN-----PPGFAFVEFEDPRDAEDAVRYLDG-KDICGSRIRVELS   82 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeec-----CCCceEEeccCcccHHHHHhhcCC-ccccCceEEEEee
Confidence            35799999999999999999999999 8888877654     46899999999999999999 999 9999999999999


Q ss_pred             CCCCCC
Q psy13181        102 DGKRND  107 (137)
Q Consensus       102 ~~~~~~  107 (137)
                      ..+...
T Consensus        83 ~G~~r~   88 (195)
T KOG0107|consen   83 TGRPRG   88 (195)
T ss_pred             cCCccc
Confidence            877653

>KOG0113|consensus

Probab=99.52  E-value=9.7e-14  Score=99.66  Aligned_cols=81  Identities=30%  Similarity=0.593  Sum_probs=76.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ++=+||||+-|+.+++|..|+..|+.| .|..|.|+.++.|++++|||||+|..+.+..+|.+ .+| ++|+++.|.|.+
T Consensus        99 DPy~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG-~~Idgrri~VDv  177 (335)
T KOG0113|consen   99 DPYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADG-IKIDGRRILVDV  177 (335)
T ss_pred             CccceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccC-ceecCcEEEEEe
Confidence            445899999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      -..+
T Consensus       178 ERgR  181 (335)
T KOG0113|consen  178 ERGR  181 (335)
T ss_pred             cccc
Confidence            7654

>KOG4207|consensus

Probab=99.51  E-value=1.3e-13  Score=94.64  Aligned_cols=80  Identities=29%  Similarity=0.439  Sum_probs=76.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..-.+|.|.||...|+.++|+..|++| .|.+|.|.+|+.|..++|||||.|....+|+.|++ |+| .+|+|+.|.|..
T Consensus        11 ~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG-~~ldgRelrVq~   89 (256)
T KOG4207|consen   11 EGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDG-AVLDGRELRVQM   89 (256)
T ss_pred             ccceeEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcc-eeeccceeeehh
Confidence            445789999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCC
Q psy13181        101 ADG  103 (137)
Q Consensus       101 a~~  103 (137)
                      |.-
T Consensus        90 ary   92 (256)
T KOG4207|consen   90 ARY   92 (256)
T ss_pred             hhc
Confidence            873

>PLN03120 nucleic acid binding protein; Provisional

Probab=99.51  E-value=1.2e-13  Score=98.55  Aligned_cols=76  Identities=26%  Similarity=0.336  Sum_probs=70.2

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||+.++|++|+++|+.| .|.+|.++.++.   .+++|||+|.+.++++.||.|++ ..|.|+.|.|..+..
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d~~---~~GfAFVtF~d~eaAe~AllLnG-~~l~gr~V~Vt~a~~   79 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSENE---RSQIAYVTFKDPQGAETALLLSG-ATIVDQSVTITPAED   79 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCC---CCCEEEEEeCcHHHHHHHHHhcC-CeeCCceEEEEeccC
Confidence            4799999999999999999999999 999999998864   36899999999999999999999 999999999999874


Q ss_pred             C
Q psy13181        104 K  104 (137)
Q Consensus       104 ~  104 (137)
                      -
T Consensus        80 ~   80 (260)
T PLN03120         80 Y   80 (260)
T ss_pred             C
Confidence            4

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

Probab=99.50  E-value=6.4e-13  Score=104.89  Aligned_cols=73  Identities=23%  Similarity=0.380  Sum_probs=65.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ..++|||+||+.++++++|+++|++|   .|..|.++        ++||||+|.+.++|++|++ |++ ..|+++.|+|.
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~--------rgfAFVeF~s~e~A~kAi~~lnG-~~i~Gr~I~V~  302 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKI--------RDYAFVHFEDREDAVKAMDELNG-KELEGSEIEVT  302 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEee--------cCeEEEEeCCHHHHHHHHHHhCC-CEECCEEEEEE
Confidence            45789999999999999999999998   67777665        3499999999999999999 999 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      +++++.
T Consensus       303 ~Akp~~  308 (578)
T TIGR01648       303 LAKPVD  308 (578)
T ss_pred             EccCCC
Confidence            998753

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.

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

Probab=99.50  E-value=2.4e-13  Score=105.25  Aligned_cols=81  Identities=31%  Similarity=0.447  Sum_probs=75.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ...++|||+|||..+++++|+++|+++ .|..|.++.++.+++++|+|||+|.+.++|.+||.|++ ..|.|+.|.|..+
T Consensus        87 ~~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~l~g-~~~~g~~i~v~~~  165 (457)
T TIGR01622        87 RDDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALALTG-QMLLGRPIIVQSS  165 (457)
T ss_pred             cCCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHHhCC-CEECCeeeEEeec
Confidence            346799999999999999999999999 99999999999999999999999999999999999999 9999999999987


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ...
T Consensus       166 ~~~  168 (457)
T TIGR01622       166 QAE  168 (457)
T ss_pred             chh
Confidence            644

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.

>KOG0130|consensus

Probab=99.49  E-value=7.7e-14  Score=89.88  Aligned_cols=82  Identities=22%  Similarity=0.342  Sum_probs=77.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..+.|||.++.++++|++|.+.|..| .|..|.+.+|+.||..+||++|+|.+..+|++|+. +|+ ..|.+..|.|.|+
T Consensus        71 EGwIi~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRRtGy~KGYaLvEYet~keAq~A~~~~Ng-~~ll~q~v~VDw~  149 (170)
T KOG0130|consen   71 EGWIIFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRRTGYVKGYALVEYETLKEAQAAIDALNG-AELLGQNVSVDWC  149 (170)
T ss_pred             eeEEEEEeccCcchhHHHHHHHHhhcccccceeeccccccccccceeeeehHhHHHHHHHHHhccc-hhhhCCceeEEEE
Confidence            45899999999999999999999999 99999999999999999999999999999999999 999 9999999999998


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      ..+..
T Consensus       150 Fv~gp  154 (170)
T KOG0130|consen  150 FVKGP  154 (170)
T ss_pred             EecCC
Confidence            75544

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

Probab=99.49  E-value=2.2e-13  Score=108.03  Aligned_cols=77  Identities=25%  Similarity=0.418  Sum_probs=73.3

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~  104 (137)
                      +|||+|||.+++|++|+++|++| .|..|.+++|..|++++|||||+|.+.++|++|++ +++ ..|.|+.|+|.++...
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~-~~i~gk~i~i~~s~~~   80 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNF-KRLGGKPIRIMWSQRD   80 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCC-CEECCeeEEeeccccc
Confidence            79999999999999999999999 99999999999999999999999999999999999 999 9999999999997643

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

>KOG0125|consensus

Probab=99.48  E-value=2.3e-13  Score=98.92  Aligned_cols=89  Identities=19%  Similarity=0.359  Sum_probs=78.2

Q ss_pred             CCCCCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         14 GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        14 ~~~~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      .++..+..+..+++|+|+|||+...|-||+.+|.+| .|.+|.++.+-  .-++||+||+|++.+++++|-. ||| ..+
T Consensus        85 ~~st~s~s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHg-t~V  161 (376)
T KOG0125|consen   85 QPSTNSSSKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHG-TVV  161 (376)
T ss_pred             CCCCcCCCCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhc-cee
Confidence            344555556677899999999999999999999999 99999888763  2368999999999999999999 999 999


Q ss_pred             cCeEEEEEecCCCC
Q psy13181         92 DGLQVRLDIADGKR  105 (137)
Q Consensus        92 ~g~~l~v~~a~~~~  105 (137)
                      .|++|+|..+..+-
T Consensus       162 EGRkIEVn~ATarV  175 (376)
T KOG0125|consen  162 EGRKIEVNNATARV  175 (376)
T ss_pred             eceEEEEeccchhh
Confidence            99999999998763

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

Probab=99.48  E-value=1.9e-13  Score=108.14  Aligned_cols=78  Identities=22%  Similarity=0.379  Sum_probs=73.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|.+| .|..|.+++|+.|++++|||||+|.+.++++.|+. |++ ..|.|+.|+|...
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~TgkskGfAFVeF~s~e~A~~Ai~~lnG-~~i~GR~IkV~rp  184 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNG-QMLGGRNIKVGRP  184 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCCCcCCeEEEEeCcHHHHHHHHHhcCC-eEEecceeeeccc
Confidence            34789999999999999999999999 99999999999999999999999999999999999 999 9999999999864


Q ss_pred             C
Q psy13181        102 D  102 (137)
Q Consensus       102 ~  102 (137)
                      .
T Consensus       185 ~  185 (612)
T TIGR01645       185 S  185 (612)
T ss_pred             c
Confidence            3

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.

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

Probab=99.47  E-value=4e-13  Score=104.04  Aligned_cols=77  Identities=31%  Similarity=0.546  Sum_probs=74.1

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+|||+|||..+++++|+++|++| .|..|.++.++.++++++||||+|.+.++|..|+. |++ ..|.|+.|.|.++.
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g-~~i~g~~i~v~~a~  264 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNG-FELAGRPIKVGYAQ  264 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCC-cEECCEEEEEEEcc
Confidence            5899999999999999999999999 99999999999888999999999999999999999 999 99999999999976

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.

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

Probab=99.47  E-value=4.8e-13  Score=104.78  Aligned_cols=80  Identities=20%  Similarity=0.311  Sum_probs=75.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||..+++++|+++|+.| .|..+.++.+..++.++|||||+|.+.+.|..|+. |++ ..|.++.|.|.++
T Consensus       294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g-~~~~~~~l~v~~a  372 (509)
T TIGR01642       294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNG-KDTGDNKLHVQRA  372 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCC-CEECCeEEEEEEC
Confidence            45799999999999999999999999 99999999998899999999999999999999999 999 9999999999998


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ...
T Consensus       373 ~~~  375 (509)
T TIGR01642       373 CVG  375 (509)
T ss_pred             ccC
Confidence            643

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

>KOG0126|consensus

Probab=99.47  E-value=2.7e-14  Score=96.20  Aligned_cols=81  Identities=27%  Similarity=0.521  Sum_probs=75.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..+.-|||+|||.+.||.||...|++| .++.|.+++|+.||+++||||+-|++..+.--|+. |+| ..|.|+.|+|..
T Consensus        33 kdsA~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiRDk~TGKSKGFaFLcYEDQRSTILAVDN~NG-iki~gRtirVDH  111 (219)
T KOG0126|consen   33 KDSAYIYIGGLPYELTEGDILCVFSQYGEIVDINLIRDKKTGKSKGFAFLCYEDQRSTILAVDNLNG-IKILGRTIRVDH  111 (219)
T ss_pred             ccceEEEECCCcccccCCcEEEEeeccCceEEEEEEecCCCCcccceEEEEecCccceEEEEeccCC-ceecceeEEeee
Confidence            355789999999999999999999999 99999999999999999999999999999888999 999 999999999998


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ....
T Consensus       112 v~~Y  115 (219)
T KOG0126|consen  112 VSNY  115 (219)
T ss_pred             cccc
Confidence            6543

>KOG0144|consensus

Probab=99.46  E-value=1.4e-13  Score=103.06  Aligned_cols=86  Identities=27%  Similarity=0.528  Sum_probs=78.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~   97 (137)
                      +....++||+.+|..|+|.||+.+|++| .+.+|.+++|+.|+.++|||||.|.+.+++.+|+. ||..+.|-|  ++|.
T Consensus        31 d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t~~s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvq  110 (510)
T KOG0144|consen   31 DGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKSTGQSKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQ  110 (510)
T ss_pred             CchhhhheeccCCccccHHHHHHHHHHhCceeEEEeecccccCcccceEEEEeccHHHHHHHHHHhhcccccCCCCccee
Confidence            3456789999999999999999999999 99999999999999999999999999999999999 888677766  8899


Q ss_pred             EEecCCCCCC
Q psy13181         98 LDIADGKRND  107 (137)
Q Consensus        98 v~~a~~~~~~  107 (137)
                      |++|..+..+
T Consensus       111 vk~Ad~E~er  120 (510)
T KOG0144|consen  111 VKYADGERER  120 (510)
T ss_pred             ecccchhhhc
Confidence            9999876543

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

Probab=99.45  E-value=5.6e-13  Score=105.20  Aligned_cols=79  Identities=19%  Similarity=0.410  Sum_probs=70.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~l~v   98 (137)
                      ....++|||+|||.+++|++|+++|+++ .|.+|.+++| .++++++||||+|.+.++|+.||+ |++ ..|. ++.|.|
T Consensus        55 p~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D-~sG~sRGfaFV~F~~~e~A~~Ai~~lng-~~i~~Gr~l~V  132 (578)
T TIGR01648        55 PGRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMD-FSGQNRGYAFVTFCGKEEAKEAVKLLNN-YEIRPGRLLGV  132 (578)
T ss_pred             CCCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEEC-CCCCccceEEEEeCCHHHHHHHHHHcCC-CeecCCccccc
Confidence            4456899999999999999999999999 9999999999 689999999999999999999999 999 7764 677666


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      ..+.
T Consensus       133 ~~S~  136 (578)
T TIGR01648       133 CISV  136 (578)
T ss_pred             cccc
Confidence            6553

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.

>KOG0111|consensus

Probab=99.44  E-value=1.2e-13  Score=95.78  Aligned_cols=82  Identities=22%  Similarity=0.409  Sum_probs=78.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||++|..+++|..|...|-+| +|..|.++.|..++++++|+||+|...++|.+|+. |+. ..|-|+.|+|.+
T Consensus         8 ~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPlDyesqkHRgFgFVefe~aEDAaaAiDNMne-sEL~GrtirVN~   86 (298)
T KOG0111|consen    8 NQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPLDYESQKHRGFGFVEFEEAEDAAAAIDNMNE-SELFGRTIRVNL   86 (298)
T ss_pred             ccceeEEeccchHHHHHHHHHhccccccchhhcccccchhcccccceeEEEeeccchhHHHhhcCch-hhhcceeEEEee
Confidence            456899999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      |+|.+
T Consensus        87 AkP~k   91 (298)
T KOG0111|consen   87 AKPEK   91 (298)
T ss_pred             cCCcc
Confidence            99864

>PLN03121 nucleic acid binding protein; Provisional

Probab=99.43  E-value=1.3e-12  Score=92.22  Aligned_cols=75  Identities=31%  Similarity=0.354  Sum_probs=68.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+||++.++|++|+++|+.| .|.+|.++++..+   .++|||+|.+++.++.|+.|+| ..|.+++|.|....
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D~et---~gfAfVtF~d~~aaetAllLnG-a~l~d~~I~It~~~   79 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRSGEY---ACTAYVTFKDAYALETAVLLSG-ATIVDQRVCITRWG   79 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecCCCc---ceEEEEEECCHHHHHHHHhcCC-CeeCCceEEEEeCc
Confidence            45899999999999999999999999 9999999988543   5799999999999999999999 99999999999865

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

Probab=99.42  E-value=9.9e-13  Score=104.33  Aligned_cols=81  Identities=23%  Similarity=0.407  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+||+..+++++|+++|++| .|.+|.++.+ .++.++|++||.|.+.++|.+|+. ||+ ..|+|++|.|.+
T Consensus       283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d-~~g~~~g~gfV~f~~~~~A~~A~~~~~g-~~~~gk~l~V~~  360 (562)
T TIGR01628       283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLD-EKGVSRGFGFVCFSNPEEANRAVTEMHG-RMLGGKPLYVAL  360 (562)
T ss_pred             cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEEC-CCCCcCCeEEEEeCCHHHHHHHHHHhcC-CeeCCceeEEEe
Confidence            345789999999999999999999999 9999999998 578999999999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +..+.
T Consensus       361 a~~k~  365 (562)
T TIGR01628       361 AQRKE  365 (562)
T ss_pred             ccCcH
Confidence            98754

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

>KOG0145|consensus

Probab=99.42  E-value=9.8e-13  Score=93.27  Aligned_cols=83  Identities=23%  Similarity=0.438  Sum_probs=78.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...+.|.|.-||..+++++++.+|... +|+.|++++|+.+|.+.||+||.|..+++|++|+. |+| +.|..+.|+|.+
T Consensus        39 ~skTNLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKitGqSLGYGFVNYv~p~DAe~AintlNG-LrLQ~KTIKVSy  117 (360)
T KOG0145|consen   39 ESKTNLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYVRPKDAEKAINTLNG-LRLQNKTIKVSY  117 (360)
T ss_pred             cccceeeeeecccccCHHHHHHHhhcccceeeeeeeeccccccccccceeeecChHHHHHHHhhhcc-eeeccceEEEEe
Confidence            445789999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      |.|.+.
T Consensus       118 ARPSs~  123 (360)
T KOG0145|consen  118 ARPSSD  123 (360)
T ss_pred             ccCChh
Confidence            998764

>smart00362 RRM_2 RNA recognition motif

Probab=99.41  E-value=2.3e-12  Score=74.32  Aligned_cols=70  Identities=36%  Similarity=0.659  Sum_probs=63.8

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      +|+|.|||..+++++|+++|.++ .+..+.+..++  +...+++||+|.+.+.++.|+. +++ ..+.++.|.|+
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~--~~~~~~~~v~f~~~~~a~~a~~~~~~-~~~~~~~i~v~   72 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDT--GKSKGFAFVEFESEEDAEKAIEALNG-TKLGGRPLRVE   72 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCC--CCCCceEEEEeCCHHHHHHHHHHhCC-cEECCEEEeeC
Confidence            58999999999999999999999 89999888776  5678899999999999999999 999 99999988763

>PLN03213 repressor of silencing 3; Provisional

Probab=99.39  E-value=1.4e-12  Score=99.48  Aligned_cols=77  Identities=21%  Similarity=0.399  Sum_probs=70.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCH--HHHHHHHH-hCCCeeecCeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDV--ENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~--~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ....+|||+||++.+++++|...|..| .|..|.++  +.+|  +|||||+|...  .++.+||. |++ ..|.|+.|+|
T Consensus         8 ~~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIp--RETG--RGFAFVEMssdddaEeeKAISaLNG-AEWKGR~LKV   82 (759)
T PLN03213          8 GGGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV--RTKG--RSFAYIDFSPSSTNSLTKLFSTYNG-CVWKGGRLRL   82 (759)
T ss_pred             CcceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe--cccC--CceEEEEecCCcHHHHHHHHHHhcC-CeecCceeEE
Confidence            345789999999999999999999999 99999999  4466  89999999976  78999999 999 9999999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      ..|++.
T Consensus        83 NKAKP~   88 (759)
T PLN03213         83 EKAKEH   88 (759)
T ss_pred             eeccHH
Confidence            999874

>smart00360 RRM RNA recognition motif

Probab=99.38  E-value=2.9e-12  Score=73.56  Aligned_cols=69  Identities=41%  Similarity=0.711  Sum_probs=63.6

Q ss_pred             EcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         30 VGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        30 v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      |+|||..+++++|+.+|+++ .+..+.+..++.++.++++|||+|.+.+++..|+. +++ ..+.++.|.|.
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~-~~~~~~~~~v~   71 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNG-KELDGRPLKVK   71 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCC-CeeCCcEEEeC
Confidence            57899999999999999999 89999998887778889999999999999999999 998 99999988873

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

Probab=99.37  E-value=3.7e-12  Score=90.80  Aligned_cols=77  Identities=36%  Similarity=0.631  Sum_probs=73.9

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+|||+|||..+++++|.++|.+| .+..+.+..++.++..+++|||+|.+.+++..|+. +++ ..|.+++|.|.++.
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~-~~~~~~~~~v~~~~  193 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNG-KELEGRPLRVQKAQ  193 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCC-CeECCceeEeeccc
Confidence            5899999999999999999999999 89999999998899999999999999999999999 999 99999999999965

>KOG0144|consensus

Probab=99.36  E-value=6.7e-13  Score=99.48  Aligned_cols=81  Identities=22%  Similarity=0.402  Sum_probs=75.1

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEEEe
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRLDI  100 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v~~  100 (137)
                      .++|||+.|+..++|.+++++|++| .|++|.+++|.. +.++||+||.|.+.+.|.+|++ ||+..++.|  .+|.|++
T Consensus       124 e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~-~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkF  202 (510)
T KOG0144|consen  124 ERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPD-GLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKF  202 (510)
T ss_pred             chhhhhhhccccccHHHHHHHHHhhCccchhhheeccc-ccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEe
Confidence            6899999999999999999999999 999999999976 7899999999999999999999 999677876  7899999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      |.+++.
T Consensus       203 ADtqkd  208 (510)
T KOG0144|consen  203 ADTQKD  208 (510)
T ss_pred             cccCCC
Confidence            998764

>KOG0131|consensus

Probab=99.36  E-value=8.8e-13  Score=88.85  Aligned_cols=80  Identities=23%  Similarity=0.412  Sum_probs=76.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+||+..++++.|.++|-+. .+..+.+.+|+.+.+.+||||++|.++++++-|+. |+. ++|.|++|+|..
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPkDrv~~~~qGygF~Ef~~eedadYAikiln~-VkLYgrpIrv~k   85 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPKDRVTQKHQGYGFAEFRTEEDADYAIKILNM-VKLYGRPIRVNK   85 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecchhhhcccccceeEEEEechhhhHHHHHHHHH-HHhcCceeEEEe
Confidence            456899999999999999999999999 99999999999999999999999999999999999 998 999999999999


Q ss_pred             cCC
Q psy13181        101 ADG  103 (137)
Q Consensus       101 a~~  103 (137)
                      +..
T Consensus        86 as~   88 (203)
T KOG0131|consen   86 ASA   88 (203)
T ss_pred             ccc
Confidence            873

>KOG0148|consensus

Probab=99.36  E-value=4.3e-12  Score=90.30  Aligned_cols=83  Identities=22%  Similarity=0.425  Sum_probs=78.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...-+||+.|..+++.++|++.|.+| .|.++++++|..|++++||+||.|.+.++|+.||. |+| .-|+.+.|+-.+|
T Consensus        61 ~hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnG-qWlG~R~IRTNWA  139 (321)
T KOG0148|consen   61 QHFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNG-QWLGRRTIRTNWA  139 (321)
T ss_pred             cceeEEehhcchhcchHHHHHHhccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCC-eeeccceeecccc
Confidence            35779999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCCCC
Q psy13181        102 DGKRND  107 (137)
Q Consensus       102 ~~~~~~  107 (137)
                      ..++..
T Consensus       140 TRKp~e  145 (321)
T KOG0148|consen  140 TRKPSE  145 (321)
T ss_pred             ccCccc
Confidence            877633

>KOG0117|consensus

Probab=99.34  E-value=9.6e-12  Score=93.67  Aligned_cols=83  Identities=19%  Similarity=0.408  Sum_probs=74.7

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee-cCeEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV-DGLQV   96 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l-~g~~l   96 (137)
                      .+....+.|||+.||.++.|++|.-+|++. .|-++.++.|+.+|.++|||||.|.+.+.|+.|++ ||. ..| .|+.|
T Consensus        78 ~~p~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn-~Eir~GK~i  156 (506)
T KOG0117|consen   78 PPPPRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNN-YEIRPGKLL  156 (506)
T ss_pred             CCCCCCceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhC-ccccCCCEe
Confidence            334677899999999999999999999999 99999999999999999999999999999999999 999 766 56888


Q ss_pred             EEEecCC
Q psy13181         97 RLDIADG  103 (137)
Q Consensus        97 ~v~~a~~  103 (137)
                      .|..+..
T Consensus       157 gvc~Sva  163 (506)
T KOG0117|consen  157 GVCVSVA  163 (506)
T ss_pred             EEEEeee
Confidence            8877653

>KOG0108|consensus

Probab=99.33  E-value=3.4e-12  Score=97.65  Aligned_cols=80  Identities=33%  Similarity=0.574  Sum_probs=76.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ..|||+|+|.+++|++|..+|+.. .|..+.++.|+.||+.+||+|++|.+.+.+..|++ |++ ..+.+++|+|.++..
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg-~~~~gr~l~v~~~~~   97 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNG-AEFNGRKLRVNYASN   97 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCC-cccCCceEEeecccc
Confidence            899999999999999999999999 99999999999999999999999999999999999 999 999999999999876


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      +..
T Consensus        98 ~~~  100 (435)
T KOG0108|consen   98 RKN  100 (435)
T ss_pred             cch
Confidence            543

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

Probab=99.33  E-value=1.8e-11  Score=70.82  Aligned_cols=72  Identities=43%  Similarity=0.741  Sum_probs=65.3

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +|+|++||..+++++|.++|+.+ .+..+.+..++.+ ...+++||+|.+.+++..|+. +++ ..+.++.+.|.+
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~~-~~~~~~~v~f~s~~~a~~a~~~~~~-~~~~~~~~~v~~   74 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKDT-KSKGFAFVEFEDEEDAEKALEALNG-KELGGRPLRVEF   74 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCCC-CcceEEEEEECCHHHHHHHHHHhCC-CeECCeEEEEeC
Confidence            48999999999999999999999 9999999887654 668899999999999999999 999 889999998864

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).

>KOG0114|consensus

Probab=99.33  E-value=1.6e-11  Score=75.88  Aligned_cols=84  Identities=23%  Similarity=0.326  Sum_probs=73.1

Q ss_pred             CCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         17 QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        17 ~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      ..+.+..-.+.|||.|||..+|.++..++|.+| .|..|.+--.+.   .+|.|||+|++..+|.+|++ |+| ..+.++
T Consensus        10 ~~rlppevnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~---TrGTAFVVYedi~dAk~A~dhlsg-~n~~~r   85 (124)
T KOG0114|consen   10 NIRLPPEVNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKE---TRGTAFVVYEDIFDAKKACDHLSG-YNVDNR   85 (124)
T ss_pred             CCCCChhhheeEEEecCCccccHHHHHHHhhcccceEEEEecCccC---cCceEEEEehHhhhHHHHHHHhcc-cccCCc
Confidence            344555567899999999999999999999999 999998865544   48899999999999999999 999 999999


Q ss_pred             EEEEEecCCC
Q psy13181         95 QVRLDIADGK  104 (137)
Q Consensus        95 ~l~v~~a~~~  104 (137)
                      .+.|-+..+.
T Consensus        86 yl~vlyyq~~   95 (124)
T KOG0114|consen   86 YLVVLYYQPE   95 (124)
T ss_pred             eEEEEecCHH
Confidence            9999887653

>KOG0148|consensus

Probab=99.30  E-value=4.5e-11  Score=85.19  Aligned_cols=75  Identities=24%  Similarity=0.453  Sum_probs=68.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+||+..++|++|++.|++| .|.+|.+..+      +||+||.|++.+.|..||. +|+ ..|.|+.|+|.+
T Consensus       162 p~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk~------qGYaFVrF~tkEaAahAIv~mNn-tei~G~~VkCsW  234 (321)
T KOG0148|consen  162 PDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFKD------QGYAFVRFETKEAAAHAIVQMNN-TEIGGQLVRCSW  234 (321)
T ss_pred             CCCceEEeCCcCccccHHHHHHhcccCCcceEEEEecc------cceEEEEecchhhHHHHHHHhcC-ceeCceEEEEec
Confidence            355899999999999999999999999 9999999876      4599999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      .+..
T Consensus       235 GKe~  238 (321)
T KOG0148|consen  235 GKEG  238 (321)
T ss_pred             cccC
Confidence            7744

>KOG4212|consensus

Probab=99.29  E-value=2.1e-11  Score=91.90  Aligned_cols=82  Identities=24%  Similarity=0.402  Sum_probs=74.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..+.+||.|||.++...+|++++...  .|++|.++.|. ++++++|+.|+|++++.+++|++ |+. ..+.++.|.|+.
T Consensus        43 r~R~vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~-~GK~rGcavVEFk~~E~~qKa~E~lnk-~~~~GR~l~vKE  120 (608)
T KOG4212|consen   43 RDRSVFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDE-SGKARGCAVVEFKDPENVQKALEKLNK-YEVNGRELVVKE  120 (608)
T ss_pred             ccceEEEecCcchhhhHhHHHHHHHhcCceEeeeeeccc-CCCcCCceEEEeeCHHHHHHHHHHhhh-ccccCceEEEec
Confidence            44679999999999999999999776  89999999986 59999999999999999999999 999 999999999998


Q ss_pred             cCCCCCC
Q psy13181        101 ADGKRND  107 (137)
Q Consensus       101 a~~~~~~  107 (137)
                      ....+..
T Consensus       121 d~d~q~~  127 (608)
T KOG4212|consen  121 DHDEQRD  127 (608)
T ss_pred             cCchhhh
Confidence            8765543

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

Probab=99.28  E-value=3e-11  Score=94.39  Aligned_cols=76  Identities=20%  Similarity=0.255  Sum_probs=67.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h--CCCeeecCeEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K--DGRITVDGLQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l--~~~~~l~g~~l~v~   99 (137)
                      ++++|||+|||+.++|++|+++|++| .|..|.++.+      +++|||+|.+.++|++|+. +  ++ ..|.|++|.|.
T Consensus         1 ps~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~~------k~~afVef~~~e~A~~Ai~~~~~~~-~~l~g~~l~v~   73 (481)
T TIGR01649         1 PSPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLPG------KRQALVEFEDEESAKACVNFATSVP-IYIRGQPAFFN   73 (481)
T ss_pred             CccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEECC------CCEEEEEeCchHHHHHHHHHhhcCC-ceEcCeEEEEE
Confidence            35789999999999999999999999 9999988754      3599999999999999998 5  67 89999999999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      ++..++.
T Consensus        74 ~s~~~~~   80 (481)
T TIGR01649        74 YSTSQEI   80 (481)
T ss_pred             ecCCccc
Confidence            9986653

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).

>KOG0117|consensus

Probab=99.27  E-value=1e-11  Score=93.48  Aligned_cols=73  Identities=23%  Similarity=0.428  Sum_probs=67.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...+.|||.||+.++||+.|+++|.+| .++.|..++|        ||||.|.++++|.+|++ +++ ..|+|..|.|.+
T Consensus       257 s~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~rD--------YaFVHf~eR~davkAm~~~ng-keldG~~iEvtL  327 (506)
T KOG0117|consen  257 SKVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPRD--------YAFVHFAEREDAVKAMKETNG-KELDGSPIEVTL  327 (506)
T ss_pred             hheeeeeeeccchhhhHHHHHHHHHhccceEEeecccc--------eeEEeecchHHHHHHHHHhcC-ceecCceEEEEe
Confidence            455789999999999999999999999 9999877755        99999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      |+|.
T Consensus       328 AKP~  331 (506)
T KOG0117|consen  328 AKPV  331 (506)
T ss_pred             cCCh
Confidence            9975

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

Probab=99.27  E-value=3.8e-11  Score=93.86  Aligned_cols=75  Identities=20%  Similarity=0.274  Sum_probs=68.6

Q ss_pred             CCceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...+|||+||++ .+++++|+++|+.| .|..|.++.++     +++|||+|.+.++|..|+. |++ ..|.|+.|+|.+
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~~-----~g~afV~f~~~~~A~~Ai~~lng-~~l~g~~l~v~~  347 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKNK-----KETALIEMADPYQAQLALTHLNG-VKLFGKPLRVCP  347 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCC-CEECCceEEEEE
Confidence            557999999998 69999999999999 99999998763     4799999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ++.+
T Consensus       348 s~~~  351 (481)
T TIGR01649       348 SKQQ  351 (481)
T ss_pred             cccc
Confidence            8654

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

Probab=99.24  E-value=4e-11  Score=92.38  Aligned_cols=79  Identities=27%  Similarity=0.482  Sum_probs=73.1

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      .++|.|.|||+.|...+|+..|+.| .+.+|.+++.+. ++-+|||||.|....+|..||+ +++ .+|+|++|.|.||-
T Consensus       117 k~rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~d-gklcGFaFV~fk~~~dA~~Al~~~N~-~~i~gR~VAVDWAV  194 (678)
T KOG0127|consen  117 KWRLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKD-GKLCGFAFVQFKEKKDAEKALEFFNG-NKIDGRPVAVDWAV  194 (678)
T ss_pred             cceEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCC-CCccceEEEEEeeHHHHHHHHHhccC-ceecCceeEEeeec
Confidence            6899999999999999999999999 999999998776 4556999999999999999999 999 99999999999997


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      ++-
T Consensus       195 ~Kd  197 (678)
T KOG0127|consen  195 DKD  197 (678)
T ss_pred             ccc
Confidence            664

>KOG0127|consensus

Probab=99.20  E-value=9e-11  Score=90.49  Aligned_cols=82  Identities=27%  Similarity=0.437  Sum_probs=74.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h-----CCCeeecCeEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K-----DGRITVDGLQV   96 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l-----~~~~~l~g~~l   96 (137)
                      -..+|||.|||++++|++|...|++| .+.++.++.++.|+.+.|+|||.|.+...+.+||. .     .+.+.|+|+.|
T Consensus       291 ~~~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~~k~T~~skGtAFv~Fkt~~~~~~ci~~Aspa~e~g~~ll~GR~L  370 (678)
T KOG0127|consen  291 EGKTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVKDKDTGHSKGTAFVKFKTQIAAQNCIEAASPASEDGSVLLDGRLL  370 (678)
T ss_pred             ccceEEEecCCccccHHHHHHHHHhhccceeEEEEeccCCCCcccceEEEeccHHHHHHHHHhcCccCCCceEEEeccEE
Confidence            34899999999999999999999999 99999999999999999999999999999999998 4     12267899999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      +|..+-++.
T Consensus       371 kv~~Av~Rk  379 (678)
T KOG0127|consen  371 KVTLAVTRK  379 (678)
T ss_pred             eeeeccchH
Confidence            999998764

>KOG0109|consensus

Probab=99.20  E-value=2.7e-11  Score=87.03  Aligned_cols=72  Identities=24%  Similarity=0.515  Sum_probs=67.4

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      .+|||+|||..+++.+|+.+|++| ++.+|.++++        |+||..++.+.++.++. ||+ .+|+|..|.|+-++.
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvKN--------YgFVHiEdktaaedairNLhg-YtLhg~nInVeaSks   73 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVKN--------YGFVHIEDKTAAEDAIRNLHG-YTLHGVNINVEASKS   73 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeecc--------cceEEeecccccHHHHhhccc-ceecceEEEEEeccc
Confidence            579999999999999999999999 9999999855        89999999999999999 999 999999999999988


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      ++.
T Consensus        74 Ksk   76 (346)
T KOG0109|consen   74 KSK   76 (346)
T ss_pred             cCC
Confidence            753

>KOG0415|consensus

Probab=99.18  E-value=5.2e-11  Score=87.74  Aligned_cols=81  Identities=26%  Similarity=0.464  Sum_probs=76.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .++...|||-.|.+.++.+||.-+|+.| .|..|.+++|+.|+.+..||||+|.+.+++++|.- |+. +.|++++|.|.
T Consensus       236 ~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdN-vLIDDrRIHVD  314 (479)
T KOG0415|consen  236 KPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDN-VLIDDRRIHVD  314 (479)
T ss_pred             CCCcceEEEEecCCcccccchhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcc-eeeccceEEee
Confidence            4566789999999999999999999999 99999999999999999999999999999999998 999 99999999999


Q ss_pred             ecCC
Q psy13181        100 IADG  103 (137)
Q Consensus       100 ~a~~  103 (137)
                      ++.+
T Consensus       315 FSQS  318 (479)
T KOG0415|consen  315 FSQS  318 (479)
T ss_pred             hhhh
Confidence            9875

>KOG0145|consensus

Probab=99.18  E-value=3.2e-10  Score=80.63  Aligned_cols=81  Identities=19%  Similarity=0.338  Sum_probs=76.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||=||.++++|..|-++|.+| .+..+++++|..|.+.+||+||.+.+.++|..|+. |+| ..|.++.|.|.+
T Consensus       276 ~~g~ciFvYNLspd~de~~LWQlFgpFGAv~nVKvirD~ttnkCKGfgFVtMtNYdEAamAi~sLNG-y~lg~rvLQVsF  354 (360)
T KOG0145|consen  276 GGGWCIFVYNLSPDADESILWQLFGPFGAVTNVKVIRDFTTNKCKGFGFVTMTNYDEAAMAIASLNG-YRLGDRVLQVSF  354 (360)
T ss_pred             CCeeEEEEEecCCCchHhHHHHHhCcccceeeEEEEecCCcccccceeEEEecchHHHHHHHHHhcC-ccccceEEEEEE
Confidence            456999999999999999999999999 99999999999999999999999999999999999 999 999999999998


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ...+
T Consensus       355 Ktnk  358 (360)
T KOG0145|consen  355 KTNK  358 (360)
T ss_pred             ecCC
Confidence            7654

>KOG0146|consensus

Probab=99.17  E-value=6.1e-11  Score=84.57  Aligned_cols=82  Identities=22%  Similarity=0.377  Sum_probs=74.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v~   99 (137)
                      .+++|||+.|...-+|+|++.+|..| .|.+|.+++... +.++||+||.|.+..++++||. ||+...+-|  +.|.|+
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~d-g~sKGCAFVKf~s~~eAqaAI~aLHgSqTmpGASSSLVVK   96 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPD-GNSKGCAFVKFSSHAEAQAAINALHGSQTMPGASSSLVVK   96 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCC-CCCCCceEEEeccchHHHHHHHHhcccccCCCCccceEEE
Confidence            56899999999999999999999999 999999998876 7899999999999999999999 999667766  779999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      ++..+++
T Consensus        97 ~ADTdkE  103 (371)
T KOG0146|consen   97 FADTDKE  103 (371)
T ss_pred             eccchHH
Confidence            9987654

>KOG0116|consensus

Probab=99.17  E-value=2.7e-10  Score=86.91  Aligned_cols=80  Identities=18%  Similarity=0.285  Sum_probs=66.4

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~~  104 (137)
                      .+|||.|||+++++.+|.++|.+| .|....+....-.++...|+||+|.+...++.+|.-+- ..|++++|.|+...+.
T Consensus       289 ~~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~Asp-~~ig~~kl~Veek~~~  367 (419)
T KOG0116|consen  289 LGIFVKNLPPDATPAELEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEASP-LEIGGRKLNVEEKRPG  367 (419)
T ss_pred             cceEeecCCCCCCHHHHHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcCc-cccCCeeEEEEecccc
Confidence            459999999999999999999999 88877554432123444799999999999999999667 9999999999998875


Q ss_pred             CC
Q psy13181        105 RN  106 (137)
Q Consensus       105 ~~  106 (137)
                      .+
T Consensus       368 ~~  369 (419)
T KOG0116|consen  368 FR  369 (419)
T ss_pred             cc
Confidence            44

>KOG0146|consensus

Probab=99.14  E-value=6.5e-11  Score=84.42  Aligned_cols=86  Identities=17%  Similarity=0.347  Sum_probs=79.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +..+.|||=.||.+..+.+|..+|-+| -|...++..|+.|-.++.|+||.|++..++++||. ||| +.|+.++|+|.+
T Consensus       283 PeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVFvDRATNQSKCFGFVSfDNp~SaQaAIqAMNG-FQIGMKRLKVQL  361 (371)
T KOG0146|consen  283 PEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVFVDRATNQSKCFGFVSFDNPASAQAAIQAMNG-FQIGMKRLKVQL  361 (371)
T ss_pred             CCcceEEEEeCchhhccHHHHHHhccccceeeeeeeehhccccccceeeEecCCchhHHHHHHHhcc-hhhhhhhhhhhh
Confidence            456899999999999999999999999 89999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCCCCCC
Q psy13181        101 ADGKRNDNK  109 (137)
Q Consensus       101 a~~~~~~~~  109 (137)
                      .+++...|.
T Consensus       362 KRPkdanRP  370 (371)
T KOG0146|consen  362 KRPKDANRP  370 (371)
T ss_pred             cCccccCCC
Confidence            988876654

>KOG0124|consensus

Probab=99.14  E-value=4.7e-11  Score=88.36  Aligned_cols=75  Identities=23%  Similarity=0.414  Sum_probs=71.9

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ++|||+.|.+++.|+.|+..|-+| .|..|.+.+|+.|+++++|+||+|+-.+.++-|++ ||+ .+++|+.|+|...
T Consensus       114 cRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg-~mlGGRNiKVgrP  190 (544)
T KOG0124|consen  114 CRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNG-QMLGGRNIKVGRP  190 (544)
T ss_pred             HheeeeeeEEEechHHHHhhccCCCCcceeecccccccccccceEEEEEeCcHHHHHHHHHhcc-ccccCccccccCC
Confidence            579999999999999999999999 99999999999999999999999999999999999 999 9999999999843

>smart00361 RRM_1 RNA recognition motif

Probab=99.08  E-value=7.1e-10  Score=64.85  Aligned_cols=60  Identities=23%  Similarity=0.383  Sum_probs=52.0

Q ss_pred             HHHHHhcCc----CC-ceeEEE-EeecCCC--CCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         39 QGDVERFFP----EQ-KLVSVR-LVKDKET--DRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        39 e~~l~~~f~----~~-~i~~i~-~~~~~~t--~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      +++|+++|+    +| .+..|. ++.++.+  +.++|++||.|.+.++|.+|+. |++ ..+.|+.|.+.
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~fV~f~~~~dA~~A~~~l~g-~~~~gr~l~~~   70 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNVYITFERSEDAARAIVDLNG-RYFDGRTVKAE   70 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEEEEEECCHHHHHHHHHHhCC-CEECCEEEEeC
Confidence            567888888    88 888885 6666666  8889999999999999999999 999 99999998763

>KOG0147|consensus

Probab=99.07  E-value=2.7e-10  Score=87.74  Aligned_cols=75  Identities=35%  Similarity=0.576  Sum_probs=71.7

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      |||+||.+++++++|+..|++| .|..|.+.+|..||.++||+||+|.+.+.+.+|++ ||+ +.|-|+.|+|..-..
T Consensus       281 l~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lng-felAGr~ikV~~v~~  357 (549)
T KOG0147|consen  281 LYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNG-FELAGRLIKVSVVTE  357 (549)
T ss_pred             hhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhcc-ceecCceEEEEEeee
Confidence            9999999999999999999999 99999999998899999999999999999999999 999 999999999987653

>KOG4205|consensus

Probab=99.06  E-value=7e-10  Score=81.81  Aligned_cols=82  Identities=28%  Similarity=0.426  Sum_probs=76.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ...+|||++||..+++++++++|.+| .|..+.++.|..+.+.++|+||.|.+++.+..++...- +.|.++.+.|..|.
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~d~~~~~~rgFgfv~~~~e~sVdkv~~~~f-~~~~gk~vevkrA~  174 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMYDKTTSRPRGFGFVTFDSEDSVDKVTLQKF-HDFNGKKVEVKRAI  174 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEeecccccccccceeeEeccccccceecccce-eeecCceeeEeecc
Confidence            45699999999999999999999999 89999999999999999999999999999999988888 99999999999999


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      ++..
T Consensus       175 pk~~  178 (311)
T KOG4205|consen  175 PKEV  178 (311)
T ss_pred             chhh
Confidence            8864

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

Probab=99.06  E-value=6.2e-10  Score=87.32  Aligned_cols=79  Identities=20%  Similarity=0.340  Sum_probs=60.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC--cee-----EEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ--KLV-----SVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQ   95 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~-----~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~   95 (137)
                      ...++|||+|||+.+++++|.++|.++  .+.     .+..+.+....+.++||||+|.+.++|..||.|++ ..|.|..
T Consensus       173 ~~~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~~~~kg~afVeF~~~e~A~~Al~l~g-~~~~g~~  251 (509)
T TIGR01642       173 RQARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNINKEKNFAFLEFRTVEEATFAMALDS-IIYSNVF  251 (509)
T ss_pred             ccccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEECCCCCEEEEEeCCHHHHhhhhcCCC-eEeeCce
Confidence            346899999999999999999999864  110     01111111123457899999999999999999999 9999999


Q ss_pred             EEEEecC
Q psy13181         96 VRLDIAD  102 (137)
Q Consensus        96 l~v~~a~  102 (137)
                      |+|....
T Consensus       252 l~v~r~~  258 (509)
T TIGR01642       252 LKIRRPH  258 (509)
T ss_pred             eEecCcc
Confidence            9997544

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

>PF13893 RRM_5: RNA recognition motif

Probab=99.04  E-value=1.6e-09  Score=60.48  Aligned_cols=54  Identities=26%  Similarity=0.593  Sum_probs=47.4

Q ss_pred             HHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         42 VERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        42 l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      |.++|++| .|..+.+..+.     ++++||+|.+.++|..|+. ||+ ..+.|++|+|.+|
T Consensus         1 L~~~f~~fG~V~~i~~~~~~-----~~~a~V~f~~~~~A~~a~~~l~~-~~~~g~~l~V~~a   56 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFKKK-----RGFAFVEFASVEDAQKAIEQLNG-RQFNGRPLKVSYA   56 (56)
T ss_dssp             HHHHHTTTS-EEEEEEETTS-----TTEEEEEESSHHHHHHHHHHHTT-SEETTEEEEEEEE
T ss_pred             ChHHhCCcccEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCC-CEECCcEEEEEEC
Confidence            57889999 99999887553     4699999999999999999 999 9999999999985

(a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....

>KOG4208|consensus

Probab=99.01  E-value=1.3e-09  Score=74.97  Aligned_cols=79  Identities=19%  Similarity=0.345  Sum_probs=71.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..-++|..+|..+.+..+..+|.++  .+..+.+.+++.||.+++||||+|++.+.|+.|.+ ||+ ..|.++.|.|.+-
T Consensus        49 ~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsRnkrTGNSKgYAFVEFEs~eVA~IaAETMNN-YLl~e~lL~c~vm  127 (214)
T KOG4208|consen   49 EGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSRNKRTGNSKGYAFVEFESEEVAKIAAETMNN-YLLMEHLLECHVM  127 (214)
T ss_pred             ccceeecccccchhHHHHhhhhhhcCCeeEEEEeecccccCCcCceEEEEeccHHHHHHHHHHhhh-hhhhhheeeeEEe
Confidence            3568899999999999999999999  56667777999999999999999999999999999 999 9999999999987


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      .+.
T Consensus       128 ppe  130 (214)
T KOG4208|consen  128 PPE  130 (214)
T ss_pred             Cch
Confidence            765

>KOG0124|consensus

Probab=99.01  E-value=1.1e-09  Score=81.23  Aligned_cols=104  Identities=16%  Similarity=0.335  Sum_probs=89.4

Q ss_pred             CCccccCCccCCCCCCCCCCCCCC-----------CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecE
Q psy13181          1 MADYSYGGYPERYGRNQKTLPTEP-----------PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGF   68 (137)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~~~~-----------~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~   68 (137)
                      |+-.-.+|+..+.+++..-...++           =.+|||..+.++.+|+||+..|+.| .|.+|.+-+++.++.++||
T Consensus       175 MNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~~~HkGy  254 (544)
T KOG0124|consen  175 MNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGY  254 (544)
T ss_pred             hccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCCCCccce
Confidence            455556888888887655444332           2689999999999999999999999 9999999999999999999


Q ss_pred             EEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCCC
Q psy13181         69 CYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGKR  105 (137)
Q Consensus        69 ~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~~  105 (137)
                      +|++|.+.++...|+. ||- +.|+|..|+|-.+-..+
T Consensus       255 GfiEy~n~qs~~eAiasMNl-FDLGGQyLRVGk~vTPP  291 (544)
T KOG0124|consen  255 GFIEYNNLQSQSEAIASMNL-FDLGGQYLRVGKCVTPP  291 (544)
T ss_pred             eeEEeccccchHHHhhhcch-hhcccceEecccccCCC
Confidence            9999999999999999 999 99999999998875443

>KOG0153|consensus

Probab=99.00  E-value=2.5e-09  Score=78.58  Aligned_cols=78  Identities=19%  Similarity=0.398  Sum_probs=68.4

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH--hCCCeeecCeEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL--KDGRITVDGLQV   96 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~--l~~~~~l~g~~l   96 (137)
                      +..+...+|||++|...++|.+|++.|-+| .|..|.++...      +||||+|.+.++|+.|.+  ++. +.|+|.+|
T Consensus       223 PeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~------~CAFv~ftTR~aAE~Aae~~~n~-lvI~G~Rl  295 (377)
T KOG0153|consen  223 PEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRK------GCAFVTFTTREAAEKAAEKSFNK-LVINGFRL  295 (377)
T ss_pred             CcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeeccc------ccceeeehhhHHHHHHHHhhcce-eeecceEE
Confidence            334566899999999999999999999999 99999887543      499999999999999998  666 99999999


Q ss_pred             EEEecCCC
Q psy13181         97 RLDIADGK  104 (137)
Q Consensus        97 ~v~~a~~~  104 (137)
                      +|.|..+.
T Consensus       296 ~i~Wg~~~  303 (377)
T KOG0153|consen  296 KIKWGRPK  303 (377)
T ss_pred             EEEeCCCc
Confidence            99999883

>KOG4206|consensus

Probab=98.96  E-value=2.7e-09  Score=74.32  Aligned_cols=77  Identities=25%  Similarity=0.466  Sum_probs=70.0

Q ss_pred             ceEEEcCCCCCCCHHHHHh----cCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         26 YTAFVGNLPNGITQGDVER----FFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~----~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .||||.||+..+..++|+.    +|++| .|.+|....   |.+.+|-|||.|.+.+.|-.|+. |+| ..+.|++++|.
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~k---t~KmRGQA~VvFk~~~~As~A~r~l~g-fpFygK~mriq   85 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFK---TPKMRGQAFVVFKETEAASAALRALQG-FPFYGKPMRIQ   85 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecC---CCCccCceEEEecChhHHHHHHHHhcC-CcccCchhhee
Confidence            4999999999999998888    89999 899987764   56789999999999999999999 999 99999999999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      +|+.++.
T Consensus        86 yA~s~sd   92 (221)
T KOG4206|consen   86 YAKSDSD   92 (221)
T ss_pred             cccCccc
Confidence            9998764

>KOG0109|consensus

Probab=98.95  E-value=1.7e-09  Score=77.93  Aligned_cols=90  Identities=17%  Similarity=0.330  Sum_probs=75.4

Q ss_pred             ccCCccCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHH
Q psy13181          5 SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL   83 (137)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al   83 (137)
                      +..+...+.+.+...  .....+|+|+||.+.|+..+|+..|+++ .+.+|.++++        ++||.|+-.+.+..|+
T Consensus        60 tLhg~nInVeaSksK--sk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkd--------y~fvh~d~~eda~~ai  129 (346)
T KOG0109|consen   60 TLHGVNINVEASKSK--SKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKD--------YAFVHFDRAEDAVEAI  129 (346)
T ss_pred             eecceEEEEEecccc--CCCccccccCCCCccccCHHHhhhhcccCCceeeeeecc--------eeEEEEeeccchHHHH
Confidence            344555555433322  4567899999999999999999999999 8999988865        8999999999999999


Q ss_pred             H-hCCCeeecCeEEEEEecCCCC
Q psy13181         84 L-KDGRITVDGLQVRLDIADGKR  105 (137)
Q Consensus        84 ~-l~~~~~l~g~~l~v~~a~~~~  105 (137)
                      . |++ ..++|+++.|.++.++=
T Consensus       130 r~l~~-~~~~gk~m~vq~stsrl  151 (346)
T KOG0109|consen  130 RGLDN-TEFQGKRMHVQLSTSRL  151 (346)
T ss_pred             hcccc-cccccceeeeeeecccc
Confidence            9 999 99999999999998763

>KOG0131|consensus

Probab=98.95  E-value=8e-10  Score=74.71  Aligned_cols=81  Identities=22%  Similarity=0.320  Sum_probs=72.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE-EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~-i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .-...+||+||.++++|..|.+.|+.| .+.. ..++++..|+..++++|+.|.+.+.+.+|+. +++ ..+.++++.|.
T Consensus        94 ~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ng-q~l~nr~itv~  172 (203)
T KOG0131|consen   94 DVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDTGNPKGFGFINYASFEASDAAIGSMNG-QYLCNRPITVS  172 (203)
T ss_pred             cccccccccccCcchhHHHHHHHHHhccccccCCcccccccCCCCCCCeEEechhHHHHHHHHHHhcc-chhcCCceEEE
Confidence            345799999999999999999999999 5444 3778899999999999999999999999999 999 99999999999


Q ss_pred             ecCCC
Q psy13181        100 IADGK  104 (137)
Q Consensus       100 ~a~~~  104 (137)
                      ++..+
T Consensus       173 ya~k~  177 (203)
T KOG0131|consen  173 YAFKK  177 (203)
T ss_pred             EEEec
Confidence            98744

>KOG4205|consensus

Probab=98.95  E-value=9.9e-10  Score=81.02  Aligned_cols=82  Identities=22%  Similarity=0.376  Sum_probs=74.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ...++||++|+++++++.|+..|.+| .+.+|.+++|+.++.+++|+||+|.+...+.++|.... +.|+++.|.+..+.
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~d~~t~rsrgFgfv~f~~~~~v~~vl~~~~-h~~dgr~ve~k~av   83 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMRDPSTGRSRGFGFVTFATPEGVDAVLNART-HKLDGRSVEPKRAV   83 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEeccCCCCCcccccceecCCCcchheeecccc-cccCCccccceecc
Confidence            56799999999999999999999999 99999999999999999999999999888888887655 88999999999988


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      ++..
T Consensus        84 ~r~~   87 (311)
T KOG4205|consen   84 SRED   87 (311)
T ss_pred             Cccc
Confidence            7753

>KOG0123|consensus

Probab=98.88  E-value=8.7e-09  Score=78.06  Aligned_cols=77  Identities=23%  Similarity=0.490  Sum_probs=70.5

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      +..|||.||+++++..+|.++|+.| .|..|.+..+.. | ++++ ||.|+++++|.+|++ +++ ..+.+++|.|....
T Consensus        76 ~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~-g-~kg~-FV~f~~e~~a~~ai~~~ng-~ll~~kki~vg~~~  151 (369)
T KOG0123|consen   76 PSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN-G-SKGY-FVQFESEESAKKAIEKLNG-MLLNGKKIYVGLFE  151 (369)
T ss_pred             CceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC-C-ceee-EEEeCCHHHHHHHHHHhcC-cccCCCeeEEeecc
Confidence            3449999999999999999999999 999999999875 4 8889 999999999999999 999 99999999999887


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      .++
T Consensus       152 ~~~  154 (369)
T KOG0123|consen  152 RKE  154 (369)
T ss_pred             chh
Confidence            654

>KOG0132|consensus

Probab=98.86  E-value=6.5e-09  Score=83.13  Aligned_cols=74  Identities=24%  Similarity=0.486  Sum_probs=67.9

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ++||||+.|+..++|.||..+|+.| .|..|.++-.      ++||||.+...++|++||. |.. ..+.++.|+|.|+.
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~~------R~cAfI~M~~RqdA~kalqkl~n-~kv~~k~Iki~Wa~  493 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIPP------RGCAFIKMVRRQDAEKALQKLSN-VKVADKTIKIAWAV  493 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeeccC------CceeEEEEeehhHHHHHHHHHhc-ccccceeeEEeeec
Confidence            4899999999999999999999999 9999988754      5699999999999999999 998 99999999999987


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      .+-
T Consensus       494 g~G  496 (894)
T KOG0132|consen  494 GKG  496 (894)
T ss_pred             cCC
Confidence            653

>KOG4211|consensus

Probab=98.86  E-value=1.2e-08  Score=77.97  Aligned_cols=81  Identities=22%  Similarity=0.360  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ....-|.+.+|||++|++||++||+.+.|..+.+.  +.+++..|.|||+|.++++++.||+.+. ..+..+.|.|.-+.
T Consensus         8 ~~~~~vr~rGLPwsat~~ei~~Ff~~~~I~~~~~~--r~~Gr~sGeA~Ve~~seedv~~AlkkdR-~~mg~RYIEVf~~~   84 (510)
T KOG4211|consen    8 STAFEVRLRGLPWSATEKEILDFFSNCGIENLEIP--RRNGRPSGEAYVEFTSEEDVEKALKKDR-ESMGHRYIEVFTAG   84 (510)
T ss_pred             CcceEEEecCCCccccHHHHHHHHhcCceeEEEEe--ccCCCcCcceEEEeechHHHHHHHHhhH-HHhCCceEEEEccC
Confidence            45578899999999999999999999888886554  5578999999999999999999999998 89999999999987


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      +.+.
T Consensus        85 ~~e~   88 (510)
T KOG4211|consen   85 GAEA   88 (510)
T ss_pred             Cccc
Confidence            6654

>KOG0533|consensus

Probab=98.79  E-value=2.6e-08  Score=71.11  Aligned_cols=82  Identities=24%  Similarity=0.417  Sum_probs=72.5

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .+..+.+|+|.|||..+.++||+++|..| .+..+.+-.++ +|.+.|.|.|.|...++|.++++ +++ +.|+|..+++
T Consensus        79 ~~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~g-v~ldG~~mk~  156 (243)
T KOG0533|consen   79 NETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNG-VALDGRPMKI  156 (243)
T ss_pred             cCCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcC-cccCCceeee
Confidence            45566889999999999999999999999 88777777666 48889999999999999999999 999 9999999998


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .+..+.
T Consensus       157 ~~i~~~  162 (243)
T KOG0533|consen  157 EIISSP  162 (243)
T ss_pred             EEecCc
Confidence            887644

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

Probab=98.70  E-value=1.3e-07  Score=58.52  Aligned_cols=76  Identities=20%  Similarity=0.197  Sum_probs=64.9

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec----CeEEE
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD----GLQVR   97 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~----g~~l~   97 (137)
                      +||.|.|||-..+.++|.+++...   ....+.++.|..+..+.|||||.|.+.+.+..... +++ ..+.    .+.+.
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPiDf~~~~N~GYAFVNf~~~~~~~~F~~~f~g-~~w~~~~s~Kvc~   80 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPIDFKNKCNLGYAFVNFTSPQAAIRFYKAFNG-KKWPNFNSKKVCE   80 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeeeeccCCCceEEEEEEcCCHHHHHHHHHHHcC-CccccCCCCcEEE
Confidence            689999999999999998888543   56667888888889999999999999999999999 999 8775    36677


Q ss_pred             EEecC
Q psy13181         98 LDIAD  102 (137)
Q Consensus        98 v~~a~  102 (137)
                      |.+|+
T Consensus        81 i~yAr   85 (97)
T PF04059_consen   81 ISYAR   85 (97)
T ss_pred             EehhH
Confidence            77765

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

>KOG0123|consensus

Probab=98.68  E-value=8e-08  Score=72.87  Aligned_cols=72  Identities=22%  Similarity=0.360  Sum_probs=66.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ..|||+   ++++|..|.++|++. .+..+.+++|. |  +.|||||.|.+..+|++||. ++. ..|.|+++++-|+..
T Consensus         2 ~sl~vg---~~v~e~~l~~~f~~~~~v~s~rvc~d~-t--slgy~yvnf~~~~da~~A~~~~n~-~~~~~~~~rim~s~r   74 (369)
T KOG0123|consen    2 ASLYVG---PDVTEAMLFDKFSPAGPVLSIRVCRDA-T--SLGYAYVNFQQPADAERALDTMNF-DVLKGKPIRIMWSQR   74 (369)
T ss_pred             CceecC---CcCChHHHHHHhcccCCceeEEEeecC-C--ccceEEEecCCHHHHHHHHHHcCC-cccCCcEEEeehhcc
Confidence            358888   999999999999999 99999999998 6  89999999999999999999 999 999999999999864


Q ss_pred             C
Q psy13181        104 K  104 (137)
Q Consensus       104 ~  104 (137)
                      .
T Consensus        75 d   75 (369)
T KOG0123|consen   75 D   75 (369)
T ss_pred             C
Confidence            4

>KOG1457|consensus

Probab=98.67  E-value=6.1e-07  Score=62.87  Aligned_cols=81  Identities=20%  Similarity=0.310  Sum_probs=64.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEee-cCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec---CeEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVK-DKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD---GLQVR   97 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~-~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~---g~~l~   97 (137)
                      ..++|||.+||.++..-+|+.+|..| ..+...+-. ++.....+-++|++|.+.+.|.+|+. ||| +.++   +..|.
T Consensus        33 ~VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNG-vrFDpE~~stLh  111 (284)
T KOG1457|consen   33 AVRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNG-VRFDPETGSTLH  111 (284)
T ss_pred             ccceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcC-eeeccccCceeE
Confidence            46899999999999999999999999 655554422 22222334689999999999999999 999 9887   57788


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      ++++++..
T Consensus       112 iElAKSNt  119 (284)
T KOG1457|consen  112 IELAKSNT  119 (284)
T ss_pred             eeehhcCc
Confidence            88887543

>KOG0226|consensus

Probab=98.65  E-value=1.3e-08  Score=72.11  Aligned_cols=82  Identities=24%  Similarity=0.449  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..+.+||.+.|.-+++.+.|-..|.+| ......+++++.|++++||+||.|.+..++..|+. |++ ..++.+.|+++-
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviRdkRTgKSkgygfVSf~~pad~~rAmrem~g-kyVgsrpiklRk  266 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIRDKRTGKSKGYGFVSFRDPADYVRAMREMNG-KYVGSRPIKLRK  266 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhccchhhccccccccccccccceeeeecCHHHHHHHHHhhcc-cccccchhHhhh
Confidence            356899999999999999999999999 77778889999999999999999999999999999 999 999999999887


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +.++.
T Consensus       267 S~wke  271 (290)
T KOG0226|consen  267 SEWKE  271 (290)
T ss_pred             hhHHh
Confidence            76655

>KOG4211|consensus

Probab=98.65  E-value=1.6e-07  Score=71.98  Aligned_cols=78  Identities=19%  Similarity=0.201  Sum_probs=65.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ce-eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KL-VSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i-~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ....|.+.+||+.|+++||.+||... -+ ..|.++.++. +++.+.|||.|++.+.+++||..|. ..|+.+.|.|..+
T Consensus       102 ~d~vVRLRGLPfscte~dI~~FFaGL~Iv~~gi~l~~d~r-gR~tGEAfVqF~sqe~ae~Al~rhr-e~iGhRYIEvF~S  179 (510)
T KOG4211|consen  102 NDGVVRLRGLPFSCTEEDIVEFFAGLEIVPDGILLPMDQR-GRPTGEAFVQFESQESAEIALGRHR-ENIGHRYIEVFRS  179 (510)
T ss_pred             CCceEEecCCCccCcHHHHHHHhcCCcccccceeeeccCC-CCcccceEEEecCHHHHHHHHHHHH-HhhccceEEeehh
Confidence            55789999999999999999999877 22 2355666654 6789999999999999999999777 8888999999876


Q ss_pred             CC
Q psy13181        102 DG  103 (137)
Q Consensus       102 ~~  103 (137)
                      .-
T Consensus       180 s~  181 (510)
T KOG4211|consen  180 SR  181 (510)
T ss_pred             HH
Confidence            53

>KOG0110|consensus

Probab=98.65  E-value=1.1e-07  Score=75.50  Aligned_cols=77  Identities=34%  Similarity=0.533  Sum_probs=66.4

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCC---CeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETD---RFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~---~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      +|||.||++.++.+++...|... .|..+.+...+...   -+-||+||+|.+.++|++|+. |+| ..|+|+.|.|.++
T Consensus       517 ~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqg-tvldGH~l~lk~S  595 (725)
T KOG0110|consen  517 KLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQG-TVLDGHKLELKIS  595 (725)
T ss_pred             hhhhhcCCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcC-ceecCceEEEEec
Confidence            49999999999999999999999 88888776554321   234999999999999999999 999 9999999999999


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ..+
T Consensus       596 ~~k  598 (725)
T KOG0110|consen  596 ENK  598 (725)
T ss_pred             cCc
Confidence            833

>KOG0110|consensus

Probab=98.64  E-value=3.1e-08  Score=78.61  Aligned_cols=80  Identities=25%  Similarity=0.383  Sum_probs=73.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|+|.|||+..+-.+++.+|..| .+..|.++.....+.++||+||+|-+.+++.+|+. |.. .-|.|++|.+.|+
T Consensus       612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~S-THlyGRrLVLEwA  690 (725)
T KOG0110|consen  612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGS-THLYGRRLVLEWA  690 (725)
T ss_pred             ccceeeeeccchHHHHHHHHHHHhcccceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcc-cceechhhheehh
Confidence            35799999999999999999999999 99999988775567789999999999999999999 997 9999999999999


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ...
T Consensus       691 ~~d  693 (725)
T KOG0110|consen  691 KSD  693 (725)
T ss_pred             ccc
Confidence            865

>KOG4661|consensus

Probab=98.62  E-value=9.8e-08  Score=74.63  Aligned_cols=81  Identities=12%  Similarity=0.254  Sum_probs=73.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..+.|||.+|...+...+|+.+|++| .|+-..|+.+-.+.-.+.|+||++.+..+|.+||. ||. ..|.|+.|.|..+
T Consensus       404 ~gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHr-TELHGrmISVEka  482 (940)
T KOG4661|consen  404 LGRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHR-TELHGRMISVEKA  482 (940)
T ss_pred             cccceeeeccccchhhhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhh-hhhcceeeeeeec
Confidence            45789999999999999999999999 88888888876666778899999999999999999 999 9999999999998


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      +...
T Consensus       483 KNEp  486 (940)
T KOG4661|consen  483 KNEP  486 (940)
T ss_pred             ccCc
Confidence            8653

>KOG4209|consensus

Probab=98.58  E-value=3.4e-07  Score=65.29  Aligned_cols=84  Identities=26%  Similarity=0.345  Sum_probs=76.2

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL   98 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v   98 (137)
                      ........+||+|+...++.+++...|+.| .+..+.+..++.++..++++||+|.+.+.++.++.|++ ..|.+..+.|
T Consensus        96 ~~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~~~k~~~yvef~~~~~~~~ay~l~g-s~i~~~~i~v  174 (231)
T KOG4209|consen   96 QKEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRGHPKGFAYVEFSSYELVEEAYKLDG-SEIPGPAIEV  174 (231)
T ss_pred             hhccCCceEEEeccccccccchhhheeeccCCccceeeeccccCCCcceeEEEecccHhhhHHHhhcCC-ccccccccee
Confidence            334567899999999999999999999999 99888899998888899999999999999999999999 9999999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .+....
T Consensus       175 t~~r~~  180 (231)
T KOG4209|consen  175 TLKRTN  180 (231)
T ss_pred             eeeeee
Confidence            987755

>KOG4212|consensus

Probab=98.51  E-value=2.4e-07  Score=70.41  Aligned_cols=74  Identities=20%  Similarity=0.328  Sum_probs=63.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||.|||.++|...|++-|..| .+....++.   ++++++  .|.|.++++|+.|+. |++ ..|+++.|+|.
T Consensus       533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadime---~GkskG--VVrF~s~edAEra~a~Mng-s~l~Gr~I~V~  606 (608)
T KOG4212|consen  533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIME---NGKSKG--VVRFFSPEDAERACALMNG-SRLDGRNIKVT  606 (608)
T ss_pred             cccccEEEEecCCccccHHHHHHHHHhccceehhhhhc---cCCccc--eEEecCHHHHHHHHHHhcc-CcccCceeeee
Confidence            4456789999999999999999999999 777776643   466665  899999999999999 999 99999999998


Q ss_pred             ec
Q psy13181        100 IA  101 (137)
Q Consensus       100 ~a  101 (137)
                      +.
T Consensus       607 y~  608 (608)
T KOG4212|consen  607 YF  608 (608)
T ss_pred             eC
Confidence            74

>KOG0106|consensus

Probab=98.46  E-value=2.8e-07  Score=64.63  Aligned_cols=74  Identities=32%  Similarity=0.545  Sum_probs=63.9

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ..|||++||..+.+.+|..+|+.| .+..+.+.        .+|+||+|.+..+|..|+- +++ ..|.+..+.|+++..
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk--------~gf~fv~fed~rda~Dav~~l~~-~~l~~e~~vve~~r~   72 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMK--------NGFGFVEFEDPRDADDAVHDLDG-KELCGERLVVEHARG   72 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceee--------cccceeccCchhhhhcccchhcC-ceecceeeeeecccc
Confidence            368999999999999999999999 88887663        3488999999999999999 999 999998888888876


Q ss_pred             CCCCC
Q psy13181        104 KRNDN  108 (137)
Q Consensus       104 ~~~~~  108 (137)
                      ....+
T Consensus        73 ~~~~~   77 (216)
T KOG0106|consen   73 KRRGR   77 (216)
T ss_pred             ccccc
Confidence            54444

>KOG4849|consensus

Probab=98.36  E-value=1e-06  Score=65.36  Aligned_cols=75  Identities=16%  Similarity=0.308  Sum_probs=65.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ....++||+||-|++|++||.+.+...   ++.+++++.++.+|.++|||++...+..++++.++ |.. ..|.|..-.|
T Consensus        78 Grk~~~YvGNL~W~TTD~DL~~A~~S~G~~~~~dmKFFENR~NGQSKG~AL~~~~SdAa~Kq~MeiLP~-k~iHGQ~P~V  156 (498)
T KOG4849|consen   78 GRKYCCYVGNLLWYTTDADLLKALQSTGLAQFADMKFFENRTNGQSKGYALLVLNSDAAVKQTMEILPT-KTIHGQSPTV  156 (498)
T ss_pred             CceEEEEecceeEEeccHHHHHHHHhhhHHHHhhhhhhhcccCCcccceEEEEecchHHHHHHHHhccc-ceecCCCCee
Confidence            345789999999999999999988765   78888999999999999999999999999999999 888 8888855443

>KOG1548|consensus

Probab=98.33  E-value=3.8e-06  Score=62.15  Aligned_cols=77  Identities=21%  Similarity=0.369  Sum_probs=66.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-cee--------EEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLV--------SVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG   93 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~--------~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g   93 (137)
                      ....|||+|||.++|.+++..+|++| .|.        .|.+-++.. |..+|=+++.|-..+++.-|+. |++ ..|.|
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI~~d~~t~epk~KlYrd~~-G~lKGDaLc~y~K~ESVeLA~~ilDe-~~~rg  210 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGIIMRDPQTGEPKVKLYRDNQ-GKLKGDALCCYIKRESVELAIKILDE-DELRG  210 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceEeccCCCCCeeEEEEecCC-CCccCceEEEeecccHHHHHHHHhCc-ccccC
Confidence            34679999999999999999999988 432        356666654 8889999999999999999999 999 99999


Q ss_pred             eEEEEEecC
Q psy13181         94 LQVRLDIAD  102 (137)
Q Consensus        94 ~~l~v~~a~  102 (137)
                      +.|+|..|+
T Consensus       211 ~~~rVerAk  219 (382)
T KOG1548|consen  211 KKLRVERAK  219 (382)
T ss_pred             cEEEEehhh
Confidence            999999886

>KOG4454|consensus

Probab=98.32  E-value=2.1e-07  Score=64.88  Aligned_cols=78  Identities=19%  Similarity=0.292  Sum_probs=66.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||.|+...++|+.|.++|-+- .+.++.+..++. ++.+ ||||.|.++.++.-|+. ++| ..+.+..+.+.+
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~~~d-~~~k-Fa~v~f~~E~sv~~a~~L~ng-~~l~~~e~q~~~   83 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPSGQD-QEQK-FAYVFFPNENSVQLAGQLENG-DDLEEDEEQRTL   83 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCCCcc-CCCc-eeeeecccccchhhhhhhccc-chhccchhhccc
Confidence            456899999999999999999999888 788888877665 4555 99999999999999999 999 988888877776


Q ss_pred             cCC
Q psy13181        101 ADG  103 (137)
Q Consensus       101 a~~  103 (137)
                      ...
T Consensus        84 r~G   86 (267)
T KOG4454|consen   84 RCG   86 (267)
T ss_pred             ccC
Confidence            544

>KOG0151|consensus

Probab=98.30  E-value=3.8e-06  Score=67.19  Aligned_cols=81  Identities=22%  Similarity=0.338  Sum_probs=69.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCC---CCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKE---TDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~---t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .+..+.+||+||++.++|+.|...|..| .+..+.+++.+.   ....+.|+||.|-+..++++|+. |++ ..+....+
T Consensus       171 DP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKimwpRtEeEk~r~r~cgfvafmnR~D~era~k~lqg-~iv~~~e~  249 (877)
T KOG0151|consen  171 DPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIMWPRTEEEKRRERNCGFVAFMNRADAERALKELQG-IIVMEYEM  249 (877)
T ss_pred             CCcccceeeecCCccccHHHHHHHhcccCcccceeeecccchhhhccccccceeeehhhhhHHHHHHHhcc-eeeeeeee
Confidence            4566899999999999999999999999 787777665432   23456799999999999999999 999 99999999


Q ss_pred             EEEecCC
Q psy13181         97 RLDIADG  103 (137)
Q Consensus        97 ~v~~a~~  103 (137)
                      ++-|+++
T Consensus       250 K~gWgk~  256 (877)
T KOG0151|consen  250 KLGWGKA  256 (877)
T ss_pred             eeccccc
Confidence            9999854

>KOG4660|consensus

Probab=98.28  E-value=7.2e-07  Score=69.32  Aligned_cols=70  Identities=24%  Similarity=0.387  Sum_probs=61.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ..+..+|+|-|||..+++++|+.+|+.| +|..|...     ...++.+||+|.+..+|++|++ |++ ..+.++.|+
T Consensus        72 ~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t-----~~~~~~~~v~FyDvR~A~~Alk~l~~-~~~~~~~~k  143 (549)
T KOG4660|consen   72 DMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRET-----PNKRGIVFVEFYDVRDAERALKALNR-REIAGKRIK  143 (549)
T ss_pred             cCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhcc-----cccCceEEEEEeehHhHHHHHHHHHH-HHhhhhhhc
Confidence            4567899999999999999999999999 88886553     3457799999999999999999 999 999998887

>KOG1995|consensus

Probab=98.23  E-value=3.8e-06  Score=62.32  Aligned_cols=83  Identities=23%  Similarity=0.338  Sum_probs=72.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ce--------eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KL--------VSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i--------~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      ....-+|||-+||..+++++|.++|.++ .|        ..|.+-+++.|++.++-|.|.|.+...|++|+. +++ ..+
T Consensus        63 ~s~~~ti~v~g~~d~~~~~~~~~~f~qcg~ikrnK~t~kPki~~y~dkeT~~~KGeatvS~~D~~~akaai~~~ag-kdf  141 (351)
T KOG1995|consen   63 KSDNETIFVWGCPDSVCENDNADFFLQCGVIKRNKRTGKPKIKIYTDKETGAPKGEATVSYEDPPAAKAAIEWFAG-KDF  141 (351)
T ss_pred             ccccccceeeccCccchHHHHHHHHhhcceeccCCCCCCcchhccccccccCcCCceeeeecChhhhhhhhhhhcc-ccc
Confidence            3455789999999999999999999887 33        346677888999999999999999999999999 999 999


Q ss_pred             cCeEEEEEecCCCC
Q psy13181         92 DGLQVRLDIADGKR  105 (137)
Q Consensus        92 ~g~~l~v~~a~~~~  105 (137)
                      .+..|+|..+..+.
T Consensus       142 ~gn~ikvs~a~~r~  155 (351)
T KOG1995|consen  142 CGNTIKVSLAERRT  155 (351)
T ss_pred             cCCCchhhhhhhcc
Confidence            99999999887554

>KOG4210|consensus

Probab=98.04  E-value=1.1e-05  Score=59.28  Aligned_cols=90  Identities=31%  Similarity=0.516  Sum_probs=74.3

Q ss_pred             CceEE-EcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         25 PYTAF-VGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~-v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+++ |.+|+..+++++|+..|..+ .|..+.+..++.++...+++++.|........++..+. ..+.+..+.+....
T Consensus       184 s~~~~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~~~~s~~~kg~a~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  262 (285)
T KOG4210|consen  184 SDTIFFVGELDFSLTRDDLKEHFVSSGEITSVRLPTDEESGDSKGFAYVDFSAGNSKKLALNDQT-RSIGGRPLRLEEDE  262 (285)
T ss_pred             cccceeecccccccchHHHhhhccCcCcceeeccCCCCCccchhhhhhhhhhhchhHHHHhhccc-CcccCcccccccCC
Confidence            34555 99999999999999999888 89999999999999999999999999888888777644 88889999999988


Q ss_pred             CCCCCCCCCCCCC
Q psy13181        103 GKRNDNKGGFNNK  115 (137)
Q Consensus       103 ~~~~~~~~~~~~~  115 (137)
                      +++..-...++++
T Consensus       263 ~~~~~~~~~~~~~  275 (285)
T KOG4210|consen  263 PRPKSDGGLFGNR  275 (285)
T ss_pred             CCccccccccccc
Confidence            7765544443433

>KOG0120|consensus

Probab=98.03  E-value=4.7e-06  Score=64.98  Aligned_cols=81  Identities=30%  Similarity=0.452  Sum_probs=73.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+++|++||...++.++.+++..| .+....++.+..++-+++|||.+|.+......|+. |+| ..++++.|.|..
T Consensus       287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnG-m~lgd~~lvvq~  365 (500)
T KOG0120|consen  287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNG-MQLGDKKLVVQR  365 (500)
T ss_pred             cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccch-hhhcCceeEeeh
Confidence            345789999999999999999999999 88888889998889999999999999999999999 999 999999999998


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      |...
T Consensus       366 A~~g  369 (500)
T KOG0120|consen  366 AIVG  369 (500)
T ss_pred             hhcc
Confidence            8643

>KOG0147|consensus

Probab=97.99  E-value=2.3e-06  Score=66.51  Aligned_cols=83  Identities=29%  Similarity=0.488  Sum_probs=76.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+++|+..|...+++-+|.+||+.+ .|..|.++.|+.++.++|.+||+|.+.+++..||.|.| .-+.|.+|.|....
T Consensus       178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~Dr~s~rskgi~Yvef~D~~sVp~aiaLsG-qrllg~pv~vq~sE  256 (549)
T KOG0147|consen  178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIGDRNSRRSKGIAYVEFCDEQSVPLAIALSG-QRLLGVPVIVQLSE  256 (549)
T ss_pred             hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeeccccchhhcceeEEEEecccchhhHhhhcC-CcccCceeEecccH
Confidence            45789999999999999999999999 99999999999999999999999999999999999999 99999999999876


Q ss_pred             CCCCC
Q psy13181        103 GKRND  107 (137)
Q Consensus       103 ~~~~~  107 (137)
                      ..++.
T Consensus       257 aeknr  261 (549)
T KOG0147|consen  257 AEKNR  261 (549)
T ss_pred             HHHHH
Confidence            55544

>KOG1457|consensus

Probab=97.94  E-value=8.9e-06  Score=57.14  Aligned_cols=65  Identities=14%  Similarity=0.280  Sum_probs=51.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      .....+|||.||..+|+|++|+.+|+.| ....+.+. .+ .|..  .+|++|+..+.+..|+. |+| ..|
T Consensus       207 ~~acstlfianl~~~~~ed~l~~~~~~~~gf~~l~~~-~~-~g~~--vaf~~~~~~~~at~am~~lqg-~~~  273 (284)
T KOG1457|consen  207 ARACSTLFIANLGPNCTEDELKQLLSRYPGFHILKIR-AR-GGMP--VAFADFEEIEQATDAMNHLQG-NLL  273 (284)
T ss_pred             chhhhhHhhhccCCCCCHHHHHHHHHhCCCceEEEEe-cC-CCcc--eEeecHHHHHHHHHHHHHhhc-cee
Confidence            3455789999999999999999999999 65544442 22 2433  79999999999999999 998 443

>KOG1365|consensus

Probab=97.88  E-value=1.8e-05  Score=59.50  Aligned_cols=80  Identities=15%  Similarity=0.157  Sum_probs=68.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC--ceeE--EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ--KLVS--VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~--i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ...+|.+.+||.+.+.+||..||..|  .|..  |.|+.+.. |...|.|||+|.+.+.+.+|.. .+. ..+..+.|+|
T Consensus       279 ~kdcvRLRGLPy~AtvEdIL~FlgdFa~~i~f~gVHmv~N~q-GrPSGeAFIqm~nae~a~aaaqk~hk-~~mk~RYiEv  356 (508)
T KOG1365|consen  279 SKDCVRLRGLPYEATVEDILDFLGDFATDIRFQGVHMVLNGQ-GRPSGEAFIQMRNAERARAAAQKCHK-KLMKSRYIEV  356 (508)
T ss_pred             CCCeeEecCCChhhhHHHHHHHHHHHhhhcccceeEEEEcCC-CCcChhhhhhhhhhHHHHHHHHHHHH-hhcccceEEE
Confidence            35689999999999999999999998  5555  78887754 8889999999999999999998 887 6667889999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      ..+..++
T Consensus       357 fp~S~ee  363 (508)
T KOG1365|consen  357 FPCSVEE  363 (508)
T ss_pred             eeccHHH
Confidence            8877654

>KOG1190|consensus

Probab=97.84  E-value=9.3e-05  Score=56.14  Aligned_cols=72  Identities=17%  Similarity=0.286  Sum_probs=64.3

Q ss_pred             CceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         25 PYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        25 ~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...|.|.||.+ .+|.+.|.-+|.-| ++..|.++.++.     ..|+|.+.+.+.|+-|++ |+| ..|.|++|+|.++
T Consensus       297 n~vllvsnln~~~VT~d~LftlFgvYGdVqRVkil~nkk-----d~ALIQmsd~~qAqLA~~hL~g-~~l~gk~lrvt~S  370 (492)
T KOG1190|consen  297 NVVLLVSNLNEEAVTPDVLFTLFGVYGDVQRVKILYNKK-----DNALIQMSDGQQAQLAMEHLEG-HKLYGKKLRVTLS  370 (492)
T ss_pred             ceEEEEecCchhccchhHHHHHHhhhcceEEEEeeecCC-----cceeeeecchhHHHHHHHHhhc-ceecCceEEEeec
Confidence            46788888864 58999999999999 999999988764     379999999999999999 999 9999999999998


Q ss_pred             C
Q psy13181        102 D  102 (137)
Q Consensus       102 ~  102 (137)
                      +
T Consensus       371 K  371 (492)
T KOG1190|consen  371 K  371 (492)
T ss_pred             c
Confidence            7

>KOG4206|consensus

Probab=97.80  E-value=0.00013  Score=51.21  Aligned_cols=75  Identities=19%  Similarity=0.383  Sum_probs=62.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~l~v   98 (137)
                      .++...+|+.|||.+++.+.+..+|.+| ...++.++...     .+.|||+|.+...+..|.. +++ ..+- ...+.|
T Consensus       143 ~ppn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~~~-----~~iAfve~~~d~~a~~a~~~lq~-~~it~~~~m~i  216 (221)
T KOG4206|consen  143 APPNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIPPR-----SGIAFVEFLSDRQASAAQQALQG-FKITKKNTMQI  216 (221)
T ss_pred             CCCceEEEEecCCcchhHHHHHHHHhhCcccceeEeccCC-----CceeEEecchhhhhHHHhhhhcc-ceeccCceEEe
Confidence            3456789999999999999999999999 88888887543     4589999999999899988 888 7765 667777


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      .+++
T Consensus       217 ~~a~  220 (221)
T KOG4206|consen  217 TFAK  220 (221)
T ss_pred             cccC
Confidence            6654

>KOG4307|consensus

Probab=97.77  E-value=0.00014  Score=58.62  Aligned_cols=73  Identities=27%  Similarity=0.409  Sum_probs=62.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +.|-+.|+|+.++-+||.+||..|  ...+|.+.+. +.|+.+|.|-|.|++.++|.+|.. |++ ..|.++.|.+.+
T Consensus       868 ~V~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~n-d~G~pTGe~mvAfes~~eAr~A~~dl~~-~~i~nr~V~l~i  943 (944)
T KOG4307|consen  868 RVLSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRN-DDGVPTGECMVAFESQEEARRASMDLDG-QKIRNRVVSLRI  943 (944)
T ss_pred             eEEEecCCCccccHHHHHHHhcccccCCCceeEeec-CCCCcccceeEeecCHHHHHhhhhcccc-CcccceeEEEEe
Confidence            578889999999999999999999  4455554443 458999999999999999999999 999 999999998875

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

Probab=97.73  E-value=0.00016  Score=45.48  Aligned_cols=70  Identities=19%  Similarity=0.303  Sum_probs=43.0

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCC----CeeecCeEEEEE
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDG----RITVDGLQVRLD   99 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~----~~~l~g~~l~v~   99 (137)
                      ..|+|.+++..++.++|+..|+++ .|.+|.+...-.      .|+|.|.+.+.|+.++. +..    .+.+.+..+.+.
T Consensus         2 ~il~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~------~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~~   75 (105)
T PF08777_consen    2 CILKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDT------EGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTLE   75 (105)
T ss_dssp             -EEEEEE--SS--HHHHHHHT-SS--EEEEE--TT-S------EEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEEE
T ss_pred             eEEEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCC------EEEEEECCcchHHHHHHHHHhccCCceEEcCceEEEE
Confidence            357888899999999999999999 999998865432      79999999999999887 432    156677666666


Q ss_pred             ec
Q psy13181        100 IA  101 (137)
Q Consensus       100 ~a  101 (137)
                      .-
T Consensus        76 vL   77 (105)
T PF08777_consen   76 VL   77 (105)
T ss_dssp             --
T ss_pred             EC
Confidence            53

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

>KOG0129|consensus

Probab=97.58  E-value=0.00033  Score=54.52  Aligned_cols=81  Identities=22%  Similarity=0.292  Sum_probs=65.9

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCc-CC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeec----Ce
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFP-EQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVD----GL   94 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~-~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~----g~   94 (137)
                      +-++.+||||++||.-++.++|..+|. -| .|..+.+-.|++-...+|-+-|.|++.++..+||+.-- +.|+    .+
T Consensus       366 ~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD~k~KYPkGaGRVtFsnqqsYi~AIsarF-vql~h~d~~K  444 (520)
T KOG0129|consen  366 PIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTDPKLKYPKGAGRVTFSNQQAYIKAISARF-VQLDHTDIDK  444 (520)
T ss_pred             ccCccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccCcccCCCCCcceeeecccHHHHHHHhhhe-EEEeccccce
Confidence            345678999999999999999999998 56 89999998887778899999999999999999997433 4443    35


Q ss_pred             EEEEEecC
Q psy13181         95 QVRLDIAD  102 (137)
Q Consensus        95 ~l~v~~a~  102 (137)
                      +|.|+..-
T Consensus       445 RVEIkPYv  452 (520)
T KOG0129|consen  445 RVEIKPYV  452 (520)
T ss_pred             eeeeccee
Confidence            66666544

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

Probab=97.55  E-value=0.00024  Score=42.62  Aligned_cols=66  Identities=21%  Similarity=0.298  Sum_probs=44.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCc----CC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         26 YTAFVGNLPNGITQGDVERFFP----EQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~----~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .-|+|.|||.+.+...|+.-+.    -+  .+..|  .        .+.|+|.|.+.+.|..|++ |++ -.+-|.+|.|
T Consensus         3 s~L~V~NLP~~~d~~~I~~RL~qLsdNCGGkVl~v--~--------~~tAilrF~~~~~A~RA~KRmeg-EdVfG~kI~v   71 (90)
T PF11608_consen    3 SLLYVSNLPTNKDPSSIKNRLRQLSDNCGGKVLSV--S--------GGTAILRFPNQEFAERAQKRMEG-EDVFGNKISV   71 (90)
T ss_dssp             EEEEEES--TTS-HHHHHHHHHHHHHTTT--EEE------------TT-EEEEESSHHHHHHHHHHHTT---SSSS--EE
T ss_pred             cEEEEecCCCCCCHHHHHHHHHHHhhccCCEEEEE--e--------CCEEEEEeCCHHHHHHHHHhhcc-cccccceEEE
Confidence            4689999999999887766665    45  44433  1        2479999999999999999 999 9999999999


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      .+..
T Consensus        72 ~~~~   75 (90)
T PF11608_consen   72 SFSP   75 (90)
T ss_dssp             ESS-
T ss_pred             EEcC
Confidence            9874

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

>KOG0106|consensus

Probab=97.46  E-value=0.00011  Score=51.68  Aligned_cols=76  Identities=22%  Similarity=0.411  Sum_probs=62.8

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ...+....+.+.|.+++..+++.+|.+.|+++ .+.....        ..+++||.|+...++..|++ |++ ..+.++.
T Consensus        92 ~~~p~~s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~--------~~~~~~v~Fs~~~da~ra~~~l~~-~~~~~~~  162 (216)
T KOG0106|consen   92 YRPPSRTHFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDA--------RRNFAFVEFSEQEDAKRALEKLDG-KKLNGRR  162 (216)
T ss_pred             cCCcccccceeeeccchhhhhHHHHhhhhcccCCCchhhh--------hccccceeehhhhhhhhcchhccc-hhhcCce
Confidence            44456677889999999999999999999999 6533322        24489999999999999999 999 9999999


Q ss_pred             EEEEecC
Q psy13181         96 VRLDIAD  102 (137)
Q Consensus        96 l~v~~a~  102 (137)
                      |.+....
T Consensus       163 l~~~~~~  169 (216)
T KOG0106|consen  163 ISVEKNS  169 (216)
T ss_pred             eeecccC
Confidence            9995544

>KOG1365|consensus

Probab=97.39  E-value=0.00015  Score=54.74  Aligned_cols=76  Identities=24%  Similarity=0.187  Sum_probs=59.3

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-----ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-----KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-----~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      --.|.+.+||+++++.|+..||.+-     ..+.|.++..+ .++.+|-|||.|..+++++.||..|. ..|+-+.|++.
T Consensus       161 qvivRmRGLPfdat~~dVv~FF~~~cpv~~g~egvLFV~rp-dgrpTGdAFvlfa~ee~aq~aL~khr-q~iGqRYIElF  238 (508)
T KOG1365|consen  161 QVIVRMRGLPFDATALDVVEFFGPPCPVTGGTEGVLFVTRP-DGRPTGDAFVLFACEEDAQFALRKHR-QNIGQRYIELF  238 (508)
T ss_pred             ceEEEecCCCCCcchHHHHHhcCCCCcccCCccceEEEECC-CCCcccceEEEecCHHHHHHHHHHHH-HHHhHHHHHHH
Confidence            3567788999999999999999632     45566666554 47889999999999999999998776 66666666665


Q ss_pred             ecC
Q psy13181        100 IAD  102 (137)
Q Consensus       100 ~a~  102 (137)
                      .+.
T Consensus       239 RST  241 (508)
T KOG1365|consen  239 RST  241 (508)
T ss_pred             HHh
Confidence            544

>KOG1190|consensus

Probab=97.25  E-value=0.0015  Score=49.84  Aligned_cols=76  Identities=18%  Similarity=0.295  Sum_probs=59.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC-eEEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG-LQVRLD   99 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g-~~l~v~   99 (137)
                      ++..++.+.|+|.+++|++++..|..- ...+.....    ++.+.++++.+.+.+++-.|+- +|. ..+.. .-++|.
T Consensus       412 PpsatlHlsnip~svsee~lk~~f~~~g~~vkafkff----~kd~kmal~q~~sveeA~~ali~~hn-h~lgen~hlRvS  486 (492)
T KOG1190|consen  412 PPSATLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFF----QKDRKMALPQLESVEEAIQALIDLHN-HYLGENHHLRVS  486 (492)
T ss_pred             CchhheeeccCCcccchhHHHHhhhcCCceEEeeeec----CCCcceeecccCChhHhhhhcccccc-ccCCCCceEEEE
Confidence            456799999999999999999999876 443332222    3345599999999999999888 988 77766 489999


Q ss_pred             ecCC
Q psy13181        100 IADG  103 (137)
Q Consensus       100 ~a~~  103 (137)
                      +++.
T Consensus       487 FSks  490 (492)
T KOG1190|consen  487 FSKS  490 (492)
T ss_pred             eecc
Confidence            8764

>KOG0129|consensus

Probab=97.24  E-value=0.0021  Score=50.21  Aligned_cols=60  Identities=25%  Similarity=0.379  Sum_probs=46.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCC---CCCeec---EEEEEEcCHHHHHHHHH
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE---TDRFKG---FCYVEFVDVENLRQALL   84 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~---t~~~~g---~~fv~f~~~~~a~~al~   84 (137)
                      .++|||++||+.++|++|...|..|....+.+.....   ---..|   |+|+.|+++.++...+.
T Consensus       259 S~KVFvGGlp~dise~~i~~~F~~FGs~~VdWP~k~~~~~~~ppkGs~~YvflvFe~E~sV~~Ll~  324 (520)
T KOG0129|consen  259 SRKVFVGGLPWDITEAQINASFGQFGSVKVDWPGKANSRGRAPPKGSYGYVFLVFEDERSVQSLLS  324 (520)
T ss_pred             ccceeecCCCccccHHHHHhhcccccceEeecCCCccccccCCCCCcccEEEEEecchHHHHHHHH
Confidence            4799999999999999999999999555566653211   112245   99999999999888776

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=97.14  E-value=0.0015  Score=48.80  Aligned_cols=78  Identities=15%  Similarity=0.352  Sum_probs=58.4

Q ss_pred             ceEEEcCCCCCCCHHH----H--HhcCcCC-ceeEEEEeecCCC-CCeecE--EEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         26 YTAFVGNLPNGITQGD----V--ERFFPEQ-KLVSVRLVKDKET-DRFKGF--CYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~----l--~~~f~~~-~i~~i~~~~~~~t-~~~~g~--~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      .-+||-+||+.+..++    |  .++|.+| .|..|.+.+.-.+ -...++  .+|.|.+.++|..||. .++ ..++|+
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNkkt~s~nst~~h~gvYITy~~kedAarcIa~vDg-s~~DGr  193 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNKKTSSLNSTASHAGVYITYSTKEDAARCIAEVDG-SLLDGR  193 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecccccccccccccceEEEEecchHHHHHHHHHhcc-ccccCc
Confidence            4578888988776665    2  5678899 8988876543211 111222  4999999999999999 999 999999


Q ss_pred             EEEEEecCCC
Q psy13181         95 QVRLDIADGK  104 (137)
Q Consensus        95 ~l~v~~a~~~  104 (137)
                      .|++.+...+
T Consensus       194 ~lkatYGTTK  203 (480)
T COG5175         194 VLKATYGTTK  203 (480)
T ss_pred             eEeeecCchH
Confidence            9999997754

>KOG4307|consensus

Probab=96.98  E-value=0.0013  Score=53.18  Aligned_cols=83  Identities=17%  Similarity=0.116  Sum_probs=66.1

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE-EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~-i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      .+.+......|||..||..+++.++.++|... .+++ |.+.+.+ +++.++.|||.|..+.+...|+. .+. ..++.+
T Consensus       427 vp~P~~ag~~lyv~~lP~~t~~~~~v~~f~~~~~Ved~I~lt~~P-~~~~~~~afv~F~~~~a~~~a~~~~~k-~y~G~r  504 (944)
T KOG4307|consen  427 VPFPGGAGGALYVFQLPVMTPIVPPVNKFMGAAAVEDFIELTRLP-TDLLRPAAFVAFIHPTAPLTASSVKTK-FYPGHR  504 (944)
T ss_pred             CCCCCCccceEEeccCCccccccchhhhhhhhhhhhheeEeccCC-cccccchhhheeccccccchhhhcccc-cccCce
Confidence            44556677899999999999999999999887 5555 6665555 46778899999999888888777 666 777778


Q ss_pred             EEEEEecC
Q psy13181         95 QVRLDIAD  102 (137)
Q Consensus        95 ~l~v~~a~  102 (137)
                      .|+|+...
T Consensus       505 ~irv~si~  512 (944)
T KOG4307|consen  505 IIRVDSIA  512 (944)
T ss_pred             EEEeechh
Confidence            88887644

>KOG0105|consensus

Probab=96.89  E-value=0.026  Score=38.95  Aligned_cols=65  Identities=18%  Similarity=0.276  Sum_probs=53.3

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      ++.......|.|.+||++.+.+||++.+.+- .+....+.+|-       .+.|+|-..++.+-|+. |+. ..+
T Consensus       109 ppsrrSe~RVvVsGLp~SgSWQDLKDHmReaGdvCfadv~rDg-------~GvV~~~r~eDMkYAvr~ld~-~~~  175 (241)
T KOG0105|consen  109 PPSRRSEYRVVVSGLPPSGSWQDLKDHMREAGDVCFADVQRDG-------VGVVEYLRKEDMKYAVRKLDD-QKF  175 (241)
T ss_pred             CcccccceeEEEecCCCCCchHHHHHHHHhhCCeeeeeeeccc-------ceeeeeeehhhHHHHHHhhcc-ccc
Confidence            3344566899999999999999999999888 88777776653       78999999999999998 776 444

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=96.82  E-value=0.011  Score=35.46  Aligned_cols=56  Identities=13%  Similarity=0.217  Sum_probs=40.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD   86 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~   86 (137)
                      .+.+..+|. +|.+|...||.++|+.|+-..|.++-|  |     .|||.+.+.+.+..++. +.
T Consensus         7 ~RdHVFhlt-FPkeWK~~DI~qlFspfG~I~VsWi~d--T-----SAfV~l~~r~~~~~v~~~~~   63 (87)
T PF08675_consen    7 SRDHVFHLT-FPKEWKTSDIYQLFSPFGQIYVSWIND--T-----SAFVALHNRDQAKVVMNTLK   63 (87)
T ss_dssp             SGCCEEEEE---TT--HHHHHHHCCCCCCEEEEEECT--T-----EEEEEECCCHHHHHHHHHHT
T ss_pred             CcceEEEEe-CchHhhhhhHHHHhccCCcEEEEEEcC--C-----cEEEEeecHHHHHHHHHHhc
Confidence            344566666 999999999999999995556777654  2     79999999999998877 54

; GO: 0003723 RNA binding, 0004535 poly(A)-specific ribonuclease activity, 0046872 metal ion binding, 0006402 mRNA catabolic process, 0005634 nucleus, 0005737 cytoplasm; PDB: 3CTR_A 2ROK_A 3D45_B 1WHV_A.

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=96.81  E-value=0.01  Score=37.00  Aligned_cols=75  Identities=15%  Similarity=0.174  Sum_probs=48.6

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEE-EeecC------CCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCe-E
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVR-LVKDK------ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGL-Q   95 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~-~~~~~------~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~-~   95 (137)
                      ...|.|-++|+. ....|...|++| .|.+.. +.++.      .......+..|.|++..+|.+||..|| ..|.|. .
T Consensus         6 ~~wVtVFGfp~~-~~~~Vl~~F~~~G~Ile~~~~~~~~~~~~~~~~~~~~NWi~I~Y~~~~~A~rAL~~NG-~i~~g~~m   83 (100)
T PF05172_consen    6 ETWVTVFGFPPS-ASNQVLRHFSSFGTILEHFEVLRSSSGINPYPIPSGGNWIHITYDNPLSAQRALQKNG-TIFSGSLM   83 (100)
T ss_dssp             CCEEEEE---GG-GHHHHHHHHHCCS-EECEEGGG----------E-CCTTEEEEEESSHHHHHHHHTTTT-EEETTCEE
T ss_pred             CeEEEEEccCHH-HHHHHHHHHHhcceEEEeecccccccccccccCCCCCCEEEEECCCHHHHHHHHHhCC-eEEcCcEE
Confidence            456888899988 455688889999 877664 11100      001223489999999999999999999 999875 4


Q ss_pred             EEEEec
Q psy13181         96 VRLDIA  101 (137)
Q Consensus        96 l~v~~a  101 (137)
                      +-|.+.
T Consensus        84 vGV~~~   89 (100)
T PF05172_consen   84 VGVKPC   89 (100)
T ss_dssp             EEEEE-
T ss_pred             EEEEEc
Confidence            556655

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

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

Probab=96.67  E-value=0.0041  Score=34.12  Aligned_cols=51  Identities=14%  Similarity=0.275  Sum_probs=39.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHH
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL   83 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al   83 (137)
                      +.|-|.+.+++..+.. ...|.+| .|..+.+..      ...+.+|.|.+..++++||
T Consensus         2 ~wI~V~Gf~~~~~~~v-l~~F~~fGeI~~~~~~~------~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen    2 TWISVSGFPPDLAEEV-LEHFASFGEIVDIYVPE------STNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cEEEEEeECchHHHHH-HHHHHhcCCEEEEEcCC------CCcEEEEEECCHHHHHhhC
Confidence            4688889998877664 4477789 999887752      2338999999999999885

>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function

Probab=96.53  E-value=0.012  Score=33.29  Aligned_cols=53  Identities=23%  Similarity=0.459  Sum_probs=42.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC----ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ----KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL   84 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~----~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~   84 (137)
                      .+-+|+|.++.. .+.++|+.+|..|    ....|.++-|.       .|-|.|.+.+.|.+||.
T Consensus         4 rpeavhirGvd~-lsT~dI~~y~~~y~~~~~~~~IEWIdDt-------ScNvvf~d~~~A~~AL~   60 (62)
T PF10309_consen    4 RPEAVHIRGVDE-LSTDDIKAYFSEYFDEEGPFRIEWIDDT-------SCNVVFKDEETAARALV   60 (62)
T ss_pred             eeceEEEEcCCC-CCHHHHHHHHHHhcccCCCceEEEecCC-------cEEEEECCHHHHHHHHH
Confidence            346799999854 7778899998876    67788888764       58899999999999986

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=96.36  E-value=0.031  Score=38.37  Aligned_cols=79  Identities=14%  Similarity=0.098  Sum_probs=47.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC--ce---eEEEEeecCC--CCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC-
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ--KL---VSVRLVKDKE--TDRFKGFCYVEFVDVENLRQALL-KDGRITVDG-   93 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i---~~i~~~~~~~--t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g-   93 (137)
                      ....+|.|++||+..+|+++...+..+  ..   ..+.-.....  ......-|+|.|.+.+++..... ++| ..+.+ 
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g-~~F~D~   83 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDG-HVFVDS   83 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTT-EEEE-T
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCC-cEEECC
Confidence            345699999999999999999988773  32   2222111111  11223568999999999999998 999 76644 


Q ss_pred             ----eEEEEEecC
Q psy13181         94 ----LQVRLDIAD  102 (137)
Q Consensus        94 ----~~l~v~~a~  102 (137)
                          ....|++|.
T Consensus        84 kg~~~~~~VE~Ap   96 (176)
T PF03467_consen   84 KGNEYPAVVEFAP   96 (176)
T ss_dssp             TS-EEEEEEEE-S
T ss_pred             CCCCcceeEEEcc
Confidence                445666654

Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.

>KOG2193|consensus

Probab=96.34  E-value=0.0033  Score=48.25  Aligned_cols=72  Identities=22%  Similarity=0.398  Sum_probs=59.0

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ++|++||.+.++..+|...|...  ....-.++       ..+|+|+...+...+.++++ +++...+.|+++.+..+-+
T Consensus         3 klyignL~p~~~psdl~svfg~ak~~~~g~fl~-------k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~   75 (584)
T KOG2193|consen    3 KLYIGNLSPQVTPSDLESVFGDAKIPGSGQFLV-------KSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVP   75 (584)
T ss_pred             cccccccCCCCChHHHHHHhccccCCCCcceee-------ecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhh
Confidence            68999999999999999999765  22222222       24599999999999999999 9987899999999999877


Q ss_pred             CC
Q psy13181        104 KR  105 (137)
Q Consensus       104 ~~  105 (137)
                      +.
T Consensus        76 kk   77 (584)
T KOG2193|consen   76 KK   77 (584)
T ss_pred             HH
Confidence            64

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.20  E-value=0.027  Score=37.36  Aligned_cols=72  Identities=26%  Similarity=0.386  Sum_probs=47.0

Q ss_pred             CCceEEEcCCC------CCCCHH---HHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecC
Q psy13181         24 PPYTAFVGNLP------NGITQG---DVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG   93 (137)
Q Consensus        24 ~~~~l~v~nlp------~~~~e~---~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g   93 (137)
                      +..+|.|.=+.      ....++   +|.+.|..| .+.-++++-+        .-.|+|.+.+.|.+|+.+++ ..++|
T Consensus        26 pDaTVvVsv~~~~~~e~~~Fdd~l~~~ll~~~~~~GevvLvRfv~~--------~mwVTF~dg~sALaals~dg-~~v~g   96 (146)
T PF08952_consen   26 PDATVVVSVDSPSEDEDSSFDDNLMDELLQKFAQYGEVVLVRFVGD--------TMWVTFRDGQSALAALSLDG-IQVNG   96 (146)
T ss_dssp             TT-EEEEEECS-SCCCCHS--HHHHHHHHHHHHCCS-ECEEEEETT--------CEEEEESSCHHHHHHHHGCC-SEETT
T ss_pred             CCceEEEEecCCCccccCcCCHHHHHHHHHHHHhCCceEEEEEeCC--------eEEEEECccHHHHHHHccCC-cEECC
Confidence            44566665443      123332   555566667 6555555432        57899999999999999999 99999


Q ss_pred             eEEEEEecCCC
Q psy13181         94 LQVRLDIADGK  104 (137)
Q Consensus        94 ~~l~v~~a~~~  104 (137)
                      +.|+|++..+.
T Consensus        97 ~~l~i~LKtpd  107 (146)
T PF08952_consen   97 RTLKIRLKTPD  107 (146)
T ss_dssp             EEEEEEE----
T ss_pred             EEEEEEeCCcc
Confidence            99999997764

; PDB: 1UFW_A 2DNR_A.

>KOG1456|consensus

Probab=96.20  E-value=0.054  Score=41.23  Aligned_cols=75  Identities=20%  Similarity=0.279  Sum_probs=63.0

Q ss_pred             CCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +...+.|-+|... +..+-|..+|..| .++.|.+++.+     .+.|.|++.+...+++|+. |++ ..+=|.+|.|..
T Consensus       286 ~g~VmMVyGLdh~k~N~drlFNl~ClYGNV~rvkFmkTk-----~gtamVemgd~~aver~v~hLnn-~~lfG~kl~v~~  359 (494)
T KOG1456|consen  286 PGCVMMVYGLDHGKMNCDRLFNLFCLYGNVERVKFMKTK-----PGTAMVEMGDAYAVERAVTHLNN-IPLFGGKLNVCV  359 (494)
T ss_pred             CCcEEEEEeccccccchhhhhhhhhhcCceeeEEEeecc-----cceeEEEcCcHHHHHHHHHHhcc-CccccceEEEee
Confidence            4567888899865 5667789999999 99999998764     4589999999999999999 999 878888899888


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ++-.
T Consensus       360 SkQ~  363 (494)
T KOG1456|consen  360 SKQN  363 (494)
T ss_pred             cccc
Confidence            7643

>KOG0120|consensus

Probab=96.18  E-value=0.025  Score=44.72  Aligned_cols=63  Identities=22%  Similarity=0.204  Sum_probs=48.0

Q ss_pred             HHHhcCcCC-ceeEEEEeecCC---CCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCC
Q psy13181         41 DVERFFPEQ-KLVSVRLVKDKE---TDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        41 ~l~~~f~~~-~i~~i~~~~~~~---t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~  104 (137)
                      +++..+..| .|..|.+.++..   -....|..||+|.+.++++.|+. |+| .++.++.|...|....
T Consensus       425 dvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~G-rKF~nRtVvtsYydeD  492 (500)
T KOG0120|consen  425 DVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTG-RKFANRTVVASYYDED  492 (500)
T ss_pred             HHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccC-ceeCCcEEEEEecCHH
Confidence            334445567 777777766522   12335789999999999999999 999 9999999999987654

>KOG1456|consensus

Probab=96.16  E-value=0.044  Score=41.68  Aligned_cols=76  Identities=21%  Similarity=0.237  Sum_probs=57.8

Q ss_pred             CCceEEEc--CCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEE
Q psy13181         24 PPYTAFVG--NLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVR   97 (137)
Q Consensus        24 ~~~~l~v~--nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~   97 (137)
                      ..+.|.+.  |--..+|.+.|..+.-.. .+..|.+++.  ++.   .|.|+|++.+.|++|.. ||| ..|..  ..|+
T Consensus       119 pN~VLl~TIlNp~YpItvDVly~Icnp~GkVlRIvIfkk--ngV---QAmVEFdsv~~AqrAk~alNG-ADIYsGCCTLK  192 (494)
T KOG1456|consen  119 PNKVLLFTILNPQYPITVDVLYTICNPQGKVLRIVIFKK--NGV---QAMVEFDSVEVAQRAKAALNG-ADIYSGCCTLK  192 (494)
T ss_pred             CCeEEEEEeecCccccchhhhhhhcCCCCceEEEEEEec--cce---eeEEeechhHHHHHHHhhccc-ccccccceeEE
Confidence            33444433  444568888899888888 8888877754  333   59999999999999999 999 77654  7799


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      |++|+|.+
T Consensus       193 IeyAkP~r  200 (494)
T KOG1456|consen  193 IEYAKPTR  200 (494)
T ss_pred             EEecCcce
Confidence            99999864

>KOG2416|consensus

Probab=96.14  E-value=0.0055  Score=48.84  Aligned_cols=78  Identities=18%  Similarity=0.336  Sum_probs=61.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee---cCe
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV---DGL   94 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l---~g~   94 (137)
                      .......|+|.||-.-+|.-+|+.+|..-  .|... |+ |    +-+.+|||.|.+.++|.+... ||+ +.|   +.+
T Consensus       440 R~~~SnvlhI~nLvRPFTlgQLkelL~rtgg~Vee~-Wm-D----kIKShCyV~yss~eEA~atr~Alhn-V~WP~sNPK  512 (718)
T KOG2416|consen  440 RKEPSNVLHIDNLVRPFTLGQLKELLGRTGGNVEEF-WM-D----KIKSHCYVSYSSVEEAAATREALHN-VQWPPSNPK  512 (718)
T ss_pred             CCCccceEeeecccccchHHHHHHHHhhccCchHHH-HH-H----HhhcceeEecccHHHHHHHHHHHhc-cccCCCCCc
Confidence            45567899999999999999999999854  44444 32 2    335589999999999999999 999 877   457


Q ss_pred             EEEEEecCCCC
Q psy13181         95 QVRLDIADGKR  105 (137)
Q Consensus        95 ~l~v~~a~~~~  105 (137)
                      .|.+.|.....
T Consensus       513 ~L~adf~~~de  523 (718)
T KOG2416|consen  513 HLIADFVRADE  523 (718)
T ss_pred             eeEeeecchhH
Confidence            78888876543

>KOG0128|consensus

Probab=95.81  E-value=0.0043  Score=51.12  Aligned_cols=77  Identities=13%  Similarity=0.168  Sum_probs=66.8

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ...++|.|+|+..|.++++.++..+ .+..+.++..+. ++.+|.+++.|.++.++..++. .+. ..+...-+.|..+.
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~-gkpkg~a~v~y~~ea~~s~~~~s~d~-~~~rE~~~~v~vsn  813 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRA-GKPKGKARVDYNTEADASRKVASVDV-AGKRENNGEVQVSN  813 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhhhhc-cccccceeccCCCcchhhhhcccchh-hhhhhcCccccccC
Confidence            4689999999999999999999999 888887777664 8999999999999999999988 887 77777777887766


Q ss_pred             C
Q psy13181        103 G  103 (137)
Q Consensus       103 ~  103 (137)
                      +
T Consensus       814 p  814 (881)
T KOG0128|consen  814 P  814 (881)
T ss_pred             C
Confidence            5

>KOG1548|consensus

Probab=95.76  E-value=0.052  Score=40.79  Aligned_cols=78  Identities=26%  Similarity=0.307  Sum_probs=55.7

Q ss_pred             CCCCceEEEcCC--C--CCCCH-------HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC
Q psy13181         22 TEPPYTAFVGNL--P--NGITQ-------GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR   88 (137)
Q Consensus        22 ~~~~~~l~v~nl--p--~~~~e-------~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~   88 (137)
                      ....++|.|.|+  |  ...+.       ++|..-..+| .+..|.|. ++.   +.|.+.|.|.+.+.|..|+. |+| 
T Consensus       262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~-d~h---PdGvvtV~f~n~eeA~~ciq~m~G-  336 (382)
T KOG1548|consen  262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVY-DRH---PDGVVTVSFRNNEEADQCIQTMDG-  336 (382)
T ss_pred             ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEe-ccC---CCceeEEEeCChHHHHHHHHHhcC-
Confidence            345578888886  1  22332       3344445567 66666554 322   35789999999999999999 999 


Q ss_pred             eeecCeEEEEEecCCC
Q psy13181         89 ITVDGLQVRLDIADGK  104 (137)
Q Consensus        89 ~~l~g~~l~v~~a~~~  104 (137)
                      ..++|++|...+...+
T Consensus       337 R~fdgRql~A~i~DG~  352 (382)
T KOG1548|consen  337 RWFDGRQLTASIWDGK  352 (382)
T ss_pred             eeecceEEEEEEeCCc
Confidence            9999999999887654

>KOG3152|consensus

Probab=95.68  E-value=0.0072  Score=43.49  Aligned_cols=71  Identities=11%  Similarity=0.196  Sum_probs=55.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCC--------CCee----cEEEEEEcCHHHHHHHHH-hCCCe
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKET--------DRFK----GFCYVEFVDVENLRQALL-KDGRI   89 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t--------~~~~----g~~fv~f~~~~~a~~al~-l~~~~   89 (137)
                      ..-.||+++||+.+.-.-|+.+|.+| .|-.|.+-....+        +.+.    ..+.|+|.+...|..+.. ||+ .
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqpE~~s~~~~r~~~~~n~~~~y~EGWvEF~~KrvAK~iAe~Lnn-~  151 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQPEDDSKRAARKRKGGNYKKLYSEGWVEFISKRVAKRIAELLNN-T  151 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecchhhHHHHHHhhcCCCccccchhHHHHHHHHHHHHHHHHHhCC-C
Confidence            44679999999999999999999999 8888877554333        2222    235689999999999888 999 8


Q ss_pred             eecCeE
Q psy13181         90 TVDGLQ   95 (137)
Q Consensus        90 ~l~g~~   95 (137)
                      .|+|+.
T Consensus       152 ~Iggkk  157 (278)
T KOG3152|consen  152 PIGGKK  157 (278)
T ss_pred             ccCCCC
Confidence            888754

>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []

Probab=95.59  E-value=0.21  Score=31.70  Aligned_cols=67  Identities=15%  Similarity=0.139  Sum_probs=48.1

Q ss_pred             CCceEEEcCCCCCCCH-HHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC
Q psy13181         24 PPYTAFVGNLPNGITQ-GDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG   93 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e-~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g   93 (137)
                      ....+.|-..|+.++. ++|..+...+  .|..+.++++..  .++=.+++.|.+.+.|..... +|| ..++.
T Consensus        11 ~~~~~~~l~vp~~~~~~d~l~~f~~~~~~~i~~~riird~~--pnrymVLikF~~~~~Ad~Fy~~fNG-k~Fns   81 (110)
T PF07576_consen   11 RRSTLCCLAVPPYMTPSDFLLFFGAPFREDIEHIRIIRDGT--PNRYMVLIKFRDQESADEFYEEFNG-KPFNS   81 (110)
T ss_pred             CCceEEEEEeCcccccHHHHHHhhhcccccEEEEEEeeCCC--CceEEEEEEECCHHHHHHHHHHhCC-CccCC
Confidence            3345555555555555 5666666666  788889988743  345578999999999999999 999 77654

These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.

>KOG2314|consensus

Probab=95.57  E-value=0.062  Score=42.92  Aligned_cols=75  Identities=19%  Similarity=0.304  Sum_probs=58.5

Q ss_pred             CceEEEcCCCCCCCH------HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeE
Q psy13181         25 PYTAFVGNLPNGITQ------GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQ   95 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e------~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~   95 (137)
                      ...|+|.|+|.--..      ..|.++|+++ .+..+.++.+..++ .+|+.|++|.+..+|+.|+. ||| ..|+ .+.
T Consensus        58 D~vVvv~g~PvV~~~rl~klk~vl~kvfsk~gk~vn~~~P~~e~gg-tkG~lf~E~~~~~~A~~aVK~l~G-~~ldknHt  135 (698)
T KOG2314|consen   58 DSVVVVDGAPVVGPARLEKLKKVLTKVFSKAGKIVNMYYPIDEEGG-TKGYLFVEYASMRDAKKAVKSLNG-KRLDKNHT  135 (698)
T ss_pred             ceEEEECCCcccChhHHHHHHHHHHHHHHhhccccceeeccCccCC-eeeEEEEEecChhhHHHHHHhccc-ceecccce
Confidence            467889998854322      3556778888 88888888887755 89999999999999999999 999 6654 566


Q ss_pred             EEEEec
Q psy13181         96 VRLDIA  101 (137)
Q Consensus        96 l~v~~a  101 (137)
                      ..|..-
T Consensus       136 f~v~~f  141 (698)
T KOG2314|consen  136 FFVRLF  141 (698)
T ss_pred             EEeehh
Confidence            766653

>KOG1855|consensus

Probab=95.16  E-value=0.031  Score=43.03  Aligned_cols=64  Identities=27%  Similarity=0.334  Sum_probs=51.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeec---CCC--C-C-------eecEEEEEEcCHHHHHHHHH-h
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKD---KET--D-R-------FKGFCYVEFVDVENLRQALL-K   85 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~---~~t--~-~-------~~g~~fv~f~~~~~a~~al~-l   85 (137)
                      +-+.++|.+-|||.+-.-+-|.++|..+ .|..|.++..   +..  + .       .+-||+|+|...+.|.+|.+ +
T Consensus       228 el~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIckPgaip~d~r~~~~~~~~~~tk~~AlvEye~~~~A~KA~e~~  306 (484)
T KOG1855|consen  228 ELPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICKPGAIPEDVRGFPKKYFELQTKECALVEYEEVEAARKARELL  306 (484)
T ss_pred             ccccceEEEecCCcchHHHHHHHHhhcccceeeeeecCCCCCCcccccCCccchhhhhhhhhhhhhhhhHHHHHHHHhh
Confidence            3467899999999998889999999999 8998888764   211  1 1       25689999999999999988 5

>KOG0112|consensus

Probab=95.14  E-value=0.025  Score=47.16  Aligned_cols=76  Identities=16%  Similarity=0.222  Sum_probs=63.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v   98 (137)
                      ...+.++|++|..++....|..+|..| .|..|.+-.      ...|++|.|.+...++.|+. |-+ ..|++  +++.|
T Consensus       453 t~ttr~~sgglg~w~p~~~l~r~fd~fGpir~Idy~h------gq~yayi~yes~~~aq~a~~~~rg-ap~G~P~~r~rv  525 (975)
T KOG0112|consen  453 TPTTRLQSGGLGPWSPVSRLNREFDRFGPIRIIDYRH------GQPYAYIQYESPPAAQAATHDMRG-APLGGPPRRLRV  525 (975)
T ss_pred             ccceeeccCCCCCCChHHHHHHHhhccCcceeeeccc------CCcceeeecccCccchhhHHHHhc-CcCCCCCccccc
Confidence            455789999999999999999999999 777765532      23499999999999999999 999 88876  77999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.+..
T Consensus       526 dla~~~~  532 (975)
T KOG0112|consen  526 DLASPPG  532 (975)
T ss_pred             ccccCCC
Confidence            9987643

>KOG0128|consensus

Probab=95.06  E-value=0.0032  Score=51.85  Aligned_cols=66  Identities=29%  Similarity=0.486  Sum_probs=53.6

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD   92 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~   92 (137)
                      .++||.||+..+.+.+|...|..+ .+..+.+.....++..+|.|+++|...+.+.+++. ... ..+.
T Consensus       668 ~~~fvsnl~~~~~~~dl~~~~~~~~~~e~vqi~~h~n~~~~rG~~Y~~F~~~~~~~aaV~f~d~-~~~g  735 (881)
T KOG0128|consen  668 IKIFVSNLSPKMSEEDLSERFSPSGTIEVVQIVIHKNEKRFRGKAYVEFLKPEHAGAAVAFRDS-CFFG  735 (881)
T ss_pred             HHHHHhhcchhhcCchhhhhcCccchhhhHHHHHHhhccccccceeeEeecCCchhhhhhhhhh-hhhh
Confidence            579999999999999999999888 66655555455678889999999999999999988 443 4433

>KOG1996|consensus

Probab=94.61  E-value=0.12  Score=38.25  Aligned_cols=62  Identities=18%  Similarity=0.136  Sum_probs=47.6

Q ss_pred             HHHHhcCcCC-ceeEEEEeecCCCCCee-cEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         40 GDVERFFPEQ-KLVSVRLVKDKETDRFK-GFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        40 ~~l~~~f~~~-~i~~i~~~~~~~t~~~~-g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      +++....++| ++..|.+...+...... --.||+|...+++.+|+. |+| ..++|+.+...+..
T Consensus       301 de~keEceKyg~V~~viifeip~~p~deavRiFveF~r~e~aiKA~VdlnG-RyFGGr~v~A~Fyn  365 (378)
T KOG1996|consen  301 DETKEECEKYGKVGNVIIFEIPSQPEDEAVRIFVEFERVESAIKAVVDLNG-RYFGGRVVSACFYN  365 (378)
T ss_pred             HHHHHHHHhhcceeeEEEEecCCCccchhheeeeeeccHHHHHHHHHhcCC-ceecceeeeheecc
Confidence            4566667788 88888776665443333 347999999999999998 999 99999988877654

>KOG0804|consensus

Probab=94.44  E-value=0.18  Score=39.31  Aligned_cols=66  Identities=17%  Similarity=0.246  Sum_probs=56.8

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG   93 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g   93 (137)
                      ...|+|-.+|..++-.||..|...+  .|..+.+++|..  -++=.++|.|.+..+|..... +|| ..++.
T Consensus        74 ~~mLcilaVP~~mt~~Dll~F~~~~~~~I~~irivRd~~--pnrymvLIkFr~q~da~~Fy~efNG-k~Fn~  142 (493)
T KOG0804|consen   74 STMLCILAVPAYMTSHDLLRFCASFIKQISDIRIVRDGM--PNRYMVLIKFRDQADADTFYEEFNG-KQFNS  142 (493)
T ss_pred             CcEEEEEeccccccHHHHHHHHHHHhhhhheeEEeecCC--CceEEEEEEeccchhHHHHHHHcCC-CcCCC
Confidence            6789999999999999999999888  899999999643  233357999999999999999 999 87765

>KOG4676|consensus

Probab=93.75  E-value=0.1  Score=39.91  Aligned_cols=76  Identities=17%  Similarity=0.242  Sum_probs=56.4

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCC---CCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKE---TDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~---t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ..|.|.||.+.++.++++.+|.-. .|.++.|.....   -....-.|||-|.+.+.+..|.-|.. ..+-+..|.|..+
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp~~~d~~~pv~sRtcyVkf~d~~sv~vaQhLtn-tvfvdraliv~p~   86 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYPNVDDSKIPVISRTCYVKFLDSQSVTVAQHLTN-TVFVDRALIVRPY   86 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccCCCCCccCcceeeeEEEeccCCcceeHHhhhcc-ceeeeeeEEEEec
Confidence            378999999999999999999776 787776644221   12334589999999999998888666 6666666655554


Q ss_pred             C
Q psy13181        102 D  102 (137)
Q Consensus       102 ~  102 (137)
                      .
T Consensus        87 ~   87 (479)
T KOG4676|consen   87 G   87 (479)
T ss_pred             C
Confidence            3

>KOG0115|consensus

Probab=93.57  E-value=0.061  Score=38.85  Aligned_cols=58  Identities=22%  Similarity=0.178  Sum_probs=48.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL   84 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~   84 (137)
                      ..|+|.||...++.+.+...|+.| .|....++-|- .++..+-++|.|.+...+.+|+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~-r~k~t~eg~v~~~~k~~a~~a~r   90 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD-RGKPTREGIVEFAKKPNARKAAR   90 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc-cccccccchhhhhcchhHHHHHH
Confidence            789999999999999999999999 66655454443 36778889999999999999888

>KOG2202|consensus

Probab=92.84  E-value=0.037  Score=39.88  Aligned_cols=60  Identities=18%  Similarity=0.273  Sum_probs=44.0

Q ss_pred             HHHhcCc-CC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         41 DVERFFP-EQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        41 ~l~~~f~-~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ++...|. +| .|+++.+..+.. .--.|-++|.|..+++|++|+. |++ .-+.|++|.+.+..
T Consensus        84 d~f~E~~~kygEiee~~Vc~Nl~-~hl~GNVYV~f~~Ee~ae~a~~~lnn-Rw~~G~pi~ae~~p  146 (260)
T KOG2202|consen   84 DVFTELEDKYGEIEELNVCDNLG-DHLVGNVYVKFRSEEDAEAALEDLNN-RWYNGRPIHAELSP  146 (260)
T ss_pred             HHHHHHHHHhhhhhhhhhhcccc-hhhhhhhhhhcccHHHHHHHHHHHcC-ccccCCcceeeecC
Confidence            3444444 56 676665544321 2235678999999999999999 999 99999999998865

>KOG0112|consensus

Probab=92.32  E-value=0.025  Score=47.15  Aligned_cols=77  Identities=18%  Similarity=0.343  Sum_probs=59.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+||++||+..+++.+|+..|..+ .+.+|.+-..+. +.-.-++|+.|.+.+.+..++. +.+ ..|..-.+++.+.
T Consensus       371 atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKtP~~-~~esa~~f~~~~n~dmtp~ak~e~s~-~~I~~g~~r~glG  448 (975)
T KOG0112|consen  371 ATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKTPHI-KTESAYAFVSLLNTDMTPSAKFEESG-PLIGNGTHRIGLG  448 (975)
T ss_pred             hhhhhhhcCcccchhhhhhhhhhhhhccccccccccCCC-CcccchhhhhhhccccCcccchhhcC-CccccCccccccc
Confidence            45899999999999999999999999 888887755432 2223489999999988888887 888 6666555666655


Q ss_pred             C
Q psy13181        102 D  102 (137)
Q Consensus       102 ~  102 (137)
                      .
T Consensus       449 ~  449 (975)
T KOG0112|consen  449 Q  449 (975)
T ss_pred             c
Confidence            3

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional

Probab=92.22  E-value=1  Score=37.04  Aligned_cols=66  Identities=6%  Similarity=0.081  Sum_probs=44.2

Q ss_pred             eEEEc-CCCCCCCHHHHHhcCcCC------ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         27 TAFVG-NLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        27 ~l~v~-nlp~~~~e~~l~~~f~~~------~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .+||. +--..++..+|..++..-      .|-.|.+..        .|.||+... ..+...+. |.. ..+.+++|.|
T Consensus       488 ~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~~ig~i~i~~--------~~s~v~~~~-~~~~~~~~~~~~-~~~~~~~~~~  557 (629)
T PRK11634        488 LYRIEVGRDDGVEVRHIVGAIANEGDISSRYIGNIKLFA--------SHSTIELPK-GMPGEVLQHFTR-TRILNKPMNM  557 (629)
T ss_pred             EEEEecccccCCCHHHHHHHHHhhcCCChhhCCcEEEeC--------CceEEEcCh-hhHHHHHHHhcc-ccccCCceEE
Confidence            35542 334567777777776543      344555532        278888775 44667777 888 8999999999


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      +.+.
T Consensus       558 ~~~~  561 (629)
T PRK11634        558 QLLG  561 (629)
T ss_pred             EECC
Confidence            9875

>KOG2591|consensus

Probab=91.99  E-value=0.29  Score=39.19  Aligned_cols=72  Identities=17%  Similarity=0.228  Sum_probs=53.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcC--C-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCC-CeeecCeEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPE--Q-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDG-RITVDGLQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~--~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~-~~~l~g~~l~   97 (137)
                      ...+.|.|.-||..+.+++++.+|..  + .+..|.+-.+-       -=||+|++..+|+.|.+ |.- ...|.|++|.
T Consensus       173 ~kRcIvilREIpettp~e~Vk~lf~~encPk~iscefa~N~-------nWyITfesd~DAQqAykylreevk~fqgKpIm  245 (684)
T KOG2591|consen  173 HKRCIVILREIPETTPIEVVKALFKGENCPKVISCEFAHND-------NWYITFESDTDAQQAYKYLREEVKTFQGKPIM  245 (684)
T ss_pred             cceeEEEEeecCCCChHHHHHHHhccCCCCCceeeeeeecC-------ceEEEeecchhHHHHHHHHHHHHHhhcCcchh
Confidence            34466777999999999999999975  4 77777665432       35899999999999987 542 1567787776


Q ss_pred             EEec
Q psy13181         98 LDIA  101 (137)
Q Consensus        98 v~~a  101 (137)
                      .++.
T Consensus       246 ARIK  249 (684)
T KOG2591|consen  246 ARIK  249 (684)
T ss_pred             hhhh
Confidence            6653

>KOG2068|consensus

Probab=91.69  E-value=0.082  Score=39.50  Aligned_cols=78  Identities=19%  Similarity=0.322  Sum_probs=57.1

Q ss_pred             ceEEEcCCCCCCCHHHH---HhcCcCC-ceeEEEEeecCC--CC-CeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         26 YTAFVGNLPNGITQGDV---ERFFPEQ-KLVSVRLVKDKE--TD-RFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l---~~~f~~~-~i~~i~~~~~~~--t~-~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      .-+||-+|+.....+.+   ..+|.+| .|..|.+..+..  .. -..-.++|+|...+++..||. .++ ..++++.++
T Consensus        78 nlvyvvgl~~~~ade~~l~~~eyfgqygki~ki~~~~~~S~~s~~~~~~s~yITy~~~eda~rci~~v~g-~~~dg~~lk  156 (327)
T KOG2068|consen   78 NLVYVVGLPLDLADESVLERTEYFGQYGKINKIVKNKDPSSSSSSGGTCSVYITYEEEEDADRCIDDVDG-FVDDGRALK  156 (327)
T ss_pred             hhhhhhCCCccccchhhhhCcccccccccceEEeecCCcccccCCCCCCcccccccchHhhhhHHHHhhh-HHhhhhhhH
Confidence            45778888877655544   3457788 888888776552  11 112247999999999999999 999 999998888


Q ss_pred             EEecCCC
Q psy13181         98 LDIADGK  104 (137)
Q Consensus        98 v~~a~~~  104 (137)
                      +.+...+
T Consensus       157 a~~gttk  163 (327)
T KOG2068|consen  157 ASLGTTK  163 (327)
T ss_pred             HhhCCCc
Confidence            8877665

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=90.80  E-value=1.2  Score=25.84  Aligned_cols=57  Identities=21%  Similarity=0.406  Sum_probs=31.6

Q ss_pred             CCCCHHHHHhcCcCC------ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         35 NGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        35 ~~~~e~~l~~~f~~~------~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++..+|..++...      .|-.|.+..+        |+||+.... .+..++. |++ ..+.|+++.|+.|
T Consensus        11 dg~~~~~iv~~i~~~~gi~~~~IG~I~I~~~--------~S~vev~~~-~a~~v~~~l~~-~~~~gk~v~ve~A   74 (74)
T PF03880_consen   11 DGLTPRDIVGAICNEAGIPGRDIGRIDIFDN--------FSFVEVPEE-VAEKVLEALNG-KKIKGKKVRVERA   74 (74)
T ss_dssp             GT--HHHHHHHHHTCTTB-GGGEEEEEE-SS---------EEEEE-TT--HHHHHHHHTT---SSS----EEE-
T ss_pred             cCCCHHHHHHHHHhccCCCHHhEEEEEEeee--------EEEEEECHH-HHHHHHHHhcC-CCCCCeeEEEEEC
Confidence            456777787777543      4556666422        888888754 6777788 999 9999999999875

; PDB: 2G0C_A 3MOJ_B.

>KOG4660|consensus

Probab=90.75  E-value=0.49  Score=37.75  Aligned_cols=50  Identities=12%  Similarity=0.100  Sum_probs=37.7

Q ss_pred             EEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec----CeEEEEEecCC
Q psy13181         53 SVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD----GLQVRLDIADG  103 (137)
Q Consensus        53 ~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~----g~~l~v~~a~~  103 (137)
                      .+.++.|-.+..+-|||||.|.+.+.+..+.+ .|| ..+.    .+.+.+.||.-
T Consensus       418 FlYLPiDF~nkcNvGYAFINm~sp~ai~~F~kAFnG-k~W~~FnS~Kia~itYArI  472 (549)
T KOG4660|consen  418 FLYLPIDFKNKCNVGYAFINMTSPEAIIRFYKAFNG-KKWEKFNSEKIASITYARI  472 (549)
T ss_pred             eEEeccccccccccceeEEeecCHHHHHHHHHHHcC-Cchhhhcceeeeeeehhhh
Confidence            34566666677888999999999999999998 998 6553    25566666653

>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=90.69  E-value=2  Score=24.59  Aligned_cols=55  Identities=18%  Similarity=0.333  Sum_probs=40.5

Q ss_pred             CCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         35 NGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        35 ~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ..++-+|++..|..|...+|  ..++ |     --||.|.+..+|++|.. .++ ..+-...+.+
T Consensus        10 ~~~~v~d~K~~Lr~y~~~~I--~~d~-t-----GfYIvF~~~~Ea~rC~~~~~~-~~~f~y~m~M   65 (66)
T PF11767_consen   10 HGVTVEDFKKRLRKYRWDRI--RDDR-T-----GFYIVFNDSKEAERCFRAEDG-TLFFTYRMQM   65 (66)
T ss_pred             CCccHHHHHHHHhcCCcceE--EecC-C-----EEEEEECChHHHHHHHHhcCC-CEEEEEEEEe
Confidence            35677899999998844444  2333 2     45899999999999999 888 7777666554

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

>KOG4410|consensus

Probab=88.97  E-value=1.7  Score=32.22  Aligned_cols=47  Identities=17%  Similarity=0.252  Sum_probs=35.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCH
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDV   76 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~   76 (137)
                      ...-|+++||+.++.-.||+..+.+.  ....|.|-      -+.+-||+.|-+.
T Consensus       329 ~~~di~~~nl~rd~rv~dlk~~lr~~~~~pm~iswk------g~~~k~flh~~~~  377 (396)
T KOG4410|consen  329 AKTDIKLTNLSRDIRVKDLKSELRKRECTPMSISWK------GHFGKCFLHFGNR  377 (396)
T ss_pred             cccceeeccCccccchHHHHHHHHhcCCCceeEeee------cCCcceeEecCCc
Confidence            44679999999999999999998776  55555552      2456799999654

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=88.54  E-value=1.6  Score=30.19  Aligned_cols=59  Identities=19%  Similarity=0.223  Sum_probs=41.5

Q ss_pred             HHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC--CCeeecCeEEEEEecCCC
Q psy13181         39 QGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD--GRITVDGLQVRLDIADGK  104 (137)
Q Consensus        39 e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~--~~~~l~g~~l~v~~a~~~  104 (137)
                      ...|+++|..+ .+..+..+..      -+-..|.|.+.+.|..+.. |+  + ..+.+..++|-++...
T Consensus         9 ~~~l~~l~~~~~~~~~~~~L~s------FrRi~v~f~~~~~A~~~r~~l~~~~-~~~~g~~l~~yf~~~~   71 (184)
T PF04847_consen    9 LAELEELFSTYDPPVQFSPLKS------FRRIRVVFESPESAQRARQLLHWDG-TSFNGKRLRVYFGQPT   71 (184)
T ss_dssp             HHHHHHHHHTT-SS-EEEEETT------TTEEEEE-SSTTHHHHHHHTST--T-SEETTEE-EEE----S
T ss_pred             HHHHHHHHHhcCCceEEEEcCC------CCEEEEEeCCHHHHHHHHHHhcccc-cccCCCceEEEEcccc
Confidence            46788888888 6666655532      2358899999999999999 99  8 9999999999988543

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG4210|consensus

Probab=88.08  E-value=0.75  Score=34.06  Aligned_cols=82  Identities=24%  Similarity=0.284  Sum_probs=59.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ...++|++++...+.+.++..++... ......+.........++++.+.|...+.+..+|.+.+...+.+..+...+..
T Consensus        87 ~~~~~f~g~~s~~~e~~~~~~~~~~~g~~~~~~~S~~~~~~~sk~~~s~~f~~ks~~~~~l~~s~~~~~~~~~~~~dl~~  166 (285)
T KOG4210|consen   87 SSSTFFVGELSENIEESEDDNFSSEAGLRVDARSSSLEDSLSSKGGLSVHFAGKSQFFAALEESGSKVLDGNKGEKDLNT  166 (285)
T ss_pred             ccccccccccccchhhccccccchhhcCcccchhhhhccccccccceeeccccHHHHHHHHHhhhccccccccccCcccc
Confidence            46789999999999888777777666 44444444445567788999999999999999999655246666666666555


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      .+.
T Consensus       167 ~~~  169 (285)
T KOG4210|consen  167 RRG  169 (285)
T ss_pred             ccc
Confidence            433

>KOG2253|consensus

Probab=87.56  E-value=0.44  Score=38.82  Aligned_cols=71  Identities=20%  Similarity=0.248  Sum_probs=53.9

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      .+.++..++||+|+...+..+-+...+..+ .+..+..         -.|+|+.|........++. ++. ..+++..+.
T Consensus        35 ~~~~~~~~vfv~~~~~~~s~~~~~~il~~~g~v~s~kr---------~~fgf~~f~~~~~~~ra~r~~t~-~~~~~~kl~  104 (668)
T KOG2253|consen   35 QPLPPRDTVFVGNISYLVSQEFWKSILAKSGFVPSWKR---------DKFGFCEFLKHIGDLRASRLLTE-LNIDDQKLI  104 (668)
T ss_pred             cCCCCCceeEecchhhhhhHHHHHHHHhhCCcchhhhh---------hhhcccchhhHHHHHHHHHHhcc-cCCCcchhh
Confidence            334567899999999999999888887766 4433211         1289999999998888888 887 888887766


Q ss_pred             EEe
Q psy13181         98 LDI  100 (137)
Q Consensus        98 v~~  100 (137)
                      +..
T Consensus       105 ~~~  107 (668)
T KOG2253|consen  105 ENV  107 (668)
T ss_pred             ccc
Confidence            655

>KOG4285|consensus

Probab=86.86  E-value=2.7  Score=31.40  Aligned_cols=71  Identities=18%  Similarity=0.209  Sum_probs=48.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCe-EEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGL-QVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~-~l~v~~a~~  103 (137)
                      .=|.|-++|+.-.. -|...|.+| .|.+....      ..-.+-+|.|.+..++++||..++ ..|++. .|-|..+..
T Consensus       198 ~WVTVfGFppg~~s-~vL~~F~~cG~Vvkhv~~------~ngNwMhirYssr~~A~KALskng-~ii~g~vmiGVkpCtD  269 (350)
T KOG4285|consen  198 TWVTVFGFPPGQVS-IVLNLFSRCGEVVKHVTP------SNGNWMHIRYSSRTHAQKALSKNG-TIIDGDVMIGVKPCTD  269 (350)
T ss_pred             ceEEEeccCccchh-HHHHHHHhhCeeeeeecC------CCCceEEEEecchhHHHHhhhhcC-eeeccceEEeeeecCC
Confidence            33555567665443 356678888 77665443      223489999999999999999999 888774 355555444


Q ss_pred             C
Q psy13181        104 K  104 (137)
Q Consensus       104 ~  104 (137)
                      +
T Consensus       270 k  270 (350)
T KOG4285|consen  270 K  270 (350)
T ss_pred             H
Confidence            3

>KOG2135|consensus

Probab=86.53  E-value=0.4  Score=37.62  Aligned_cols=72  Identities=13%  Similarity=0.170  Sum_probs=56.4

Q ss_pred             CceEEEcCCCCCCC-HHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGIT-QGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~-e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      .+.+-+.-.|+... .++|...|-+| .|..|.+-..      ...|.|+|.+..++-.|...++ ..|+++.|+|.|-+
T Consensus       372 hs~l~lek~~~glnt~a~ln~hfA~fG~i~n~qv~~~------~~~a~vTF~t~aeag~a~~s~~-avlnnr~iKl~whn  444 (526)
T KOG2135|consen  372 HSPLALEKSPFGLNTIADLNPHFAQFGEIENIQVDYS------SLHAVVTFKTRAEAGEAYASHG-AVLNNRFIKLFWHN  444 (526)
T ss_pred             cchhhhhccCCCCchHhhhhhhhhhcCccccccccCc------hhhheeeeeccccccchhcccc-ceecCceeEEEEec
Confidence            34455555566544 47888999999 9999887543      3379999999998877777888 99999999999977


Q ss_pred             C
Q psy13181        103 G  103 (137)
Q Consensus       103 ~  103 (137)
                      +
T Consensus       445 p  445 (526)
T KOG2135|consen  445 P  445 (526)
T ss_pred             C
Confidence            6

>KOG4483|consensus

Probab=86.42  E-value=1.7  Score=33.68  Aligned_cols=55  Identities=20%  Similarity=0.275  Sum_probs=46.7

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHh
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK   85 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l   85 (137)
                      -.+.|-|-++|...-.+||...|+.|  .--+|.|+-+.       ++|.+|.+...|..||.+
T Consensus       390 lpHVlEIydfp~efkteDll~~f~~yq~kgfdIkWvDdt-------halaVFss~~~AaeaLt~  446 (528)
T KOG4483|consen  390 LPHVLEIYDFPDEFKTEDLLKAFETYQNKGFDIKWVDDT-------HALAVFSSVNRAAEALTL  446 (528)
T ss_pred             ccceeEeccCchhhccHHHHHHHHHhhcCCceeEEeecc-------eeEEeecchHHHHHHhhc
Confidence            35788899999999999999999998  56677777653       899999999999999873

>PF15023 DUF4523: Protein of unknown function (DUF4523)

Probab=83.61  E-value=7.3  Score=26.04  Aligned_cols=69  Identities=19%  Similarity=0.152  Sum_probs=44.7

Q ss_pred             CCCceEEEcCCCCCCCH----HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         23 EPPYTAFVGNLPNGITQ----GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e----~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      ++-.+|.|.=|...+..    ..+...++.| .|..|.+.     |  +..|.|+|.+..+|=.|+. ++.  ...|..+
T Consensus        84 pPMsTIVVRWlkknm~~~edl~sV~~~Ls~fGpI~SVT~c-----G--rqsavVvF~d~~SAC~Av~Af~s--~~pgtm~  154 (166)
T PF15023_consen   84 PPMSTIVVRWLKKNMQPTEDLKSVIQRLSVFGPIQSVTLC-----G--RQSAVVVFKDITSACKAVSAFQS--RAPGTMF  154 (166)
T ss_pred             CCceeEEeehhhhcCChHHHHHHHHHHHHhcCCcceeeec-----C--CceEEEEehhhHHHHHHHHhhcC--CCCCceE
Confidence            34467777755544433    3445556677 78777664     2  3379999999999988888 664  3345555


Q ss_pred             EEEe
Q psy13181         97 RLDI  100 (137)
Q Consensus        97 ~v~~  100 (137)
                      .+.+
T Consensus       155 qCsW  158 (166)
T PF15023_consen  155 QCSW  158 (166)
T ss_pred             Eeec
Confidence            5555

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	137
2dng_A	103	Solution Structure Of Rna Binding Domain In Eukaryo		4e-25
1wi8_A	104	Solution Structure Of The Rna Binding Domain Of Euk		1e-08
2j76_E	100	Solution Structure And Rna Interactions Of The Rna		3e-08
1x5s_A	102	Solution Structure Of Rrm Domain In A18 Hnrnp Lengt		5e-08
2dh7_A	105	Solution Structure Of The Second Rna Binding Domain		3e-05
2dgo_A	115	Solution Structure Of The Rna Binding Domain In Cyt		7e-05
1p1t_A	104	Nmr Structure Of The N-Terminal Rrm Domain Of Cleav		9e-05
2e5h_A	94	Solution Structure Of Rna Binding Domain In Zinc Fi		9e-05
2fc8_A	102	Solution Structure Of The Rrm_1 Domain Of Ncl Prote		1e-04
4f02_A	213	Crystal Structure Of The Pabp-Binding Site Of Eif4g		3e-04
1cvj_A	190	X-Ray Crystal Structure Of The Poly(A)-Binding Prot		6e-04
2jrs_A	108	Solution Nmr Structure Of Caper Rrm2 Domain. Northe		7e-04

>pdb|2DNG|A Chain A, Solution Structure Of Rna Binding Domain In Eukaryotic Translation Initiation Factor 4h Length = 103

Iteration: 1
 Score =  109 bits (273), Expect = 4e-25,   Method: Compositional matrix adjust.
 Identities = 52/97 (53%), Positives = 72/97 (74%), Gaps = 1/97 (1%)
Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
           G + K LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF
Sbjct: 4   GSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF 63
Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKG 110
            +V++L++AL  DG +  D   +R+DIA+G++ D  G
Sbjct: 64  DEVDSLKEALTYDGALLGD-RSLRVDIAEGRKQDKSG 99

>pdb|1WI8|A Chain A, Solution Structure Of The Rna Binding Domain Of Eukaryotic Initiation Factor 4b Length = 104

Iteration: 1
 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 31/92 (33%), Positives = 53/92 (57%), Gaps = 2/92 (2%)
Query: 20  LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFVDVEN 78
           LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    +R KGF Y EF +  +
Sbjct: 10  LPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF-EDLD 68
Query: 79  LRQALLKDGRITVDGLQVRLDIADGKRNDNKG 110
              + L     ++   ++R+D+AD  ++ + G
Sbjct: 69  SLLSALSLNEESLGNKRIRVDVADQAQDKDSG 100

>pdb|2J76|E Chain E, Solution Structure And Rna Interactions Of The Rna Recognition Motif From Eukaryotic Translation Initiation Factor 4b Length = 100

Iteration: 1
 Score = 53.9 bits (128), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 30/84 (35%), Positives = 49/84 (58%), Gaps = 2/84 (2%)
Query: 20  LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKE-TDRFKGFCYVEFVDVEN 78
           LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    +R KGF Y EF +  +
Sbjct: 14  LPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEF-EDLD 72
Query: 79  LRQALLKDGRITVDGLQVRLDIAD 102
              + L     ++   ++R+D+AD
Sbjct: 73  SLLSALSLNEESLGNRRIRVDVAD 96

>pdb|1X5S|A Chain A, Solution Structure Of Rrm Domain In A18 Hnrnp Length = 102

Iteration: 1
 Score = 53.1 bits (126), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 31/84 (36%), Positives = 52/84 (61%), Gaps = 2/84 (2%)
Query: 29  FVGNLPNGITQGDVERFFPEQKLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG L     +  +E+ F +   +S V +VKD+ET R +GF +V F ++++ + A++   
Sbjct: 16  FVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN 75
Query: 88  RITVDGLQVRLDIADGKRNDNKGG 111
             +VDG Q+R+D A GK +DN+ G
Sbjct: 76  GKSVDGRQIRVDQA-GKSSDNRSG 98

>pdb|2DH7|A Chain A, Solution Structure Of The Second Rna Binding Domain In Nucleolysin Tiar Length = 105

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/77 (32%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 26  YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FVG+L   IT  D++  F P  K+   R+VKD  T + KG+ +V F +  +   A++
Sbjct: 16  FHVFVGDLSPEITTEDIKSAFAPFGKISDARVVKDMATGKSKGYGFVSFYNKLDAENAIV 75
Query: 85  KDGRITVDGLQVRLDIA 101
             G   + G Q+R + A
Sbjct: 76  HMGGQWLGGRQIRTNWA 92

>pdb|2DGO|A Chain A, Solution Structure Of The Rna Binding Domain In Cytotoxic Granule-Associated Rna Binding Protein 1 Length = 115

Iteration: 1
 Score = 42.4 bits (98), Expect = 7e-05,   Method: Compositional matrix adjust.
 Identities = 24/77 (31%), Positives = 41/77 (53%), Gaps = 1/77 (1%)
Query: 26  YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FVG+L   IT  D++  F P  ++   R+VKD  T + KG+ +V F +  +   A+ 
Sbjct: 16  FHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQ 75
Query: 85  KDGRITVDGLQVRLDIA 101
           + G   + G Q+R + A
Sbjct: 76  QMGGQWLGGRQIRTNWA 92

>pdb|1P1T|A Chain A, Nmr Structure Of The N-Terminal Rrm Domain Of Cleavage Stimulation Factor 64 Kda Subunit Length = 104

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 27/81 (33%), Positives = 43/81 (53%), Gaps = 1/81 (1%)
Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           + FVGN+P   T+  ++  F E   +VS RLV D+ET + KG+ + E+ D E    A+  
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69
Query: 86  DGRITVDGLQVRLDIADGKRN 106
                  G  +R+D A  ++N
Sbjct: 70  LNGREFSGRALRVDNAASEKN 90

>pdb|2E5H|A Chain A, Solution Structure Of Rna Binding Domain In Zinc Finger Cchc-Type And Rna Binding Motif 1 Length = 94

Iteration: 1
 Score = 42.0 bits (97), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 1/50 (2%)
Query: 27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVD 75
          T +V NLP  +T  D+ R F +  K+V V ++KDK+T + KG  ++ F+D
Sbjct: 18 TVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLD 67

>pdb|2FC8|A Chain A, Solution Structure Of The Rrm_1 Domain Of Ncl Protein Length = 102

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 29/82 (35%), Positives = 43/82 (52%), Gaps = 6/82 (7%)
Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           ++P  T FV  L    T+  ++  F     V  R+V D+ET   KGF +V+F   E+ + 
Sbjct: 12  SQPSKTLFVKGLSEDTTEETLKESF--DGSVRARIVTDRETGSSKGFGFVDFNSEEDAKA 69
Query: 82  A--LLKDGRITVDGLQVRLDIA 101
           A   ++DG I  DG +V LD A
Sbjct: 70  AKEAMEDGEI--DGNKVTLDWA 89

>pdb|4F02|A Chain A, Crystal Structure Of The Pabp-Binding Site Of Eif4g In Complex With Rrm1-2 Of Pabp And Poly(A) Length = 213

Iteration: 1
 Score = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 27/102 (26%), Positives = 48/102 (47%), Gaps = 1/102 (0%)
Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVE 72
           G    + P+ P  + +VG+L   +T+  + E+F P   ++S+R+ +D  T R  G+ YV 
Sbjct: 4   GSMNPSAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVN 63
Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           F    +  +AL       + G  VR+  +    +  K G  N
Sbjct: 64  FQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 105

>pdb|1CVJ|A Chain A, X-Ray Crystal Structure Of The Poly(A)-Binding Protein In Complex With Polyadenylate Rna Length = 190

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 1/97 (1%)
Query: 19  TLPTEPPYTAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
           + P+ P  + +VG+L   +T+  + E+F P   ++S+R+ +D  T R  G+ YV F    
Sbjct: 4   SAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA 63
Query: 78  NLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           +  +AL       + G  VR+  +    +  K G  N
Sbjct: 64  DAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 100

>pdb|2JRS|A Chain A, Solution Nmr Structure Of Caper Rrm2 Domain. Northeast Structural Genomics Target Hr4730a Length = 108

Iteration: 1
 Score = 39.3 bits (90), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 21/60 (35%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 25 PYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          P   +VG+L   IT+  +   F P  ++ S++L+ D ET R KG+ ++ F D E  ++AL
Sbjct: 26 PMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKAL 85

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	137
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	3e-34
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	5e-32
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	6e-31
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	4e-22
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	7e-20
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	1e-17
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	5e-17
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	9e-16
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	1e-15
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	1e-15
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	2e-15
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	2e-15
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	3e-15
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	5e-15
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	7e-15
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	1e-14
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	3e-10
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	1e-14
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	2e-14
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	2e-14
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	3e-14
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	3e-14
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	4e-14
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	5e-14
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	7e-14
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	7e-14
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	3e-08
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	7e-14
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	8e-14
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	9e-14
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	9e-14
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-09
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	3e-13
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-13
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	5e-13
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	5e-13
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	8e-12
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	6e-13
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	7e-13
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	8e-13
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-12
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	2e-12
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-12
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	3e-10
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	3e-12
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	4e-12
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	8e-12
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	8e-12
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	8e-12
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	9e-12
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	1e-11
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	1e-11
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	2e-11
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	2e-11
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	3e-11
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	3e-11
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	4e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	5e-11
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	6e-11
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	5e-11
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	6e-11
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	6e-11
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	7e-11
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	7e-11
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	8e-11
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	1e-10
2div_A	99	TRNA selenocysteine associated protein; structural	2e-10
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	2e-10
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-10
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	1e-08
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	2e-10
2dis_A	109	Unnamed protein product; structural genomics, RRM	2e-10
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	2e-10
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	3e-10
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	3e-10
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	4e-10
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	7e-10
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	8e-10
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	1e-09
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	1e-09
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	2e-09
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	2e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-09
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	3e-06
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	4e-06
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	2e-09
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	2e-09
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-07
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	9e-07
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	3e-09
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	3e-09
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	3e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	3e-09
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	4e-08
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	3e-09
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	3e-06
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	3e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-09
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	2e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	8e-09
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	1e-08
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	1e-08
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	1e-08
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	2e-08
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	2e-08
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	2e-08
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	3e-08
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	3e-08
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	5e-08
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	6e-08
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	6e-08
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	3e-04
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	6e-08
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	6e-08
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	9e-08
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	1e-07
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	1e-07
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	1e-07
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	1e-07
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	2e-07
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	2e-07
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	2e-07
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	3e-07
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	3e-07
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	4e-07
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	5e-07
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	5e-07
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	7e-07
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	8e-07
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	9e-07
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	1e-06
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	1e-06
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	1e-06
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	1e-06
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	1e-06
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-06
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	3e-06
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	3e-06
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	3e-06
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	3e-06
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	3e-06
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	4e-06
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	5e-06
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-06
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	5e-06
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	5e-06
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	5e-06
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	6e-06
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	6e-06
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	9e-06
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	1e-05
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	1e-05
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	1e-05
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	1e-05
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	2e-05
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	5e-05
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	6e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	2e-04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	1e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	1e-04
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	2e-04
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	2e-04
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	2e-04
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	3e-04
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	3e-04
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	4e-04
1x5o_A	114	RNA binding motif, single-stranded interacting pro	5e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-04
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	5e-04
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	5e-04

>2dng_A Eukaryotic translation initiation factor 4H; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus} Length = 103

 Score =  114 bits (287), Expect = 3e-34
 Identities = 51/98 (52%), Positives = 71/98 (72%), Gaps = 1/98 (1%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
           G + K LPTEPPYTA+VGNLP    QGD++  F +  + SVRLV+DK+TD+FKGFCYVEF
Sbjct: 4   GSSGKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEF 63

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
            +V++L++AL  DG   +    +R+DIA+G++ D  G 
Sbjct: 64  DEVDSLKEALTYDGA-LLGDRSLRVDIAEGRKQDKSGP 100

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score =  108 bits (272), Expect = 5e-32
 Identities = 35/99 (35%), Positives = 59/99 (59%), Gaps = 2/99 (2%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDK-ETDRFKGFCYVE 72
           G +   LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    +R KGF Y E
Sbjct: 4   GSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAE 63

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           F D+++L  AL  +   ++   ++R+D+AD  ++ + G 
Sbjct: 64  FEDLDSLLSALSLNEE-SLGNKRIRVDVADQAQDKDSGP 101

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens} Length = 100

 Score =  105 bits (265), Expect = 6e-31
 Identities = 33/96 (34%), Positives = 58/96 (60%), Gaps = 2/96 (2%)

Query: 12  RYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKET-DRFKGFCY 70
            +  ++  LP  PPYTAF+GNLP  +T+  ++ FF    + +VRL ++    +R KGF Y
Sbjct: 6   HHHHHRSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGY 65

Query: 71  VEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
            EF D+++L  AL  +   ++   ++R+D+AD  ++
Sbjct: 66  AEFEDLDSLLSALSLNEE-SLGNRRIRVDVADQAQD 100

>1fj7_A Nucleolin RBD1, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 101

 Score = 83.1 bits (206), Expect = 4e-22
 Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 2/90 (2%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
            +  P+  F+GNL    +  +++    E    +   V D  T   + F YV+F   E+L 
Sbjct: 13  ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLE 72

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKG 110
           +AL   G   V G +++L+     R+  +G
Sbjct: 73  KALELTGL-KVFGNEIKLEKPK-GRDGTRG 100

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 77.7 bits (192), Expect = 7e-20
 Identities = 27/106 (25%), Positives = 50/106 (47%), Gaps = 2/106 (1%)

Query: 2   ADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDK 60
           +  S G  P R   +  +       T F   L   I   D+E FF    K+  VR++ D+
Sbjct: 2   SSGSSGKSPVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDR 61

Query: 61  ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
            + R KG  YVEF +++++  A+   G+  + G+ + +  +  ++N
Sbjct: 62  NSRRSKGIAYVEFCEIQSVPLAIGLTGQ-RLLGVPIIVQASQAEKN 106

>2dnn_A RNA-binding protein 12; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 109

 Score = 72.1 bits (177), Expect = 1e-17
 Identities = 26/109 (23%), Positives = 44/109 (40%), Gaps = 3/109 (2%)

Query: 13  YGRNQKTLPTEP-PYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYV 71
            G + K LP  P      V  +P    + DV  FF   ++ +V L+KD    R  G   V
Sbjct: 3   SGSSGKPLPINPDDLYVSVHGMPFSAMENDVRDFFHGLRVDAVHLLKDHVG-RNNGNGLV 61

Query: 72  EFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGG 120
           +F+  ++  +AL ++    +    V +  A  ++    GG        G
Sbjct: 62  KFLSPQDTFEALKRNRM-LMIQRYVEVSPATERQWVAAGGHITSGPSSG 109

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 124

 Score = 71.0 bits (174), Expect = 5e-17
 Identities = 25/125 (20%), Positives = 48/125 (38%), Gaps = 4/125 (3%)

Query: 2   ADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKD 59
           +  S G  P    R++   P E  +  ++  LP       V  FF +  +V  S+ +   
Sbjct: 2   SSGSSGKSPSGQKRSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYG 61

Query: 60  KETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRG 119
               +  G  +VEF +  + + AL +  +  +    +++     K    K     K+ + 
Sbjct: 62  P-NGKATGEGFVEFRNEADYKAALCRHKQ-YMGNRFIQVHPITKKGMLEKIDMIRKRLQS 119

Query: 120 GGSGG 124
           G S G
Sbjct: 120 GPSSG 124

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 67.0 bits (164), Expect = 9e-16
 Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 1/75 (1%)

Query: 14 GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
          G +  +  +   +   +  LP   T+ D+  FF     + V +    +  R  G   VEF
Sbjct: 4  GSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDG-RVTGEADVEF 62

Query: 74 VDVENLRQALLKDGR 88
             E+   A+ KD  
Sbjct: 63 ATHEDAVAAMAKDKA 77

>2dgw_A Probable RNA-binding protein 19; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 91

 Score = 66.2 bits (162), Expect = 1e-15
 Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 1/65 (1%)

Query: 23 EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
             +T  +   P  +T+ +V  F    K V++R+V++       G+ +V+F + E ++QA
Sbjct: 8  TTCHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRNAHG-NKTGYIFVDFSNEEEVKQA 66

Query: 83 LLKDG 87
          L  + 
Sbjct: 67 LKCNR 71

>2dgo_A Cytotoxic granule-associated RNA binding protein 1; RRM domain, structural genomics, NPPSFA; NMR {Mus musculus} PDB: 2rne_A 2dh7_A Length = 115

 Score = 67.0 bits (164), Expect = 1e-15
 Identities = 30/112 (26%), Positives = 52/112 (46%), Gaps = 1/112 (0%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G + +   T   +  FVG+L   IT  D++  F    ++   R+VKD  T + KG+ +V 
Sbjct: 4   GSSGQKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVS 63

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           F +  +   A+ + G   + G Q+R + A  K    K  + +   + G S G
Sbjct: 64  FFNKWDAENAIQQMGGQWLGGRQIRTNWATRKPPAPKSTYESNTKQSGPSSG 115

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 66.1 bits (162), Expect = 2e-15
 Identities = 14/95 (14%), Positives = 41/95 (43%), Gaps = 1/95 (1%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
           P    ++G++P   T+  +         +++++++ D +T R KG+ ++EF D+E+   A
Sbjct: 1   PSRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASA 60

Query: 83  LLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQN 117
           +       +    ++   +           ++  +
Sbjct: 61  VRNLNGYQLGSRFLKCGYSSNSDISGVSLEHHHHH 95

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A Length = 89

 Score = 65.6 bits (161), Expect = 2e-15
 Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 2/84 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
               + +VGN+  G T  ++E  F     +  V ++ DK +   KGF Y+EF D E++R 
Sbjct: 4   ADARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRT 63

Query: 82  ALLKDGRITVDGLQVRLDIADGKR 105
           +L  D      G Q+++      R
Sbjct: 64  SLALDES-LFRGRQIKVIPKRTNR 86

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A Length = 139

 Score = 66.4 bits (162), Expect = 3e-15
 Identities = 25/118 (21%), Positives = 41/118 (34%), Gaps = 8/118 (6%)

Query: 9   YPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGF 68
                G ++ T+ +   +   +  LP   T+ D+  FF     V V +    +  R  G 
Sbjct: 30  MGRGSGDSEFTVQSTTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPD-GRVTGE 88

Query: 69  CYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMG 126
             VEF   E    A+ KD    +    + L +       +  G +N         GMG
Sbjct: 89  ADVEFATHEEAVAAMSKDRA-NMQHRYIELFLN------STTGASNGAYSSQVMQGMG 139

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 65.5 bits (160), Expect = 5e-15
 Identities = 20/113 (17%), Positives = 45/113 (39%), Gaps = 4/113 (3%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYV 71
           G + +         A + N+P  IT+ DV +F     +   +V ++ D    +  G   V
Sbjct: 4   GSSGEGDVNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNG-QGLGQALV 62

Query: 72  EFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           +F + ++ R++     +  ++G +  + +   +           Q + G S G
Sbjct: 63  QFKNEDDARKSERLHRK-KLNGREAFVHVVTLEDMREIEKNPPAQGKSGPSSG 114

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 64.7 bits (158), Expect = 7e-15
 Identities = 17/88 (19%), Positives = 34/88 (38%), Gaps = 7/88 (7%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPE---QKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
                 T  + N+        +           + ++RL+KDK+T + +GF +V+     
Sbjct: 5   HHHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAM 64

Query: 78  NLRQAL----LKDGRITVDGLQVRLDIA 101
           +  Q L         + +DG  + +D A
Sbjct: 65  DASQLLQILQSLHPPLKIDGKTIGVDFA 92

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 66.5 bits (163), Expect = 1e-14
 Identities = 17/102 (16%), Positives = 45/102 (44%), Gaps = 2/102 (1%)

Query: 16  NQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFV 74
           +Q+          FVG +     +  +  +F +  K+  + ++ D+ + + +GF +V F 
Sbjct: 95  SQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFD 154

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQ 116
           D +++ + +++    TV+G    +  A  K+       + + 
Sbjct: 155 DHDSVDKIVIQKY-HTVNGHNCEVRKALSKQEMASASSSQRG 195

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 54.2 bits (131), Expect = 3e-10
 Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 4/92 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+G L    T   +   F EQ   L    +++D  T R +GF +V +  VE +  A+   
Sbjct: 17  FIGGLSFETTDESLRSHF-EQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNAR 75

Query: 87  GRITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
               VDG  V    A  + +  + G +    +
Sbjct: 76  PH-KVDGRVVEPKRAVSREDSQRPGAHLTVKK 106

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A Length = 129

 Score = 64.4 bits (157), Expect = 1e-14
 Identities = 22/97 (22%), Positives = 45/97 (46%), Gaps = 1/97 (1%)

Query: 10  PERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGF 68
                        +P     V  L    T+ D+   F +   +  V +V D+++ R +GF
Sbjct: 31  GRGSRHVGNRANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGF 90

Query: 69  CYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKR 105
            +V F +V++ ++A  +   + +DG ++R+D +  KR
Sbjct: 91  AFVYFENVDDAKEAKERANGMELDGRRIRVDFSITKR 127

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 63.4 bits (155), Expect = 2e-14
 Identities = 21/90 (23%), Positives = 39/90 (43%), Gaps = 1/90 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           +   T  V NL    +   + R F +  ++  V + ++  T   +GF +V F D  + + 
Sbjct: 11  DGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQD 70

Query: 82  ALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           A        +DG ++R+ +A   R D  G 
Sbjct: 71  AEAAMDGAELDGRELRVQVARYGRRDLSGP 100

>2jwn_A Embryonic polyadenylate-binding protein 2-B; epabp2, poly(A) binding, structural genomics, protein structure initiative, PSI-2; NMR {Xenopus laevis} Length = 124

 Score = 64.0 bits (156), Expect = 2e-14
 Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 1/63 (1%)

Query: 26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           + +VGN+  G T  D+E  F     +  + ++ DK +   KG+ Y+EF +  ++  A+ 
Sbjct: 37 RSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVA 96

Query: 85 KDG 87
           D 
Sbjct: 97 MDE 99

>2fc8_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 102

 Score = 63.0 bits (154), Expect = 3e-14
 Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 4/99 (4%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
           G +     ++P  T FV  L    T+  ++  F     V  R+V D+ET   KGF +V+F
Sbjct: 4   GSSGPNARSQPSKTLFVKGLSEDTTEETLKESFDG--SVRARIVTDRETGSSKGFGFVDF 61

Query: 74  VDVENLRQALLK-DGRITVDGLQVRLDIADGKRNDNKGG 111
              E+ + A    +    +DG +V LD A  K     G 
Sbjct: 62  NSEEDAKAAKEAMEDG-EIDGNKVTLDWAKPKGEGGSGP 99

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP} Length = 158

 Score = 64.5 bits (157), Expect = 3e-14
 Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           E   +  V NL    +   + R F +  ++  V + +D+ T   +GF +V F D  +   
Sbjct: 68  EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAED 127

Query: 82  ALLK-DGRITVDGLQVRLDIADGKRNDN 108
           A+   DG   +DG ++R+ +A   R  +
Sbjct: 128 AMDAMDGA-VLDGRELRVQMARYGRPPD 154

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A Length = 126

 Score = 63.4 bits (154), Expect = 4e-14
 Identities = 19/80 (23%), Positives = 35/80 (43%), Gaps = 3/80 (3%)

Query: 11  ERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGF 68
           ++ GR   +  +       +  LP G T+ ++ +FF   ++V   + L  D E  +  G 
Sbjct: 28  QQMGRGSNSADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPEG-KITGE 86

Query: 69  CYVEFVDVENLRQALLKDGR 88
            +V+F   E   +AL K   
Sbjct: 87  AFVQFASQELAEKALGKHKE 106

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X Length = 156

 Score = 63.7 bits (155), Expect = 5e-14
 Identities = 28/124 (22%), Positives = 48/124 (38%), Gaps = 8/124 (6%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEF 73
             ++    +   T +VGNL    T+  +   F +   +  + +  DK      GFC+VE+
Sbjct: 29  NEEQEKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEY 88

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQH 133
               +   A+       +D   +R D   G +         +Q   G SGG   ++Y Q 
Sbjct: 89  YSRADAENAMRYINGTRLDDRIIRTDWDAGFK-------EGRQYGRGRSGGQVRDEYRQD 141

Query: 134 QDKG 137
            D G
Sbjct: 142 YDAG 145

>2dnz_A Probable RNA-binding protein 23; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 95

 Score = 61.8 bits (151), Expect = 7e-14
 Identities = 24/94 (25%), Positives = 46/94 (48%), Gaps = 3/94 (3%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
           +      +VG+L   IT+  +   F    K+ ++ L+KD +T R KG+ ++ F D E  R
Sbjct: 2   SSGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECAR 61

Query: 81  QALLK-DGRITVDGLQVRLDIADGKRNDNKGGFN 113
           +AL + +G   + G  +R+     + +   G  +
Sbjct: 62  RALEQLNGF-ELAGRPMRVGHVTERLDGGSGPSS 94

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 63.7 bits (156), Expect = 7e-14
 Identities = 15/83 (18%), Positives = 37/83 (44%), Gaps = 2/83 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           +     FVG +   +   + E FF +   ++  +L+ DK+T + +GF +V +   + + +
Sbjct: 85  DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDR 144

Query: 82  ALLKDGRITVDGLQVRLDIADGK 104
                  I     ++ +  A+ +
Sbjct: 145 VCQNKF-IDFKDRKIEIKRAEPR 166

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C Length = 167

 Score = 48.7 bits (117), Expect = 3e-08
 Identities = 17/85 (20%), Positives = 40/85 (47%), Gaps = 5/85 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+G L    T+ ++  +F  +   +  ++++KD  T R +GF ++ F    ++ + +   
Sbjct: 7   FIGGLNWDTTEDNLREYF-GKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT- 64

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
            +  +DG  +    A  +   +K G
Sbjct: 65  -QHILDGKVIDPKRAIPRDEQDKTG 88

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 61.9 bits (151), Expect = 7e-14
 Identities = 27/90 (30%), Positives = 44/90 (48%), Gaps = 1/90 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
               + FVGN+P   T+  ++  F E   +VS RLV D+ET + KG+ + E+ D E    
Sbjct: 6   RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALS 65

Query: 82  ALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           A+         G  +R+D A  ++N  +  
Sbjct: 66  AMRNLNGREFSGRALRVDNAASEKNKEELK 95

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 62.0 bits (151), Expect = 8e-14
 Identities = 21/96 (21%), Positives = 41/96 (42%), Gaps = 7/96 (7%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                T F+ NL     +  +     +   L  VR+V   +T+  KG  + +F+  E  +
Sbjct: 12  VTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQ 71

Query: 81  QAL------LKDGRITVDGLQVRLDIADGKRNDNKG 110
           + L       + G + +DG Q+++D+A  +     G
Sbjct: 72  KCLAAASLEAEGGGLKLDGRQLKVDLAVTRDEAASG 107

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 61.9 bits (151), Expect = 9e-14
 Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 5/102 (4%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKE-TDRFKGFCYV 71
           G + +    +      V N+P    Q ++   F    +L +VRL K    T   +GF +V
Sbjct: 4   GSSGQVPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFV 63

Query: 72  EFVDVENLRQAL--LKDGRITVDGLQVRLDIADGKRNDNKGG 111
           +F+  ++ ++A   L      + G ++ L+ AD +     G 
Sbjct: 64  DFITKQDAKKAFNALCHST-HLYGRRLVLEWADSEVTVQSGP 104

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 63.4 bits (155), Expect = 9e-14
 Identities = 23/99 (23%), Positives = 40/99 (40%), Gaps = 1/99 (1%)

Query: 4   YSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKET 62
             + G   +  R     P    +  F+G LPN +    V+        L +  LVKD  T
Sbjct: 73  IIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSAT 132

Query: 63  DRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA 101
              KG+ + E+VD+    QA+     + +   ++ +  A
Sbjct: 133 GLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA 171

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A Length = 172

 Score = 51.1 bits (123), Expect = 5e-09
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 7/75 (9%)

Query: 29 FVGNLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
          +VGN+P GIT+  +  FF  Q             V   + ++ K F ++EF  V+   QA
Sbjct: 8  YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 67

Query: 83 LLKDGRITVDGLQVR 97
          +  DG I   G  ++
Sbjct: 68 MAFDG-IIFQGQSLK 81

>2e5h_A Zinc finger CCHC-type and RNA-binding motif- containing protein 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 60.3 bits (147), Expect = 3e-13
 Identities = 23/81 (28%), Positives = 43/81 (53%), Gaps = 3/81 (3%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
               T +V NLP  +T  D+ R F +  K+V V ++KDK+T + KG  ++ F+D ++ + 
Sbjct: 14  PSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQN 73

Query: 82  ALLK-DGRITVDGLQVRLDIA 101
                + +  + G  ++  IA
Sbjct: 74  CTRAINNK-QLFGRVIKASIA 93

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 59.9 bits (146), Expect = 4e-13
 Identities = 22/85 (25%), Positives = 41/85 (48%), Gaps = 3/85 (3%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           FV NL    ++ D+E+ F     L  +    D  T + KGF +V F+  E+  +A  + D
Sbjct: 12  FVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVD 71

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
           G++   G  + +  +  K+  ++ G
Sbjct: 72  GQV-FQGRMLHVLPSTIKKEASQSG 95

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 59.5 bits (145), Expect = 5e-13
 Identities = 19/82 (23%), Positives = 41/82 (50%), Gaps = 1/82 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
             +P     V  L    T+ D+   F +   +  V +V D+++ R +GF +V F +V++ 
Sbjct: 11  NPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDA 70

Query: 80  RQALLKDGRITVDGLQVRLDIA 101
           ++A  +   + +DG ++R+   
Sbjct: 71  KEAKERANGMELDGRRIRVSGP 92

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 62.0 bits (151), Expect = 5e-13
 Identities = 20/69 (28%), Positives = 32/69 (46%), Gaps = 1/69 (1%)

Query: 16  NQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFV 74
              T+  +  +  F+G LPN +    V+        L +  LVKD  T   KG+ + E+V
Sbjct: 105 VVSTVVPDSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYV 164

Query: 75  DVENLRQAL 83
           D+    QA+
Sbjct: 165 DINVTDQAI 173

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A Length = 198

 Score = 58.9 bits (143), Expect = 8e-12
 Identities = 24/109 (22%), Positives = 42/109 (38%), Gaps = 7/109 (6%)

Query: 29  FVGNLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
           +VGN+P GIT+  +  FF  Q             V   + ++ K F ++EF  V+   QA
Sbjct: 8   YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 67

Query: 83  LLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYN 131
           +  DG I   G  +++      +       N      G    +  +  +
Sbjct: 68  MAFDG-IIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAH 115

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 60.5 bits (147), Expect = 6e-13
 Identities = 22/99 (22%), Positives = 41/99 (41%), Gaps = 3/99 (3%)

Query: 10  PERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGF 68
                  +     E   +  V NL    +   + R F +  ++  V + +D+ T   +GF
Sbjct: 32  RGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGF 91

Query: 69  CYVEFVDVENLRQALLK-DGRITVDGLQVRLDIADGKRN 106
            +V F D  +   A+   DG   +DG ++R+ +A   R 
Sbjct: 92  AFVRFHDKRDAEDAMDAMDGA-VLDGRELRVQMARYGRP 129

>1x5s_A Cold-inducible RNA-binding protein; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 59.6 bits (145), Expect = 7e-13
 Identities = 27/99 (27%), Positives = 51/99 (51%), Gaps = 1/99 (1%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G +  +         FVG L     +  +E+ F +  ++  V +VKD+ET R +GF +V 
Sbjct: 1   GSSGSSGMASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVT 60

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           F ++++ + A++     +VDG Q+R+D A    ++  G 
Sbjct: 61  FENIDDAKDAMMAMNGKSVDGRQIRVDQAGKSSDNRSGP 99

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 59.7 bits (145), Expect = 8e-13
 Identities = 25/103 (24%), Positives = 42/103 (40%), Gaps = 11/103 (10%)

Query: 27  TAFVGNLPNGITQGDVERFF---------PEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
           T FV  L   +T   V  +F          +     + L  D+ET + KG   V F D  
Sbjct: 9   TIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPP 68

Query: 78  NLRQAL-LKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRG 119
           + + A+   DG+    G  +++  A  + + N+GG N +    
Sbjct: 69  SAKAAIDWFDGK-EFSGNPIKVSFATRRADFNRGGGNGRGGLE 110

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 58.1 bits (141), Expect = 2e-12
 Identities = 20/88 (22%), Positives = 42/88 (47%), Gaps = 4/88 (4%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
            +   +  F+  LP   T+ ++E        +  +RLV ++   + KG  YVE+ +    
Sbjct: 13  TSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQA 71

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRN 106
            QA++K DG  T+    +++ I++   +
Sbjct: 72  SQAVMKMDGM-TIKENIIKVAISNSGPS 98

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 59.5 bits (144), Expect = 2e-12
 Identities = 12/98 (12%), Positives = 37/98 (37%), Gaps = 4/98 (4%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPE---QKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                +VG+     T   + +         +V ++  +++   + KG+  V      ++ 
Sbjct: 54  RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVH 113

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
           + L       ++G +V +  A  ++N ++     ++  
Sbjct: 114 KLLELLPGKVLNGEKVDVRPA-TRQNLSQFEAQARKRE 150

>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 = 59.5 bits (145), Expect = 3e-12
 Identities = 22/98 (22%), Positives = 42/98 (42%), Gaps = 3/98 (3%)

Query: 18  KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDV 76
           +   +  P+  F+GNL    +  +++    E      + +V D  T   + F YV+F   
Sbjct: 6   EGSESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVV-DVRTGTNRKFGYVDFESA 64

Query: 77  ENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           E+L +AL   G   V G +++L+   G+ +        
Sbjct: 65  EDLEKALELTGL-KVFGNEIKLEKPKGRDSKKVRAART 101

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A Length = 175

 Score = 54.1 bits (131), Expect = 3e-10
 Identities = 17/90 (18%), Positives = 34/90 (37%), Gaps = 4/90 (4%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFV 74
           + + +       T    NL   IT+ +++  F +     + +    +  + KG  Y+EF 
Sbjct: 89  KGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDA----LEIRLVSQDGKSKGIAYIEFK 144

Query: 75  DVENLRQALLKDGRITVDGLQVRLDIADGK 104
              +  + L +     +DG  V L     K
Sbjct: 145 SEADAEKNLEEKQGAEIDGRSVSLYYTGEK 174

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D* Length = 126

 Score = 58.5 bits (142), Expect = 3e-12
 Identities = 20/114 (17%), Positives = 42/114 (36%), Gaps = 2/114 (1%)

Query: 11  ERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFC 69
           E+ G       +   +  FV  +    T+ D+   F E  ++ ++ L  D+ T   KG+ 
Sbjct: 8   EQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYT 67

Query: 70  YVEFVDVENLRQALLKDGRITVDGLQVRLDIA-DGKRNDNKGGFNNKQNRGGGS 122
            VE+   +  + A+       + G  + +D          K     +++R    
Sbjct: 68  LVEYETYKEAQAAMEGLNGQDLMGQPISVDWCFVRGPPKGKRRGGRRRSRSPDR 121

>2fc9_A NCL protein; structure genomics, RRM_1 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 101

 Score = 57.3 bits (139), Expect = 4e-12
 Identities = 19/98 (19%), Positives = 44/98 (44%), Gaps = 3/98 (3%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
           G +  +  +    T  + NL    T+  ++  F +   +    V   +  + KG+ ++EF
Sbjct: 4   GSSGNSTWSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQNQNGKSKGYAFIEF 60

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
              E+ ++AL    +  ++G  +RL++   + + N G 
Sbjct: 61  ASFEDAKEALNSCNKREIEGRAIRLELQGPRGSPNSGP 98

>1fjc_A Nucleolin RBD2, protein C23; RNP, RRM, RNA binding domain, nucleolus, structural protein; NMR {Mesocricetus auratus} SCOP: d.58.7.1 Length = 96

 Score = 56.5 bits (137), Expect = 8e-12
 Identities = 19/93 (20%), Positives = 34/93 (36%), Gaps = 6/93 (6%)

Query: 17  QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDV 76
             +       T    NL   IT+ +++  F +    ++ +    +  + KG  Y+EF   
Sbjct: 8   CTSKKVRAARTLLAKNLSFNITEDELKEVFED----ALEIRLVSQDGKSKGIAYIEFKSE 63

Query: 77  ENLRQALL-KDGRITVDGLQVRLDIADGKRNDN 108
            +  + L  K G   +DG  V L     K    
Sbjct: 64  ADAEKNLEEKQGA-EIDGRSVSLYYTGEKGGTR 95

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A Length = 136

 Score = 57.7 bits (139), Expect = 8e-12
 Identities = 18/86 (20%), Positives = 29/86 (33%), Gaps = 5/86 (5%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF----PEQKLVSVRLVKDKET 62
           GG     G           +   +  LP   +  DV+ F            V  +  +E 
Sbjct: 26  GGQQMGRGSMMLGPEGGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTREG 85

Query: 63  DRFKGFCYVEFVDVENLRQALLKDGR 88
            R  G  +VE    ++++ AL KD  
Sbjct: 86  -RQSGEAFVELGSEDDVKMALKKDRE 110

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D* Length = 110

 Score = 56.9 bits (138), Expect = 8e-12
 Identities = 13/79 (16%), Positives = 33/79 (41%), Gaps = 1/79 (1%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
             +  FV ++     + +++  F +  ++ ++ L  D+ T   KG+  VE+   +    A
Sbjct: 25  EGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAA 84

Query: 83  LLKDGRITVDGLQVRLDIA 101
                   + G  +++D  
Sbjct: 85  KEALNGAEIMGQTIQVDWC 103

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 57.5 bits (139), Expect = 9e-12
 Identities = 19/87 (21%), Positives = 33/87 (37%), Gaps = 8/87 (9%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G              +VG L   +    +   F     +  +++  D ET++ +GF +VE
Sbjct: 52  GSGGSGGSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVE 111

Query: 73  FVDVENLRQALLK------DGR-ITVD 92
           F   E+   A+         GR I V+
Sbjct: 112 FELAEDAAAAIDNMNESELFGRTIRVN 138

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 56.5 bits (137), Expect = 1e-11
 Identities = 19/93 (20%), Positives = 39/93 (41%), Gaps = 3/93 (3%)

Query: 11  ERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFC 69
           E+ G       +   +  FV  +    T+ D+   F E  ++ ++ L  D+ T   KG+ 
Sbjct: 9   EQDGDEPGPQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYT 68

Query: 70  YVEFVDVENLRQALLK-DGRITVDGLQVRLDIA 101
            VE+   +  + A+   +G   + G  + +D  
Sbjct: 69  LVEYETYKEAQAAMEGLNG-QDLMGQPISVDWC 100

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 56.5 bits (137), Expect = 1e-11
 Identities = 19/91 (20%), Positives = 37/91 (40%), Gaps = 1/91 (1%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                  +VG L   +    +   F     +  +++  D ET++ +GF +VEF   E+  
Sbjct: 9   ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAA 68

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
            A+       + G  +R+++A   R    G 
Sbjct: 69  AAIDNMNESELFGRTIRVNLAKPMRIKESGP 99

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens} Length = 108

 Score = 56.2 bits (136), Expect = 2e-11
 Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 8/85 (9%)

Query: 16  NQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFV 74
           N     +  P   +VG+L   IT+  +   F    ++ S++L+ D ET R KG+ ++ F 
Sbjct: 17  NNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFS 76

Query: 75  DVENLRQALLK------DGR-ITVD 92
           D E  ++AL +       GR + V 
Sbjct: 77  DSECAKKALEQLNGFELAGRPMKVG 101

>2la6_A RNA-binding protein FUS; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, RNA recognition; NMR {Homo sapiens} Length = 99

 Score = 55.8 bits (135), Expect = 2e-11
 Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 11/83 (13%)

Query: 29  FVGNLPNGITQGDVERFF---------PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
           FV  L   +T   V  +F          +     + L  D+ET + KG   V F D  + 
Sbjct: 17  FVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSA 76

Query: 80  RQAL-LKDGRITVDGLQVRLDIA 101
           + A+   DG+    G  +++  A
Sbjct: 77  KAAIDWFDGK-EFSGNPIKVSFA 98

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 123

 Score = 55.7 bits (134), Expect = 3e-11
 Identities = 22/115 (19%), Positives = 35/115 (30%), Gaps = 9/115 (7%)

Query: 15  RNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-----PEQKLVSVRLVKDKETDRFKGFC 69
              + L  E      +  LP   T  +V  FF            +  V   +  R  G  
Sbjct: 13  EVAQFLSKENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYPDG-RPTGDA 71

Query: 70  YVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           +V F   E  + AL K     +    + L  +     + +   N   +  G S G
Sbjct: 72  FVLFACEEYAQNALRKHKD-LLGKRYIELFRS--TAAEVQQVLNRFSSASGPSSG 123

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C Length = 90

 Score = 54.9 bits (133), Expect = 3e-11
 Identities = 11/74 (14%), Positives = 27/74 (36%), Gaps = 10/74 (13%)

Query: 29 FVGNLPNGITQGDVERFFPE---QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          ++GNL    T  D+           ++ ++  +++   + KGF  V      + ++ +  
Sbjct: 5  YIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDL 64

Query: 86 ------DGR-ITVD 92
                 G+   V 
Sbjct: 65 LPKRELHGQNPVVT 78

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} Length = 83

 Score = 54.4 bits (132), Expect = 4e-11
 Identities = 16/83 (19%), Positives = 39/83 (46%), Gaps = 3/83 (3%)

Query: 26  YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FVG+L   +    +   F +    +S  ++ D +T   +G+ +V F   ++ + A+ 
Sbjct: 2   FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMD 61

Query: 85  K-DGRITVDGLQVRLDIADGKRN 106
              G+  ++G  +R++ A    +
Sbjct: 62  SMQGQ-DLNGRPLRINWAAKLEH 83

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 56.9 bits (138), Expect = 5e-11
 Identities = 17/97 (17%), Positives = 38/97 (39%), Gaps = 3/97 (3%)

Query: 12  RYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFC 69
           R    Q+          +VG++   + +  + + F      + S+ +  D  T + KGF 
Sbjct: 15  RGSAAQRQGALAIMSRVYVGSIYYELGEDTIRQAF-APFGPIKSIDMSWDSVTMKHKGFA 73

Query: 70  YVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
           +VE+   E  + AL +   + + G  +++        
Sbjct: 74  FVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQ 110

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 56.6 bits (137), Expect = 6e-11
 Identities = 15/87 (17%), Positives = 36/87 (41%), Gaps = 1/87 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
                   +V ++   ++  D++  F    K+ S  L +D  T + KG+ ++E+   ++ 
Sbjct: 121 EARAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSS 180

Query: 80  RQALLKDGRITVDGLQVRLDIADGKRN 106
           + A+       + G  +R+  A     
Sbjct: 181 QDAVSSMNLFDLGGQYLRVGKAVTPPM 207

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A Length = 165

 Score = 56.0 bits (135), Expect = 5e-11
 Identities = 14/89 (15%), Positives = 35/89 (39%), Gaps = 1/89 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FV ++     + +++  F +  ++ ++ L  D+ T   KG+  VE+   +    A     
Sbjct: 76  FVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALN 135

Query: 88  RITVDGLQVRLDIADGKRNDNKGGFNNKQ 116
              + G  +++D    K          ++
Sbjct: 136 GAEIMGQTIQVDWCFVKGPKRVKKSEKRR 164

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C Length = 229

 Score = 57.0 bits (137), Expect = 6e-11
 Identities = 16/125 (12%), Positives = 39/125 (31%), Gaps = 3/125 (2%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPE---QKLVSVRLVKDKETD 63
               +    N     T      ++GNL    T  D+           ++ ++  +++   
Sbjct: 50  DDVGKGAAPNVVYTYTGKRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANG 109

Query: 64  RFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSG 123
           + KGF  V      + ++ +    +  + G    +   + +        + K  + G   
Sbjct: 110 QSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPVNKQFLSQFEMQSRKTTQSGQMS 169

Query: 124 GMGGN 128
           G G  
Sbjct: 170 GEGKA 174

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 54.6 bits (132), Expect = 6e-11
 Identities = 20/89 (22%), Positives = 42/89 (47%), Gaps = 1/89 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
               T +VG L   +++  +   F +   +V+  + KD+ T + +G+ +VEF+  E+   
Sbjct: 13  NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADY 72

Query: 82  ALLKDGRITVDGLQVRLDIADGKRNDNKG 110
           A+     I + G  +R++ A     +  G
Sbjct: 73  AIKIMDMIKLYGKPIRVNKASAHNKNLSG 101

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ALT splicing, mRNA processing, mRNA splicing; 1.85A {Homo sapiens} PDB: 2kyx_A 3lpy_A* Length = 85

 Score = 53.7 bits (130), Expect = 7e-11
 Identities = 14/62 (22%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
                +VG L   +    +   F     +  +++  D ET++ +GF +VEF   E+   
Sbjct: 5  TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAA 64

Query: 82 AL 83
          A+
Sbjct: 65 AI 66

>2cq0_A Eukaryotic translation initiation factor 3 subunit 4; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 54.2 bits (131), Expect = 7e-11
 Identities = 23/100 (23%), Positives = 39/100 (39%), Gaps = 3/100 (3%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G +      +   T  V NL     + D++  F     +  + L KDK T + KGF ++ 
Sbjct: 4   GSSGPNRRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFIS 63

Query: 73  FVDVENLRQALLK-DGRITVDGLQVRLDIADGKRNDNKGG 111
           F   E+  +A+    G    D L + ++ A    N     
Sbjct: 64  FHRREDAARAIAGVSGF-GYDHLILNVEWAKPSTNSGPSS 102

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens} Length = 87

 Score = 53.7 bits (130), Expect = 8e-11
 Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 1/85 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
           P    +  FVG+L   IT   +   F    ++   R+VKD  T + KG+ +V F +  + 
Sbjct: 2   PLGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDA 61

Query: 80  RQALLKDGRITVDGLQVRLDIADGK 104
             A+ + G   + G Q+R + A  K
Sbjct: 62  ENAIQQMGGQWLGGRQIRTNWATRK 86

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens} Length = 88

 Score = 52.9 bits (128), Expect = 1e-10
 Identities = 18/88 (20%), Positives = 35/88 (39%), Gaps = 4/88 (4%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDK-ETDRFKGFCYVEFVDVENL 79
           +  P    +G L   +T+  +   F    K+  + +  ++      KG+ YVEF + +  
Sbjct: 1   SMKPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEA 60

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRN 106
            +AL   DG   +DG ++          
Sbjct: 61  EKALKHMDGG-QIDGQEITATAVLAPWP 87

>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 53.5 bits (129), Expect = 2e-10
 Identities = 15/67 (22%), Positives = 36/67 (53%), Gaps = 2/67 (2%)

Query: 21 PTEPPYTAFVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDRFKGFCYVEFVDVEN 78
           +    + ++G+L   + +  + R F    + ++SV++++++ T    G+C+VEF D+  
Sbjct: 5  SSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLAT 64

Query: 79 LRQALLK 85
            + L K
Sbjct: 65 AEKCLHK 71

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 93

 Score = 53.0 bits (128), Expect = 2e-10
 Identities = 17/84 (20%), Positives = 39/84 (46%), Gaps = 6/84 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-DG 87
           ++GNL   +T  D+ + F ++KL         +     G+ +V++ D     +A+    G
Sbjct: 12  YIGNLSPAVTADDLRQLFGDRKLP-----LAGQVLLKSGYAFVDYPDQNWAIRAIETLSG 66

Query: 88  RITVDGLQVRLDIADGKRNDNKGG 111
           ++ + G  + +D +  K+  + G 
Sbjct: 67  KVELHGKIMEVDYSVSKKLRSSGP 90

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 54.5 bits (132), Expect = 2e-10
 Identities = 16/86 (18%), Positives = 41/86 (47%), Gaps = 3/86 (3%)

Query: 18  KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDV 76
           +   ++  +  FVG+L   +    +   F +    +S  ++ D +T   +G+ +V F   
Sbjct: 80  QQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQ 139

Query: 77  ENLRQALLK-DGRITVDGLQVRLDIA 101
           ++ + A+    G+  ++G  +R++ A
Sbjct: 140 DDAQNAMDSMQGQD-LNGRPLRINWA 164

>3md3_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNP, RBD, poly(U) binding, tandem, acetylation, cytopla nucleus; 2.70A {Saccharomyces cerevisiae} Length = 166

 Score = 49.8 bits (120), Expect = 1e-08
 Identities = 16/89 (17%), Positives = 41/89 (46%), Gaps = 2/89 (2%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
             +VGNL   IT+  ++++F     + +++++ DK  ++   + +VE+    +   AL  
Sbjct: 2   VLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDK-NNKNVNYAFVEYHQSHDANIALQT 60

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGGFNN 114
                ++   V+++ A   +  +     N
Sbjct: 61  LNGKQIENNIVKINWAFQSQQSSSDDTFN 89

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 52.9 bits (127), Expect = 2e-10
 Identities = 18/100 (18%), Positives = 36/100 (36%), Gaps = 4/100 (4%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFK 66
           G        +            +VGNLP      D++R   E   V +RL         +
Sbjct: 1   GSSGSSGPGSPPGEGAPLAADVYVGNLPRDARVSDLKRALRELGSVPLRLT----WQGPR 56

Query: 67  GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
              ++ + D    +QA+     + +    +R+ +A  +R+
Sbjct: 57  RRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQQRD 96

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 53.3 bits (128), Expect = 2e-10
 Identities = 17/83 (20%), Positives = 38/83 (45%), Gaps = 5/83 (6%)

Query: 29  FVGNLPNGITQGDVERFFPE--QKLVSVRLVKD-KETDRFKGFCYVEFVDVENLRQAL-- 83
           F+G +P    + ++     +  + ++ V +     +  + +GF +VE+        A   
Sbjct: 12  FIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRK 71

Query: 84  LKDGRITVDGLQVRLDIADGKRN 106
           L  GRI + G Q+ +D A+ + +
Sbjct: 72  LMPGRIQLWGHQIAVDWAEPEID 94

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori} Length = 90

 Score = 52.6 bits (127), Expect = 2e-10
 Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 6/89 (6%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR--QALLK 85
           +VGNL    T   V+  F +  K+ +V+L+ D+ET + KGF +VE  +         L  
Sbjct: 5   YVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEESVSEAIAKL-- 62

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           D      G  +R+  A+ K++      ++
Sbjct: 63  DNT-DFMGRTIRVTEANPKKSLEHHHHHH 90

>2db1_A Heterogeneous nuclear ribonucleoprotein F; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} Length = 118

 Score = 53.4 bits (128), Expect = 3e-10
 Identities = 20/108 (18%), Positives = 39/108 (36%), Gaps = 6/108 (5%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLV----SVRLVKDKETDRFKGFCYVEFVDV 76
                Y   +  LP   +  DV+ F  +  +      V  +  +E  R  G  +VE    
Sbjct: 13  EGGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTREG-RQSGEAFVELESE 71

Query: 77  ENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           ++++ AL KD   ++    + +  +     D     +   +  G S G
Sbjct: 72  DDVKLALKKDRE-SMGHRYIEVFKSHRTEMDWVLKHSGPNSASGPSSG 118

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 52.7 bits (127), Expect = 3e-10
 Identities = 21/114 (18%), Positives = 47/114 (41%), Gaps = 3/114 (2%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
            + P   F+G L     +  ++  F +   +  V L+KD+ T + +GF ++ F +  + +
Sbjct: 4   ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAK 62

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQHQ 134
            A       ++ G  ++++ A  K +   GG              G  +++ H 
Sbjct: 63  NAAKDMNGKSLHGKAIKVEQA-KKPSFQSGGRRRPPASSRNRSPSGSLEHHHHH 115

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 52.8 bits (127), Expect = 4e-10
 Identities = 20/91 (21%), Positives = 37/91 (40%), Gaps = 4/91 (4%)

Query: 20  LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVEN 78
           LP E     ++ NLP  IT  ++   F +   +  +R+    ET   +G  YV + D+ +
Sbjct: 3   LPPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTPET---RGTAYVVYEDIFD 59

Query: 79  LRQALLKDGRITVDGLQVRLDIADGKRNDNK 109
            + A+       V    + +   +  R   K
Sbjct: 60  AKNAVDHLSGFNVSNRYLVVLYYNANRAFQK 90

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 104

 Score = 51.7 bits (124), Expect = 7e-10
 Identities = 18/77 (23%), Positives = 33/77 (42%), Gaps = 3/77 (3%)

Query: 14 GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYV 71
          G +  +  T       +  LP G ++ ++ +FF   ++V   + L  D +  R  G  +V
Sbjct: 4  GSSGNSPDTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQG-RSTGEAFV 62

Query: 72 EFVDVENLRQALLKDGR 88
          +F   E   +AL K   
Sbjct: 63 QFASQEIAEKALKKHKE 79

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 51.6 bits (124), Expect = 8e-10
 Identities = 28/108 (25%), Positives = 41/108 (37%), Gaps = 4/108 (3%)

Query: 5   SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
           S G      G   +          +VGNLP  I   D+E  F   K  ++R +  K    
Sbjct: 2   SSGSSGMSGGGVIRGPAGNNDCRIYVGNLPPDIRTKDIEDVF--YKYGAIRDIDLKNRRG 59

Query: 65  FKGFCYVEFVDVENLRQALLK-DGRITVDGLQVRLDIADGKRNDNKGG 111
              F +VEF D  +   A+   DG    DG ++R++     R    G 
Sbjct: 60  GPPFAFVEFEDPRDAEDAVYGRDGY-DYDGYRLRVEFPRSGRGTGSGP 106

>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 = 51.1 bits (123), Expect = 1e-09
 Identities = 16/81 (19%), Positives = 32/81 (39%), Gaps = 3/81 (3%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEFVDVENLR 80
             P    V N+P  ++  ++  FF   +++  SV L  + E     G   V F   +   
Sbjct: 13  PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYN-EKGMPTGEAMVAFESRDEAT 71

Query: 81  QALLKDGRITVDGLQVRLDIA 101
            A++      +   +V+L + 
Sbjct: 72  AAVIDLNDRPIGSRKVKLVLG 92

>2cpe_A RNA-binding protein EWS; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 113

 Score = 51.3 bits (123), Expect = 1e-09
 Identities = 15/64 (23%), Positives = 25/64 (39%), Gaps = 9/64 (14%)

Query: 29 FVGNLPNGITQGDVERFF---------PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
          +V  L + +T  D+  FF                + +  DKET + KG   V + D    
Sbjct: 19 YVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTA 78

Query: 80 RQAL 83
          + A+
Sbjct: 79 KAAV 82

>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 = 50.4 bits (121), Expect = 2e-09
 Identities = 16/82 (19%), Positives = 31/82 (37%), Gaps = 3/82 (3%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEFVDVENL 79
              P    V N+P  ++  ++  FF   +++  SV L  + E     G   V F   +  
Sbjct: 12  KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYN-EKGMPTGEAMVAFESRDEA 70

Query: 80  RQALLKDGRITVDGLQVRLDIA 101
             A++      +   +V+L   
Sbjct: 71  TAAVIDLNDRPIGSRKVKLSGP 92

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens} Length = 107

 Score = 51.0 bits (122), Expect = 2e-09
 Identities = 13/79 (16%), Positives = 32/79 (40%), Gaps = 6/79 (7%)

Query: 14 GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV----SVRLVKDKETDRFKGFC 69
          G   +    +  +      LP   T  DV  FF + ++      +  + +++  + +G  
Sbjct: 1  GSKLEEEVDDV-FLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRDG-KRRGDA 58

Query: 70 YVEFVDVENLRQALLKDGR 88
           +E    +++++AL K   
Sbjct: 59 LIEMESEQDVQKALEKHRM 77

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 18/96 (18%), Positives = 32/96 (33%), Gaps = 1/96 (1%)

Query: 11  ERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFC 69
               R              V NLP  +TQ   E    P   L    LV  + T + KG+ 
Sbjct: 81  RLRERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYG 140

Query: 70  YVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKR 105
           + E++  ++  +A        +    + +   D  +
Sbjct: 141 FAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQ 176

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 44.2 bits (105), Expect = 3e-06
 Identities = 18/115 (15%), Positives = 30/115 (26%), Gaps = 10/115 (8%)

Query: 1   MADYSYGGYPERYGRNQKTLPTEPPYTA---FVGNLPNGITQGDV--ERFFPEQKLVSVR 55
           +     G              T     +    V  LP G    D               +
Sbjct: 157 LLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQ 216

Query: 56  LVKDKETDRFKGFCYVEFVDVENLRQALLK-DGRITVDGLQVRLDIADGKRNDNK 109
           L    +  + KGF  +E+   E   +A  + DG   + G  +R+           
Sbjct: 217 LACG-QDGQLKGFAVLEYETAEMAEEAQQQADGLS-LGGSHLRVSFC--APGPPG 267

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 43.4 bits (103), Expect = 4e-06
 Identities = 11/78 (14%), Positives = 27/78 (34%), Gaps = 6/78 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
            +  LP  +T  +V     + +L    + K       KG  +V  ++ E    A+    +
Sbjct: 26  LIRGLPGDVTNQEVHDLLSDYELKYCFVDKY------KGTAFVTLLNGEQAEAAINAFHQ 79

Query: 89  ITVDGLQVRLDIADGKRN 106
             +   ++ + +      
Sbjct: 80  SRLRERELSVQLQPTDAL 97

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

 Score = 50.9 bits (122), Expect = 2e-09
 Identities = 10/87 (11%), Positives = 27/87 (31%), Gaps = 1/87 (1%)

Query: 24  PPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
           P        L + + +  ++       ++  V ++    T +  G   V F      ++ 
Sbjct: 5   PLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKET 64

Query: 83  LLKDGRITVDGLQVRLDIADGKRNDNK 109
           +      +V G  +   +    +   K
Sbjct: 65  VKNLHLTSVMGNIIHAQLDIKGQQRMK 91

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 53.1 bits (128), Expect = 2e-09
 Identities = 16/114 (14%), Positives = 40/114 (35%), Gaps = 10/114 (8%)

Query: 7   GGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDR 64
           G          +        T ++ N P   TQ ++     +     +S+RL   +  + 
Sbjct: 106 GQNEIIVSHLTEC-------TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLR-FNT 157

Query: 65  FKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
            + F Y++    E+ R  + K   + ++G  +   +++      +      + R
Sbjct: 158 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGR 211

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 46.9 bits (112), Expect = 3e-07
 Identities = 19/97 (19%), Positives = 33/97 (34%), Gaps = 11/97 (11%)

Query: 8   GYPERYGRNQKTLPTEPP-----YTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDK 60
           G P   G   K             T  V NLP    Q  V ++F +    ++ V +    
Sbjct: 19  GSPAAAGLTSKKANEALTRNRELTTVLVKNLPKSYNQNKVYKYF-KHCGPIIHVDVADS- 76

Query: 61  ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR 97
              +   F  +EF   +    A+ K  ++ V   ++ 
Sbjct: 77  -LKKNFRFARIEFARYDGALAAITKTHKV-VGQNEII 111

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 45.4 bits (108), Expect = 9e-07
 Identities = 12/79 (15%), Positives = 32/79 (40%), Gaps = 4/79 (5%)

Query: 29  FVGNLPNGITQGDV--ERFFPEQKLVSVRLVKD-KETDRFKGFCYVEFVDVENLRQALLK 85
            + NL   +   ++  E F     +  + +    KE        ++ F + ++  +AL  
Sbjct: 214 MIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQM 273

Query: 86  DGRITVDGLQVRLDIADGK 104
           +  + +   ++ + +AD K
Sbjct: 274 NRSL-LGNREISVSLADKK 291

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 50.4 bits (121), Expect = 3e-09
 Identities = 21/101 (20%), Positives = 44/101 (43%), Gaps = 3/101 (2%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G +  +     P    V N+P      D+ + F +  K++ V ++ ++     KGF +V 
Sbjct: 4   GSSGNSESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVT 61

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFN 113
           F +  +  +A  K     V+G ++ ++ A  +   N G  +
Sbjct: 62  FENSADADRAREKLHGTVVEGRKIEVNNATARVMTNSGPSS 102

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A Length = 106

 Score = 50.4 bits (121), Expect = 3e-09
 Identities = 18/82 (21%), Positives = 42/82 (51%), Gaps = 6/82 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
           F+G +P  + + D++  F E+  K+  + ++KD+ T   KG  ++ + + E+  +A    
Sbjct: 17  FIGQIPRNLDEKDLKPLF-EEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSAL 75

Query: 86  DGRITVDG--LQVRLDIADGKR 105
             + T+ G    +++  AD + 
Sbjct: 76  HEQKTLPGMNRPIQVKPADSES 97

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Length = 87

 Score = 49.7 bits (119), Expect = 3e-09
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 7/75 (9%)

Query: 29 FVGNLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
          +VGN+P GIT+  +  FF  Q             V   + ++ K F ++EF  V+   QA
Sbjct: 10 YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 69

Query: 83 LLKDGRITVDGLQVR 97
          +  DG I   G  ++
Sbjct: 70 MAFDG-IIFQGQSLK 83

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 51.4 bits (124), Expect = 3e-09
 Identities = 17/84 (20%), Positives = 37/84 (44%), Gaps = 1/84 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
            V  LP  +T  ++   F     + + R+++D +T    G+ +V+F    + ++A+    
Sbjct: 7   IVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLN 66

Query: 88  RITVDGLQVRLDIADGKRNDNKGG 111
            ITV   ++++  A       K  
Sbjct: 67  GITVRNKRLKVSYARPGGESIKDT 90

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 48.3 bits (116), Expect = 4e-08
 Identities = 16/84 (19%), Positives = 35/84 (41%), Gaps = 1/84 (1%)

Query: 1   MADYSYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKD 59
           +   +      +    +    +      +V NLP  IT   ++  F +   +V   +++D
Sbjct: 65  LNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD 124

Query: 60  KETDRFKGFCYVEFVDVENLRQAL 83
           K T R +G  +V +   E  ++A+
Sbjct: 125 KLTGRPRGVAFVRYNKREEAQEAI 148

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 51.4 bits (124), Expect = 3e-09
 Identities = 17/85 (20%), Positives = 38/85 (44%), Gaps = 3/85 (3%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
            V  LP  +TQ +    F     ++ S +LV+DK T +  G+ +V ++D ++  +A+   
Sbjct: 6   IVNYLPQNMTQEEFRSLF-GSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTL 64

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
             + +    +++  A       +  
Sbjct: 65  NGLRLQTKTIKVSYARPSSASIRDA 89

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A Length = 167

 Score = 43.3 bits (103), Expect = 3e-06
 Identities = 13/56 (23%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
           +V  LP  +TQ ++E+ F +  ++++ R++ D+ T   +G  ++ F       +A+
Sbjct: 92  YVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAI 147

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 49.7 bits (119), Expect = 3e-09
 Identities = 10/62 (16%), Positives = 32/62 (51%), Gaps = 2/62 (3%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
          + ++   P   T  D++ +  ++ +++++++ +      FKG  +V F  +E+ ++ +  
Sbjct: 13 SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL-HKAFKGSIFVVFDSIESAKKFVET 71

Query: 86 DG 87
           G
Sbjct: 72 PG 73

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 51.5 bits (124), Expect = 5e-09
 Identities = 26/97 (26%), Positives = 47/97 (48%), Gaps = 1/97 (1%)

Query: 19  TLPTEPPYTAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVE 77
           + P+ P  + +VG+L   +T+  + E+F P   ++S+R+ +D  T R  G+ YV F    
Sbjct: 9   SAPSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPA 68

Query: 78  NLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
           +  +AL       + G  VR+  +    +  K G  N
Sbjct: 69  DAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGN 105

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 38.4 bits (90), Expect = 2e-04
 Identities = 17/91 (18%), Positives = 36/91 (39%), Gaps = 4/91 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+ NL   I    +   F     ++S ++V D   +  KG+ +V F   E   +A+ K  
Sbjct: 107 FIKNLDKSIDNKALYDTFSAFGNILSCKVVCD--ENGSKGYGFVHFETQEAAERAIEKMN 164

Query: 88  RITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
            + ++  +V +      R + +     +   
Sbjct: 165 GMLLNDRKVFVGRFK-SRKEREAELGARAKE 194

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 85

 Score = 48.7 bits (117), Expect = 8e-09
 Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          ++  L  G T  D+ +      K+VS + + DK T++ KG+ +V+F      ++A+
Sbjct: 9  YIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAV 64

>2dgs_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 99

 Score = 48.7 bits (117), Expect = 1e-08
 Identities = 19/87 (21%), Positives = 45/87 (51%), Gaps = 4/87 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG +P+   + ++  +F ++   +  V ++ D E  R +GF ++ F D +++ QA+   
Sbjct: 14  FVGGIPHNCGETELREYF-KKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMH 72

Query: 87  GRITVDGLQVRLDIADGKRNDNKGGFN 113
               + G +V +  A+ + + + G  +
Sbjct: 73  F-HDIMGKKVEVKRAEPRDSKSSGPSS 98

>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 = 48.8 bits (117), Expect = 1e-08
 Identities = 21/92 (22%), Positives = 39/92 (42%), Gaps = 3/92 (3%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
           P EP    ++ NL   +T+ D+   F   Q+     +     T R +G  ++ F + E  
Sbjct: 21  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIA 80

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRNDNKG 110
            QAL   +G   + G  + ++    K+  + G
Sbjct: 81  WQALHLVNGYK-LYGKILVIEFGKNKKQRSSG 111

>1u6f_A Tcubp1, RNA-binding protein UBP1; trypanosome, mRNA-binding protein, GU-rich RNA, structure; NMR {Trypanosoma cruzi} SCOP: d.58.7.1 Length = 139

 Score = 49.4 bits (118), Expect = 1e-08
 Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 1/56 (1%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
            V  +P  + +  + + F     + SV++V D+ET + +G+ +V+F    + +QA+
Sbjct: 46  MVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAI 101

>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 = 48.0 bits (115), Expect = 2e-08
 Identities = 21/88 (23%), Positives = 39/88 (44%), Gaps = 7/88 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKET---DRFKGFCYVEFVDVENLRQALL 84
           F+ NL    T+  ++  F +   + S  + K K         GF +VE+   E  ++AL 
Sbjct: 9   FIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALK 68

Query: 85  K-DGRITVDGLQVRLDIADGKRNDNKGG 111
           +  G   VDG ++ + I++ +      G
Sbjct: 69  QLQGHT-VDGHKLEVRISE-RATKPASG 94

>2kt5_A RNA and export factor-binding protein 2; chaperone, mRNA processing, mRNA splicing, transport, nucleus, RNA-binding, spliceosome, transport; NMR {Mus musculus} Length = 124

 Score = 48.5 bits (116), Expect = 2e-08
 Identities = 18/88 (20%), Positives = 34/88 (38%), Gaps = 4/88 (4%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
             E      V NL  G++  D++  F E   L    +  D  + R  G   V F    + 
Sbjct: 31  GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVHFERRADA 89

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRN 106
            +A+ +  G   +DG  + + +   + +
Sbjct: 90  LKAMKQYKGVP-LDGRPMDIQLVASQID 116

>2cqd_A RNA-binding region containing protein 1; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 48.1 bits (115), Expect = 2e-08
 Identities = 22/98 (22%), Positives = 40/98 (40%), Gaps = 4/98 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG LP   T   + ++F E    +    ++ D++T + +G+ +V   D     +A  KD
Sbjct: 21  FVGGLPYHTTDASLRKYF-EGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA-CKD 78

Query: 87  GRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
               +DG +  +++A                  G S G
Sbjct: 79  PNPIIDGRKANVNLAYLGAKPRSLQTGFAIGVSGPSSG 116

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens} Length = 95

 Score = 47.6 bits (114), Expect = 3e-08
 Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 2/80 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           E   T FVGNL   + +  +   F +   L  V + KD+E  + K F +V F   E++  
Sbjct: 14  EADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDREG-KPKSFGFVCFKHPESVSY 72

Query: 82  ALLKDGRITVDGLQVRLDIA 101
           A+     I + G  + +   
Sbjct: 73  AIALLNGIRLYGRPINVSGP 92

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A Length = 150

 Score = 48.3 bits (115), Expect = 3e-08
 Identities = 26/98 (26%), Positives = 48/98 (48%), Gaps = 8/98 (8%)

Query: 10  PERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGF 68
              +  +            +VGNL N   + ++ER F     L SV + ++       GF
Sbjct: 58  SHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARNP-----PGF 112

Query: 69  CYVEFVDVENLRQALLK-DGRITVDGLQVRLDIADGKR 105
            +VEF D  +   A+ + DGR T+ G +VR+++++G++
Sbjct: 113 AFVEFEDPRDAADAVRELDGR-TLCGCRVRVELSNGEK 149

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 46.9 bits (112), Expect = 5e-08
 Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 9/85 (10%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           FVGNLP  IT+ ++ + F +  K   V + KD      KGF ++          A ++ D
Sbjct: 19  FVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELD 72

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
               + G Q+R+  A    +   G 
Sbjct: 73  NM-PLRGKQLRVRFACHSASLTSGP 96

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 46.5 bits (111), Expect = 6e-08
 Identities = 24/85 (28%), Positives = 44/85 (51%), Gaps = 8/85 (9%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           +VGNL  G  +G++ER F     L +V + ++       GF +VEF D  +   A+   D
Sbjct: 4   YVGNLGTGAGKGELERAFSYYGPLRTVWIARNP-----PGFAFVEFEDPRDAEDAVRGLD 58

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
           G+  + G +VR++++ G    ++  
Sbjct: 59  GK-VICGSRVRVELSTGMPRRSRFD 82

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 48.0 bits (115), Expect = 6e-08
 Identities = 19/92 (20%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKET--DRFKGFCYVEFVDVENLRQALL 84
           FVG +P   ++ D+   F EQ   +  + +++D+     + KG C+V F   +   +A  
Sbjct: 7   FVGQVPRTWSEKDLRELF-EQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQN 65

Query: 85  K-DGRITVDG--LQVRLDIADGKRNDNKGGFN 113
                  + G    +++  AD ++N+      
Sbjct: 66  ALHNMKVLPGMHHPIQMKPADSEKNNAVEDRK 97

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A Length = 175

 Score = 37.6 bits (88), Expect = 3e-04
 Identities = 15/81 (18%), Positives = 32/81 (39%), Gaps = 11/81 (13%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
           F+G +    T+ D+   F     ++   R+++       +G  +V F      + A+   
Sbjct: 99  FIGMISKKCTENDIRVMF-SSFGQIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAM 156

Query: 86  DGRITVDG----LQVRLDIAD 102
               T++G    + V+   AD
Sbjct: 157 HQAQTMEGCSSPMVVKF--AD 175

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A Length = 193

 Score = 48.3 bits (114), Expect = 6e-08
 Identities = 10/80 (12%), Positives = 33/80 (41%), Gaps = 2/80 (2%)

Query: 9   YPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKG 67
                    +        + ++   P   T  D++ +  ++ +++++++ +      FKG
Sbjct: 93  SKPLPEVTDEYKNDVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHK-AFKG 151

Query: 68  FCYVEFVDVENLRQALLKDG 87
             +V F  +E+ ++ +   G
Sbjct: 152 SIFVVFDSIESAKKFVETPG 171

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A* Length = 437

 Score = 49.1 bits (116), Expect = 6e-08
 Identities = 19/129 (14%), Positives = 43/129 (33%), Gaps = 2/129 (1%)

Query: 11  ERYGRNQKTLPTEPPY-TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGF 68
           + +  +         + T FV  +    T+  + R F     +  + +V  K + + +G+
Sbjct: 87  KMWDPHNDPNAQGDAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGY 146

Query: 69  CYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGN 128
            ++E+    ++  A        +DG +V +D+  G+              GG   G    
Sbjct: 147 AFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADV 206

Query: 129 KYNQHQDKG 137
                    
Sbjct: 207 NIRHSGRDD 215

>2dgt_A RNA-binding protein 30; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 92

 Score = 46.1 bits (110), Expect = 9e-08
 Identities = 14/93 (15%), Positives = 32/93 (34%), Gaps = 11/93 (11%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
             +      VGN+    T  ++   F E   ++   +V        K + +V     E+ 
Sbjct: 6   SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIV--------KDYAFVHMERAEDA 57

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRNDNKGG 111
            +A+   D      G ++ + ++  +     G 
Sbjct: 58  VEAIRGLDNT-EFQGKRMHVQLSTSRLRTASGP 89

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 47.5 bits (113), Expect = 1e-07
 Identities = 18/95 (18%), Positives = 34/95 (35%), Gaps = 4/95 (4%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
                    E      V NL  G++  D++  F E   L    +  D  + R  G   V 
Sbjct: 77  SGCGGGEGVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYD-RSGRSLGTADVH 135

Query: 73  FVDVENLRQALLK-DGRITVDGLQVRLDIADGKRN 106
           F    +  +A+ +  G   +DG  + + +   + +
Sbjct: 136 FERRADALKAMKQYKGVP-LDGRPMDIQLVASQID 169

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 46.2 bits (110), Expect = 1e-07
 Identities = 19/105 (18%), Positives = 43/105 (40%), Gaps = 9/105 (8%)

Query: 10  PERYGRNQKTLPTEPPY--TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFK 66
             +  R +  +    P   T + G + +G+T   + + F P  +++ +R+  +      K
Sbjct: 8   NTKQLRFEDVVNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------K 61

Query: 67  GFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           G+ +V F   E+   A++     T++G  V+        +   G 
Sbjct: 62  GYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGKESPDMTSGP 106

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 46.1 bits (110), Expect = 1e-07
 Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 4/90 (4%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
                    E      V NL  G++  D++  F E   L    +  D  + R  G   V 
Sbjct: 18  SGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYD-RSGRSLGTADVH 76

Query: 73  FVDVENLRQALLK-DGRITVDGLQVRLDIA 101
           F    +  +A+ + +G   +DG  + + + 
Sbjct: 77  FERKADALKAMKQYNGVP-LDGRPMNIQLV 105

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 45.7 bits (109), Expect = 1e-07
 Identities = 20/98 (20%), Positives = 43/98 (43%), Gaps = 3/98 (3%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVE 72
           G +        P T +VGNL   +T+  + + F +     S +++ +  ++    +C+VE
Sbjct: 4   GSSGMMEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSND--PYCFVE 61

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKG 110
           F +  +   AL       + G +V+++ A    +   G
Sbjct: 62  FYEHRDAAAALAAMNGRKILGKEVKVNWATTPSSQKSG 99

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 45.8 bits (109), Expect = 2e-07
 Identities = 20/86 (23%), Positives = 41/86 (47%), Gaps = 12/86 (13%)

Query: 29  FVGNLP-NGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
           F+GNL    + + DVE  F +  ++    + K        G+ +V++ +  + R A+L  
Sbjct: 31  FIGNLNTALVKKSDVETIFSKYGRVAGCSVHK--------GYAFVQYSNERHARAAVLGE 82

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGG 111
           +GR  + G  + +++A   + D  G 
Sbjct: 83  NGR-VLAGQTLDINMAGEPKPDRSGP 107

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A Length = 75

 Score = 44.8 bits (107), Expect = 2e-07
 Identities = 16/75 (21%), Positives = 37/75 (49%), Gaps = 4/75 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG L     +  +  +F     ++ S+ L  D +T++ +GFC++ F + E +++  ++ 
Sbjct: 3   FVGGLSPDTPEEKIREYF-GGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKI-MEK 60

Query: 87  GRITVDGLQVRLDIA 101
               V   +  + +A
Sbjct: 61  KYHNVGLSKCEIKVA 75

>2dnq_A RNA-binding protein 4B; RRM domain,RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 44.9 bits (107), Expect = 2e-07
 Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 11/85 (12%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           F+GNLP   T+ ++   F +  K++   ++        K + +V   D      A+    
Sbjct: 12  FIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRNLH 63

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
               + G+ + ++ +  K   + G 
Sbjct: 64  HY-KLHGVNINVEASKNKSKASSGP 87

>2dhg_A TRNA selenocysteine associated protein (SECP43); RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 45.0 bits (107), Expect = 3e-07
 Identities = 29/110 (26%), Positives = 49/110 (44%), Gaps = 10/110 (9%)

Query: 18  KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVD 75
            +  + P Y+ FVG+L   +  G +  FF +        ++V D+ T   KG+ +V+F D
Sbjct: 2   SSGSSGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTD 60

Query: 76  VENLRQALLK-DGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
               ++AL +  G + +    VRL +A  K +        K    G S G
Sbjct: 61  ELEQKRALTECQGAVGLGSKPVRLSVAIPKAS------RVKPVESGPSSG 104

>2jvr_A Nucleolar protein 3; RNA recognition motif, nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding; NMR {Saccharomyces cerevisiae} PDB: 2osr_A Length = 111

 Score = 44.8 bits (106), Expect = 3e-07
 Identities = 17/81 (20%), Positives = 28/81 (34%), Gaps = 2/81 (2%)

Query: 5  SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDR 64
           +         +  +      Y   + NLP G +  D++    E  L +        T  
Sbjct: 8  HHHSSGLVPRGSHMSKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTF--SSVNTRD 65

Query: 65 FKGFCYVEFVDVENLRQALLK 85
          F G   +EF   E L +AL +
Sbjct: 66 FDGTGALEFPSEEILVEALER 86

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 44.1 bits (105), Expect = 4e-07
 Identities = 13/93 (13%), Positives = 39/93 (41%), Gaps = 11/93 (11%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
            +   +  FVGN+    T  ++   F  + +++   +V        K + +V      + 
Sbjct: 5   SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVV--------KDYAFVHMEKEADA 56

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRNDNKGG 111
           + A+ + +G+  V G ++ ++++   +  +   
Sbjct: 57  KAAIAQLNGK-EVKGKRINVELSTKGQKKSGPS 88

>2cpd_A Apobec-1 stimulating protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 99

 Score = 44.2 bits (105), Expect = 5e-07
 Identities = 19/86 (22%), Positives = 41/86 (47%), Gaps = 7/86 (8%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
             +V NL    ++  +E+ F   K  +V  VK     + + + +V F + E+  +A+   
Sbjct: 17  ILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK-----KIRDYAFVHFSNREDAVEAMKAL 71

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGG 111
           +G++ +DG  + + +A     D+ G 
Sbjct: 72  NGKV-LDGSPIEVTLAKPVDKDSSGP 96

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 44.2 bits (105), Expect = 5e-07
 Identities = 22/95 (23%), Positives = 40/95 (42%), Gaps = 10/95 (10%)

Query: 12  RYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCY 70
             G +  T     P    V N+P      D+ + F +  K++ V ++ ++     KGF +
Sbjct: 16  PRGSHMNTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGF 73

Query: 71  VEFVDVENLRQALLK------DGR-ITVDGLQVRL 98
           V F +  +  +A  K      +GR I V+    R+
Sbjct: 74  VTFENSADADRAREKLHGTVVEGRKIEVNNATARV 108

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 43.2 bits (103), Expect = 7e-07
 Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 4/75 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG L    T  DV+ +F EQ  K+    L+ DK T+R +GF +V F   + + +     
Sbjct: 3   FVGGLSVNTTVEDVKHYF-EQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIH 61

Query: 87  GRITVDGLQVRLDIA 101
               ++   V    A
Sbjct: 62  FH-EINNKMVECKKA 75

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 43.8 bits (104), Expect = 8e-07
 Identities = 14/75 (18%), Positives = 32/75 (42%), Gaps = 9/75 (12%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
          TA++GN+P+  T+ D+   F +    ++  +   +      KG C++++   E     ++
Sbjct: 29 TAYIGNIPHFATEADLIPLF-QNFGFILDFKHYPE------KGCCFIKYDTHEQAAVCIV 81

Query: 85 KDGRITVDGLQVRLD 99
                  G  +R  
Sbjct: 82 ALANFPFQGRNLRTG 96

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 43.4 bits (103), Expect = 9e-07
 Identities = 21/85 (24%), Positives = 41/85 (48%), Gaps = 5/85 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
            V  LP   T+ D++ +F     +++ V++ KD +T   KGF +V F + E   + +   
Sbjct: 19  IVLGLPWKTTEQDLKEYF-STFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVM--S 75

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
            R  +DG      + + K++ + G 
Sbjct: 76  QRHMIDGRWCDCKLPNSKQSQDSGP 100

>1x5t_A Splicing factor 3B subunit 4; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 96

 Score = 43.0 bits (102), Expect = 1e-06
 Identities = 17/96 (17%), Positives = 41/96 (42%), Gaps = 5/96 (5%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
           +      F+GNL   I +  +   F      L + ++++D +T   KG+ ++ F   +  
Sbjct: 2   SSGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDAS 61

Query: 80  RQALLK-DGRITVDGLQVRLDIADGKRNDNKGGFNN 114
             A+   +G+  +    + +  A  K++    G ++
Sbjct: 62  DAAIEAMNGQY-LCNRPITVSYA-FKKDSKGSGPSS 95

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A Length = 103

 Score = 43.0 bits (102), Expect = 1e-06
 Identities = 24/99 (24%), Positives = 45/99 (45%), Gaps = 13/99 (13%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
           FV NL N +T+  +E+ F  Q  KL  V+ +KD        + ++ F + +   +A+ + 
Sbjct: 15  FVRNLANTVTEEILEKAF-SQFGKLERVKKLKD--------YAFIHFDERDGAVKAMEEM 65

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           +G+  ++G  + +  A       K     +Q   G S G
Sbjct: 66  NGKD-LEGENIEIVFAKPPDQKRKERKAQRQAASGPSSG 103

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A Length = 88

 Score = 42.8 bits (101), Expect = 1e-06
 Identities = 13/76 (17%), Positives = 26/76 (34%), Gaps = 6/76 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
            V NLP      +V     +        +K    DR K   +V  ++ E  + A+    +
Sbjct: 9   LVKNLPQDSNCQEVHDLLKDYD------LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQ 62

Query: 89  ITVDGLQVRLDIADGK 104
            +  G  + + +    
Sbjct: 63  YSFRGKDLIVQLQPTD 78

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 42.5 bits (101), Expect = 1e-06
 Identities = 19/75 (25%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+G L    TQ  +  +F  Q  ++    +++D  T R +GF +V F+D   + +  L  
Sbjct: 4   FIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV-LAQ 61

Query: 87  GRITVDGLQVRLDIA 101
            R  +D   +   +A
Sbjct: 62  SRHELDSKTIDPKVA 76

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster} Length = 118

 Score = 43.1 bits (102), Expect = 1e-06
 Identities = 15/56 (26%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          F+ +LP   T  D+   F     ++S ++  DK+T   K F +V F + ++ + A+
Sbjct: 44 FIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAI 99

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 119

 Score = 43.0 bits (101), Expect = 2e-06
 Identities = 18/113 (15%), Positives = 35/113 (30%), Gaps = 9/113 (7%)

Query: 5   SYGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETD 63
           S G  P             P     +  LP  +T+G+V     P  K+ ++ ++K     
Sbjct: 11  SSGLVPRGSHMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG---- 66

Query: 64  RFKGFCYVEFVDVENLRQAL--LKDGRITVDGLQVRLDIADGKRNDNKGGFNN 114
             K   ++E    E     +         + G  + +  ++ K        N 
Sbjct: 67  --KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSNHKELKTDSSPNQ 117

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 85

 Score = 41.9 bits (99), Expect = 3e-06
 Identities = 14/81 (17%), Positives = 37/81 (45%), Gaps = 9/81 (11%)

Query: 21 PTEPPYTA-FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVEN 78
            +   T  +VG L + IT+ D+   F +  ++ ++ +V+       +   +++F   + 
Sbjct: 7  GEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR------QQCAFIQFATRQA 60

Query: 79 LRQALLK-DGRITVDGLQVRL 98
             A  K   ++ V+G ++ +
Sbjct: 61 AEVAAEKSFNKLIVNGRRLNV 81

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 108

 Score = 42.5 bits (100), Expect = 3e-06
 Identities = 19/114 (16%), Positives = 33/114 (28%), Gaps = 8/114 (7%)

Query: 12  RYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCY 70
             G +             V  LP   +  D++    E   +    + +D       G   
Sbjct: 2   SSGSSGGPPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGV 54

Query: 71  VEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGG 124
           VEFV  E++  A+ K         +        K +  +     +    G S G
Sbjct: 55  VEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSSGPSSG 108

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 41.9 bits (99), Expect = 3e-06
 Identities = 14/80 (17%), Positives = 37/80 (46%), Gaps = 12/80 (15%)

Query: 29  FVGNLP-NGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL-LK 85
           F+GNLP   +++ D+ R F     ++ + +           F +++F + +++R A+  +
Sbjct: 26  FIGNLPLKNVSKEDLFRIFSPYGHIMQINIKN--------AFGFIQFDNPQSVRDAIEXE 77

Query: 86  DGRITVDGLQVRLDIADGKR 105
                  G ++ L+++    
Sbjct: 78  SQE-MNFGKKLILEVSSSNA 96

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 42.2 bits (99), Expect = 3e-06
 Identities = 16/109 (14%), Positives = 35/109 (32%), Gaps = 11/109 (10%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVE 72
             +       P     +  LP  +T+G+V     P  K+ ++ ++K       K   ++E
Sbjct: 5   HHHHHHGSGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG------KNQAFIE 58

Query: 73  FVDVENLRQAL--LKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRG 119
               E     +         + G  + +  +     + K   +  Q R 
Sbjct: 59  MNTEEAANTMVNYYTSVTPVLRGQPIYIQFS--NHKELKTDSSPNQARA 105

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A Length = 115

 Score = 42.3 bits (100), Expect = 3e-06
 Identities = 14/56 (25%), Positives = 29/56 (51%), Gaps = 1/56 (1%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          F+ +LP      D+ + F     +VS ++  DK+T+  K F +V + +  + + A+
Sbjct: 29 FIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAI 84

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 41.8 bits (99), Expect = 4e-06
 Identities = 15/85 (17%), Positives = 37/85 (43%), Gaps = 12/85 (14%)

Query: 29  FVGNLP-NGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
           F+GNLP   +++ D+ R F P   ++ + +           F +++F + +++R A+   
Sbjct: 14  FIGNLPLKNVSKEDLFRIFSPYGHIMQINIKN--------AFGFIQFDNPQSVRDAIECE 65

Query: 86  DGRITVDGLQVRLDIADGKRNDNKG 110
                  G ++ L+++         
Sbjct: 66  SQE-MNFGKKLILEVSSSNARPQFD 89

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 116

 Score = 41.9 bits (99), Expect = 5e-06
 Identities = 20/85 (23%), Positives = 37/85 (43%), Gaps = 4/85 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+G L    T+  +  ++ EQ  KL    +++D  + R +GF +V F  +  +  A+   
Sbjct: 31  FIGGLSFETTEESLRNYY-EQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAAR 89

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
              ++DG  V    A  +     G 
Sbjct: 90  PH-SIDGRVVEPKRAVAREESGSGP 113

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 41.5 bits (98), Expect = 5e-06
 Identities = 19/85 (22%), Positives = 32/85 (37%), Gaps = 9/85 (10%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FV   P G+    +  +F      + SV + KDK       F  VE  DV      L + 
Sbjct: 12  FVSGFPRGVDSAQLSEYF-LAFGPVASVVMDKDK-----GVFAIVEMGDVGAREAVLSQS 65

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
              ++ G ++R+   + K   +   
Sbjct: 66  Q-HSLGGHRLRVRPREQKEFQSPAS 89

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 41.4 bits (98), Expect = 5e-06
 Identities = 18/90 (20%), Positives = 43/90 (47%), Gaps = 6/90 (6%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG +   + + ++  FF  +   +  V+++ D+ T   KG+ +V F +  ++++ +   
Sbjct: 13  FVGGIDVRMDETEIRSFF-ARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVESQ 70

Query: 87  GRITVDGLQVRLDIADGKRNDNKGGFNNKQ 116
             I   G +++L  A  K+N +      + 
Sbjct: 71  --INFHGKKLKLGPAIRKQNLSTYHVQPRP 98

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 105

 Score = 41.5 bits (98), Expect = 5e-06
 Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 4/85 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG L    TQ  +  +F  Q  ++V   ++KDK T++ +GF +V+F D   +    L  
Sbjct: 20  FVGGLDWSTTQETLRSYF-SQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTV-LAS 77

Query: 87  GRITVDGLQVRLDIADGKRNDNKGG 111
              T+DG  +       +     G 
Sbjct: 78  RPHTLDGRNIDPKPCTPRGMQPSGP 102

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A Length = 87

 Score = 41.0 bits (97), Expect = 5e-06
 Identities = 18/75 (24%), Positives = 35/75 (46%), Gaps = 4/75 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG L    ++ D++ +F  +  ++V   +  D  T R +GF ++ F D  ++ +  L  
Sbjct: 15  FVGGLSWDTSKKDLKDYF-TKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKV-LDQ 72

Query: 87  GRITVDGLQVRLDIA 101
               +DG  +    A
Sbjct: 73  KEHRLDGRVIDPKKA 87

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus} Length = 109

 Score = 41.5 bits (98), Expect = 6e-06
 Identities = 21/83 (25%), Positives = 38/83 (45%), Gaps = 4/83 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+G L    TQ  +  +F  Q  ++    +++D  T R +GF +V F+D   + +  L  
Sbjct: 29  FIGGLSWQTTQEGLREYF-GQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKV-LAQ 86

Query: 87  GRITVDGLQVRLDIADGKRNDNK 109
            R  +D   +   +A  +R   K
Sbjct: 87  SRHELDSKTIDPKVAFPRRAQPK 109

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 41.3 bits (97), Expect = 6e-06
 Identities = 17/103 (16%), Positives = 37/103 (35%), Gaps = 11/103 (10%)

Query: 8   GYPERYGRNQKTLPTEPPYTA--FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDR 64
           G+   +       P + P +    +  L +G+ + D+         +  V ++       
Sbjct: 2   GHHHHHHMENYDDPHKTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK----- 56

Query: 65  FKGFCYVEFVDVENLRQAL--LKDGRITVDGLQVRLDIADGKR 105
            K    VEF DV     A+    D +I + G    ++ +  ++
Sbjct: 57  -KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYSTSQK 98

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 41.1 bits (97), Expect = 9e-06
 Identities = 17/103 (16%), Positives = 36/103 (34%), Gaps = 12/103 (11%)

Query: 7   GGYPERYGRNQKTLPTEPPYTA-FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDR 64
            G   R          E   T  FV   P  + + ++   F     +  V+++       
Sbjct: 12  SGLVPRGSHMHHRQEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL------- 64

Query: 65  FKGFCYVEFVDVENLRQALLK-DGRITVDGLQVRLDIADGKRN 106
             GF +VEF + E+  +A+ +  G+ +     + +  +     
Sbjct: 65  -NGFAFVEFEEAESAAKAIEEVHGK-SFANQPLEVVYSKLPAK 105

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 101

 Score = 40.6 bits (95), Expect = 1e-05
 Identities = 12/91 (13%), Positives = 30/91 (32%), Gaps = 9/91 (9%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVE 72
           G +   +   P     +  LP  +T+ +V     P  K+ ++ ++K       K   ++E
Sbjct: 4   GSSGDKMDGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG------KNQAFLE 57

Query: 73  FVDVENLRQAL--LKDGRITVDGLQVRLDIA 101
               E     +         +    + +  +
Sbjct: 58  LATEEAAITMVNYYSAVTPHLRNQPIYIQYS 88

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 42.0 bits (98), Expect = 1e-05
 Identities = 6/63 (9%), Positives = 14/63 (22%), Gaps = 1/63 (1%)

Query: 24  PPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
           P       N P  +T+ +               +              +E+    +  + 
Sbjct: 122 PSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALET 181

Query: 83  LLK 85
           L  
Sbjct: 182 LGF 184

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 88

 Score = 40.3 bits (95), Expect = 1e-05
 Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 10/87 (11%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG     +T+ ++  FF  Q   ++ V + K      F+ F +V F D +  +    +D
Sbjct: 9   FVGRCTGDMTEDELREFF-SQYGDVMDVFIPKP-----FRAFAFVTFADDQIAQSLCGED 62

Query: 87  GRITVDGLQVRLDIADGKRNDNKGGFN 113
             I   G+ V +  A+ K N N G  +
Sbjct: 63  LII--KGISVHISNAEPKHNSNSGPSS 87

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A Length = 105

 Score = 40.3 bits (95), Expect = 1e-05
 Identities = 21/88 (23%), Positives = 35/88 (39%), Gaps = 7/88 (7%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           FVG L    ++ DV R F P   +    +++       KG  +V+F      + A+    
Sbjct: 19  FVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGSSKGCAFVKFSSHTEAQAAIHALH 77

Query: 87  GRITVDG----LQVRLDIADGKRNDNKG 110
           G  T+ G    L V+    D +   + G
Sbjct: 78  GSQTMPGASSSLVVKFADTDKESGPSSG 105

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 Length = 198

 Score = 41.4 bits (97), Expect = 2e-05
 Identities = 15/100 (15%), Positives = 34/100 (34%), Gaps = 9/100 (9%)

Query: 7   GGYPERYGRNQKTLPTE---PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKET 62
                R+ +           P  T  + N+P  +++ D++  F     +V       K+ 
Sbjct: 99  NSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKD- 157

Query: 63  DRFKGFCYVEFVDVENLRQALLK-DGRITVDGLQVRLDIA 101
              +    ++   VE   QAL+        +   +R+  +
Sbjct: 158 ---RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS 194

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1 Length = 104

 Score = 39.0 bits (91), Expect = 5e-05
 Identities = 17/109 (15%), Positives = 37/109 (33%), Gaps = 11/109 (10%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVE 72
           G +             V  L   + + D+         +  V ++        K    VE
Sbjct: 4   GSSGSHHKVSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF------KRQALVE 57

Query: 73  FVDVENLRQAL--LKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRG 119
           F ++++ ++ +    D  + + G Q   + +  KR    G  N+  + G
Sbjct: 58  FENIDSAKECVTFAADVPVYIAGQQAFFNYSTSKRITRPG--NSGPSSG 104

>3ns6_A Eukaryotic translation initiation factor 3 subuni; 1.25A {Saccharomyces cerevisiae} PDB: 3ns5_A Length = 100

 Score = 38.6 bits (90), Expect = 6e-05
 Identities = 11/70 (15%), Positives = 30/70 (42%), Gaps = 7/70 (10%)

Query: 29 FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-- 85
           + +    + +  +   F +  K+V++    D+ T + KGF +VE   + + ++ +    
Sbjct: 16 VIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFH 75

Query: 86 ----DGRITV 91
              D +  +
Sbjct: 76 GKRLDLKHRL 85

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 39.3 bits (92), Expect = 1e-04
 Identities = 21/112 (18%), Positives = 41/112 (36%), Gaps = 4/112 (3%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL--LK 85
            V NL   ++   +E+ F +   +    +V D +  R  G  +VEF      R+AL    
Sbjct: 100 TVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERCG 158

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMGGNKYNQHQDKG 137
           DG   +      + +   ++ D++ G   K  +          +  +    G
Sbjct: 159 DGAFLLTTTPRPVIVEPMEQFDDEDGLPEKLMQKTQQYHKEREQPPRFAQPG 210

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B Length = 261

 Score = 38.5 bits (90), Expect = 2e-04
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 9/80 (11%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVGNLP  IT+ D +R F E+  +   V + +D+      GF ++          A  + 
Sbjct: 26  FVGNLPTDITEEDFKRLF-ERYGEPSEVFINRDR------GFGFIRLESRTLAEIAKAEL 78

Query: 87  GRITVDGLQVRLDIADGKRN 106
               +    +R+  A     
Sbjct: 79  DGTILKSRPLRIRFATHGAA 98

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 97

 Score = 37.6 bits (88), Expect = 1e-04
 Identities = 15/73 (20%), Positives = 30/73 (41%), Gaps = 11/73 (15%)

Query: 29 FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK- 85
          +VG L    +   + R F ++   + ++  VK         F Y+++  ++  + A  K 
Sbjct: 21 WVGGLGPNTSLAALAREF-DRFGSIRTIDHVKG------DSFAYIQYESLDAAQAACAKM 73

Query: 86 DGRITVDGLQVRL 98
           G   + G   RL
Sbjct: 74 RGFP-LGGPDRRL 85

>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 = 1e-04
 Identities = 10/86 (11%), Positives = 27/86 (31%), Gaps = 2/86 (2%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDRFKGFCYVEFVDVEN 78
            TEP     + N+   + +  ++            +  +    +D   G  Y+ F   E+
Sbjct: 25  HTEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDLSDDNSGKAYIVFATQES 84

Query: 79  LRQALLKDGRITVDGLQVRLDIADGK 104
            +  +         G  + +  ++  
Sbjct: 85  AQAFVEAFQGYPFQGNPLVITFSETP 110

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus} Length = 89

 Score = 37.2 bits (87), Expect = 2e-04
 Identities = 22/81 (27%), Positives = 38/81 (46%), Gaps = 10/81 (12%)

Query: 29  FVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           FVG     +T  ++++FF  Q  ++V V + K      F+ F +V F D +  +    +D
Sbjct: 15  FVGRCTEDMTAEELQQFF-CQYGEVVDVFIPKP-----FRAFAFVTFADDKVAQSLCGED 68

Query: 87  GRITVDGLQVRLDIADGKRND 107
             I   G+ V +  A+ K N 
Sbjct: 69  LII--KGISVHISNAEPKHNK 87

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A Length = 229

 Score = 38.8 bits (90), Expect = 2e-04
 Identities = 18/102 (17%), Positives = 37/102 (36%), Gaps = 10/102 (9%)

Query: 6   YGGYP-ERYGRNQKTLPTE---PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDK 60
           YG  P  R+ +           P  T  + N+P  +++ D++  F     +V       K
Sbjct: 128 YGNSPLHRFKKPGSKNFQNIFPPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK 187

Query: 61  ETDRFKGFCYVEFVDVENLRQALLK-DGRITVDGLQVRLDIA 101
           +    +    ++   VE   QAL+        +   +R+  +
Sbjct: 188 D----RKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFS 225

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 37.5 bits (87), Expect = 2e-04
 Identities = 14/80 (17%), Positives = 29/80 (36%), Gaps = 7/80 (8%)

Query: 29  FVGNLPNGITQGDVER----FFPEQKLVSVRLVKDKETDRFK---GFCYVEFVDVENLRQ 81
           FV  L   +   +V +    F    K+  V +         +      YV ++  E+  +
Sbjct: 19  FVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALR 78

Query: 82  ALLKDGRITVDGLQVRLDIA 101
           A+     + VDG  ++  + 
Sbjct: 79  AIQCVNNVVVDGRTLKASLG 98

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A Length = 115

 Score = 37.1 bits (86), Expect = 3e-04
 Identities = 20/122 (16%), Positives = 39/122 (31%), Gaps = 15/122 (12%)

Query: 8   GYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFK 66
           G   R      +  +E      V  LP   +  D++    E   +    + +D       
Sbjct: 1   GGAPRGRYGPPSRRSE--NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD------- 51

Query: 67  GFCYVEFVDVENLRQALLK-DGRI----TVDGLQVRLDIADGKRNDNKGGFNNKQNRGGG 121
           G   VEFV  E++  A+ K D         +   +R+ +   +        +  ++R   
Sbjct: 52  GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRS 111

Query: 122 SG 123
             
Sbjct: 112 RS 113

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 36.7 bits (85), Expect = 3e-04
 Identities = 11/57 (19%), Positives = 20/57 (35%), Gaps = 2/57 (3%)

Query: 29 FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           + N+P  +    ++      +   V   +   TD       V +   +  RQAL K
Sbjct: 19 QIRNIPPHLQWEVLDSLL--VQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDK 73

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens} Length = 143

 Score = 37.1 bits (86), Expect = 4e-04
 Identities = 13/73 (17%), Positives = 29/73 (39%), Gaps = 6/73 (8%)

Query: 17  QKTLPTEPPYTAFVGNLPNGITQGDVERFFPE------QKLVSVRLVKDKETDRFKGFCY 70
           +   P EP    +V NL   + + D++  F        +    +  ++  +  R KG  +
Sbjct: 37  RSYEPGEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAF 96

Query: 71  VEFVDVENLRQAL 83
           +   + +   +AL
Sbjct: 97  IGLPNEKAAAKAL 109

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 36.5 bits (85), Expect = 5e-04
 Identities = 10/56 (17%), Positives = 26/56 (46%), Gaps = 2/56 (3%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
          ++ NLP  + + ++E    P  +++S R+++D  +   +G  +      E     +
Sbjct: 29 YISNLPLSMDEQELENMLKPFGQVISTRILRD-SSGTSRGVGFARMESTEKCEAVI 83

>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 = 36.3 bits (84), Expect = 5e-04
 Identities = 15/76 (19%), Positives = 24/76 (31%), Gaps = 7/76 (9%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
                NLP G    +++  F     L  V L              VEF++    R+A   
Sbjct: 12  VILAKNLPAGTLAAEIQETFSRFGSLGRVLL------PEGGITAIVEFLEPLEARKAFRH 65

Query: 86  DGRITVDGLQVRLDIA 101
                   + + L+ A
Sbjct: 66  LAYSKFHHVPLYLEWA 81

>2dgv_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} PDB: 2dh9_A Length = 92

 Score = 36.0 bits (84), Expect = 5e-04
 Identities = 19/95 (20%), Positives = 33/95 (34%), Gaps = 13/95 (13%)

Query: 19  TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVE 77
           +  +      FV NLP   T   ++  F E   ++   +  +    + KG   V+F   E
Sbjct: 2   SSGSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPE 59

Query: 78  NLRQALLK------DGRITVDGLQVRLDIADGKRN 106
              +A          GR     + VR+D      +
Sbjct: 60  VAERACRMMNGMKLSGRE----IDVRIDRNASGPS 90

>2do0_A HnRNP M, heterogeneous nuclear ribonucleoprotein M; RNA recognition motif, RRM, RNA binding domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 36.1 bits (84), Expect = 5e-04
 Identities = 21/102 (20%), Positives = 41/102 (40%), Gaps = 10/102 (9%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
           FV NL   +    ++  F     +V   +++DK+  + +G   V F       QA+   +
Sbjct: 19  FVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD-GKSRGIGTVTFEQSIEAVQAISMFN 77

Query: 87  GRITVDG--LQVRLDIADGKRNDNKGGFNNKQNRGGGSGGMG 126
           G++ +    + V++D    +R   KG F   +         G
Sbjct: 78  GQL-LFDRPMHVKMD----ERALPKGDFFPPERPQQSGPSSG 114

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	137
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.86
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.85
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.84
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.84
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.84
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.84
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.83
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.83
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.83
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.83
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.83
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.83
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.83
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.83
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.82
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.82
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.82
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.82
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.82
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.82
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.82
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.82
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.82
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.81
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	99.81
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.81
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.81
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.81
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.81
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.81
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.81
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.8
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.8
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.8
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.8
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.8
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.8
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.8
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.8
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.8
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.8
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.8
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.8
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.8
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.8
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.8
2div_A	99	TRNA selenocysteine associated protein; structural	99.8
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.8
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.79
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.79
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.79
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.79
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.79
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.79
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.79
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.79
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.79
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.79
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.79
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.78
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.78
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.78
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.78
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.78
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.78
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.78
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.77
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.77
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.77
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.77
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.77
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.77
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.76
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.76
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.76
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.76
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.76
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.76
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.76
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.76
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.76
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.76
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.75
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.75
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.75
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.75
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.75
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.75
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.75
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.75
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.75
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.75
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	99.6
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.74
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.74
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.74
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.74
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.74
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.74
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.74
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.74
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.74
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.74
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.74
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.74
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.73
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.73
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.73
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.72
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.72
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.72
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.72
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.72
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.71
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.71
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.71
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.71
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.71
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.71
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.71
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.71
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.7
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.7
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.7
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.7
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.7
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.7
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.7
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.69
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.69
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.69
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.69
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.69
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.69
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.69
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.68
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.68
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.68
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.68
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.68
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.68
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.68
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.67
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.67
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.67
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.67
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.67
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.66
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.66
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.66
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.66
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.66
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.65
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.65
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.65
1x5p_A	97	Negative elongation factor E; structure genomics,	99.65
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	99.64
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.62
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.62
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.61
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.61
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.6
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.6
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.6
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.59
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.59
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.59
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.59
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.58
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.58
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.56
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.56
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.56
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	99.56
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.56
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.56
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.55
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.55
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	99.54
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.54
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.54
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.53
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.53
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.51
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.51
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.5
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.48
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.47
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.47
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.44
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.44
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.41
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.41
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.4
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.39
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.38
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.38
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.35
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.34
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.34
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.29
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	99.22
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.2
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.09
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	99.06
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.98
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.66
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.59
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	98.29
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	97.8
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	97.74
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	97.64
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	97.63
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	97.37
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	97.0
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	96.64
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	95.53
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	94.63
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	94.14
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	92.53
3d45_A	507	Poly(A)-specific ribonuclease PARN; CAP analogue,	90.67

>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X

Probab=99.86  E-value=4.1e-21  Score=128.04  Aligned_cols=89  Identities=24%  Similarity=0.400  Sum_probs=81.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++||. |++ ..|.++.|.|.
T Consensus        36 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~  114 (156)
T 1h2v_Z           36 LKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYING-TRLDDRIIRTD  114 (156)
T ss_dssp             TTTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTT-SEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCC-CEECCeEEEEE
Confidence            3467899999999999999999999999 99999999999999999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCCCCCC
Q psy13181        100 IADGKRNDNKGG  111 (137)
Q Consensus       100 ~a~~~~~~~~~~  111 (137)
                      ++.+....++.+
T Consensus       115 ~a~~~~~~~~~~  126 (156)
T 1h2v_Z          115 WDAGFKEGRQYG  126 (156)
T ss_dssp             EESCCCTTCC--
T ss_pred             ECCCCCCcCCCC
Confidence            999877655433

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=99.85  E-value=7.1e-21  Score=118.16  Aligned_cols=79  Identities=20%  Similarity=0.433  Sum_probs=75.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||.++++++|+++|++| .|..|.+++++.++.++|||||+|.+.++|.+|+. |++ ..|.|+.|+|.+|
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng-~~~~gr~l~V~~A   96 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNG-LRLQSKTIKVSYA   96 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEEC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEe
Confidence            45789999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CC
Q psy13181        102 DG  103 (137)
Q Consensus       102 ~~  103 (137)
                      +|
T Consensus        97 kP   98 (99)
T 4fxv_A           97 RP   98 (99)
T ss_dssp             CB
T ss_pred             eC
Confidence            75

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

Probab=99.84  E-value=1.5e-19  Score=112.55  Aligned_cols=91  Identities=54%  Similarity=0.985  Sum_probs=82.7

Q ss_pred             CCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEE
Q psy13181         17 QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV   96 (137)
Q Consensus        17 ~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l   96 (137)
                      ..+.+....++|||+|||..+++++|+++|++|.|..|.++.++.++.+++||||+|.+.++|++|+.|++ ..|.++.|
T Consensus         7 ~~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~gi~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~l   85 (103)
T 2dng_A            7 GKELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLSIRSVRLVRDKDTDKFKGFCYVEFDEVDSLKEALTYDG-ALLGDRSL   85 (103)
T ss_dssp             CCCCCSSSCEEEEEESCCTTCCHHHHHHHTTTSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHGGGTT-CEETTEEC
T ss_pred             CCCCCCCCCeEEEEeCCCCCCCHHHHHHHHHhCCceEEEEeecCCCCccceEEEEEECCHHHHHHHHhhCC-CeECCeEE
Confidence            34555667899999999999999999999999999999999999999999999999999999999999999 99999999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.++....
T Consensus        86 ~V~~a~~~~~~~   97 (103)
T 2dng_A           86 RVDIAEGRKQDK   97 (103)
T ss_dssp             EEEECCCCCCCC
T ss_pred             EEEEecCCCCCC
Confidence            999998766543

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

Probab=99.84  E-value=2.3e-19  Score=113.78  Aligned_cols=90  Identities=29%  Similarity=0.431  Sum_probs=82.2

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++|+. |++ ..|.++.|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l   87 (115)
T 2dgo_A            9 KKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGG-QWLGGRQI   87 (115)
T ss_dssp             CCCSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTT-CEETTEEC
T ss_pred             CCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCC-CEECCEEE
Confidence            3344567899999999999999999999999 99999999998899999999999999999999999 999 99999999


Q ss_pred             EEEecCCCCCCCC
Q psy13181         97 RLDIADGKRNDNK  109 (137)
Q Consensus        97 ~v~~a~~~~~~~~  109 (137)
                      .|.++.++.....
T Consensus        88 ~V~~a~~~~~~~~  100 (115)
T 2dgo_A           88 RTNWATRKPPAPK  100 (115)
T ss_dssp             EEEESSCCCCCSC
T ss_pred             EEEEccCCCCCCc
Confidence            9999998765443

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

Probab=99.84  E-value=7e-20  Score=119.78  Aligned_cols=86  Identities=19%  Similarity=0.379  Sum_probs=79.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|+.| .|..|.++.++.+++++++|||+|.+.++|.+|+. |++ ..|.++.|+|.
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~  117 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNG-FNILNKRLKVA  117 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTT-EECSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCC-CEECCeEEEEE
Confidence            3456899999999999999999999999 99999999999999999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCCC
Q psy13181        100 IADGKRNDN  108 (137)
Q Consensus       100 ~a~~~~~~~  108 (137)
                      ++.++....
T Consensus       118 ~a~~~~~~~  126 (139)
T 1u6f_A          118 LAASGHQRP  126 (139)
T ss_dssp             ESSCCCCCC
T ss_pred             ECCCCCCCC
Confidence            998776543

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

Probab=99.84  E-value=6.1e-20  Score=112.63  Aligned_cols=86  Identities=27%  Similarity=0.431  Sum_probs=79.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|.+
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~V~~   81 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDSDTGRSKGYGFITFSDSECARRALEQLNG-FELAGRPMRVGH   81 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCSSSCCCCSEEEEEESCHHHHHHHHHHHTT-CCSSSSCCEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHhCC-CeeCCcEEEEEE
Confidence            456899999999999999999999999 99999999999899999999999999999999999 999 999999999999


Q ss_pred             cCCCCCCCC
Q psy13181        101 ADGKRNDNK  109 (137)
Q Consensus       101 a~~~~~~~~  109 (137)
                      +.++.....
T Consensus        82 a~~~~~~~~   90 (95)
T 2dnz_A           82 VTERLDGGS   90 (95)
T ss_dssp             SSCCCCCCC
T ss_pred             cccccCCCC
Confidence            987765443

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

Probab=99.83  E-value=2.6e-19  Score=113.75  Aligned_cols=91  Identities=18%  Similarity=0.315  Sum_probs=80.7

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      +......++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++|+. +++  .|.++.|
T Consensus        11 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~--~~~g~~l   88 (116)
T 2cqd_A           11 SQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP--IIDGRKA   88 (116)
T ss_dssp             CCCSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC--EETTEEC
T ss_pred             CcCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC--cCCCEEE
Confidence            3445567899999999999999999999999 99999999999999999999999999999999999 775  6999999


Q ss_pred             EEEecCCCCCCCCCC
Q psy13181         97 RLDIADGKRNDNKGG  111 (137)
Q Consensus        97 ~v~~a~~~~~~~~~~  111 (137)
                      .|.++.+....+...
T Consensus        89 ~V~~a~~~~~~~~~~  103 (116)
T 2cqd_A           89 NVNLAYLGAKPRSLQ  103 (116)
T ss_dssp             EEEESTTTCCCCCCC
T ss_pred             EEEEcccCCCccccC
Confidence            999998765554433

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=99.83  E-value=1.7e-20  Score=120.82  Aligned_cols=90  Identities=19%  Similarity=0.291  Sum_probs=81.8

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      +......++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|
T Consensus        16 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l   94 (126)
T 3ex7_B           16 PQRSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG-QDLMGQPI   94 (126)
T ss_dssp             BCCCSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTSSBCSCEEEEESSHHHHHHHHHHHTT-CBSSSSBC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCC-CeeCCeEE
Confidence            3444567899999999999999999999999 99999999998899999999999999999999999 999 99999999


Q ss_pred             EEEecCCCCCCCC
Q psy13181         97 RLDIADGKRNDNK  109 (137)
Q Consensus        97 ~v~~a~~~~~~~~  109 (137)
                      .|.++.++.....
T Consensus        95 ~v~~a~~~~~~~~  107 (126)
T 3ex7_B           95 SVDWCFVRGPPKG  107 (126)
T ss_dssp             EEEESEESSSCCC
T ss_pred             EEEEecCCCCCCC
Confidence            9999987765543

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

Probab=99.83  E-value=2.8e-19  Score=111.31  Aligned_cols=85  Identities=26%  Similarity=0.394  Sum_probs=79.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v~   90 (103)
T 2cq0_A           12 ADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG-FGYDHLILNVE   90 (103)
T ss_dssp             CSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTT-CEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeecCCCCceeeEEEEEECCHHHHHHHHHHcCC-CeeCCcEEEEE
Confidence            4567899999999999999999999999 99999999999899999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      ++.++...
T Consensus        91 ~a~~~~~~   98 (103)
T 2cq0_A           91 WAKPSTNS   98 (103)
T ss_dssp             ESSCCCCS
T ss_pred             ECCCCCCC
Confidence            99877644

>1wi8_A EIF-4B, eukaryotic translation initiation factor 4B; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=1.7e-19  Score=112.54  Aligned_cols=91  Identities=36%  Similarity=0.720  Sum_probs=82.1

Q ss_pred             CCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCC-CCeecEEEEEEcCHHHHHHHHHhCCCeeecCeE
Q psy13181         17 QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKET-DRFKGFCYVEFVDVENLRQALLKDGRITVDGLQ   95 (137)
Q Consensus        17 ~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t-~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~   95 (137)
                      ..+.+..+.++|||+|||..+++++|+++|++|.|..|.++.++.+ +.+++||||+|.+.++|++||.|++ ..|.++.
T Consensus         7 ~~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~Gi~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~   85 (104)
T 1wi8_A            7 GSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE-ESLGNKR   85 (104)
T ss_dssp             CCCCCSSSCEEEEEESCCSSCCHHHHHHHTTTSCEEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGT-CEETTEE
T ss_pred             CCCCCCCCCCEEEEeCCCCcCCHHHHHHHHHHCCceEEEEecCCCCCCCcCeEEEEEECCHHHHHHHHhcCC-CEeCCcE
Confidence            3455566779999999999999999999999998889999999887 8999999999999999999999999 9999999


Q ss_pred             EEEEecCCCCCCC
Q psy13181         96 VRLDIADGKRNDN  108 (137)
Q Consensus        96 l~v~~a~~~~~~~  108 (137)
                      |.|.++.++....
T Consensus        86 l~V~~a~~~~~~~   98 (104)
T 1wi8_A           86 IRVDVADQAQDKD   98 (104)
T ss_dssp             CEEEECCCCCCCC
T ss_pred             EEEEEccCCCCCC
Confidence            9999998876544

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

Probab=99.83  E-value=1.6e-19  Score=111.68  Aligned_cols=87  Identities=21%  Similarity=0.398  Sum_probs=80.3

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|.+|+.+++ ..|.|+.|.|.
T Consensus         6 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~~~-~~~~g~~l~V~   84 (99)
T 2dgs_A            6 SGSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYDAEKQRPRGFGFITFEDEQSVDQAVNMHF-HDIMGKKVEVK   84 (99)
T ss_dssp             CCSSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCCTTTCSCCSEEEEEESSHHHHHHHHHHCC-CBSSSCBCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCCCceEEEEECCHHHHHHHHHhCC-CEECCeEEEEE
Confidence            34566899999999999999999999999 99999999999899999999999999999999999999 99999999999


Q ss_pred             ecCCCCCCC
Q psy13181        100 IADGKRNDN  108 (137)
Q Consensus       100 ~a~~~~~~~  108 (137)
                      ++.++....
T Consensus        85 ~a~~~~~~~   93 (99)
T 2dgs_A           85 RAEPRDSKS   93 (99)
T ss_dssp             ECCCCCCCC
T ss_pred             ECCCCcccC
Confidence            998776543

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

Probab=99.83  E-value=1.1e-19  Score=114.87  Aligned_cols=82  Identities=11%  Similarity=0.142  Sum_probs=77.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      .+.++|||+|||+.+++++|+++|++| .|..|.++.++.|++++|||||+|.+.++|++|+. ||+ ..|.|+.|.|.+
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng-~~~~gr~i~V~~   82 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHL-TSVMGNIIHAQL   82 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCC-CEECCeEEEEEE
Confidence            346799999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +...+
T Consensus        83 a~~~~   87 (110)
T 3s8s_A           83 DIKGQ   87 (110)
T ss_dssp             CSTTH
T ss_pred             CCCCc
Confidence            87543

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.83  E-value=9.8e-20  Score=113.69  Aligned_cols=88  Identities=23%  Similarity=0.382  Sum_probs=81.1

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++|+. |++ ..|.++.|.
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~   88 (105)
T 1x5u_A           10 SERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDM-IKLYGKPIR   88 (105)
T ss_dssp             CCCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSS-CBCSSCBCE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCcCCcEEEEEECCHHHHHHHHHHhCC-CeECCeEEE
Confidence            334567899999999999999999999999 99999999999889999999999999999999999 999 999999999


Q ss_pred             EEecCCCCCCC
Q psy13181         98 LDIADGKRNDN  108 (137)
Q Consensus        98 v~~a~~~~~~~  108 (137)
                      |.++.+++...
T Consensus        89 v~~a~~~~~~~   99 (105)
T 1x5u_A           89 VNKASAHNKNL   99 (105)
T ss_dssp             EEETTTTSCCC
T ss_pred             EEECCCCCcCC
Confidence            99998876544

>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A

Probab=99.83  E-value=2.3e-19  Score=113.78  Aligned_cols=90  Identities=18%  Similarity=0.306  Sum_probs=81.7

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++|+. |++ ..|.++.|
T Consensus        19 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l   97 (115)
T 2cpz_A           19 QKEGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNG-FQIGMKRL   97 (115)
T ss_dssp             CCCCSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CcCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCC-CEECCEEE
Confidence            3334566899999999999999999999999 99999999999899999999999999999999998 999 99999999


Q ss_pred             EEEecCCCCCCCC
Q psy13181         97 RLDIADGKRNDNK  109 (137)
Q Consensus        97 ~v~~a~~~~~~~~  109 (137)
                      +|.++.++.....
T Consensus        98 ~V~~a~~~~~~~~  110 (115)
T 2cpz_A           98 KVQLKRSKNDSKS  110 (115)
T ss_dssp             EEECCCCSCCCCC
T ss_pred             EEEEcCCCCcCCC
Confidence            9999988765443

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=2.4e-19  Score=110.75  Aligned_cols=86  Identities=24%  Similarity=0.320  Sum_probs=79.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|.
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~V~   83 (99)
T 1whw_A            5 SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDG-QVFQGRMLHVL   83 (99)
T ss_dssp             CCSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTT-EESSSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHhCC-CEECCcEEEEE
Confidence            3456899999999999999999999999 99999999998889999999999999999999998 999 99999999999


Q ss_pred             ecCCCCCCC
Q psy13181        100 IADGKRNDN  108 (137)
Q Consensus       100 ~a~~~~~~~  108 (137)
                      ++.++....
T Consensus        84 ~a~~~~~~~   92 (99)
T 1whw_A           84 PSTIKKEAS   92 (99)
T ss_dssp             ECCCCSTTC
T ss_pred             EcCCCcccc
Confidence            999876543

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

Probab=99.82  E-value=1.6e-19  Score=112.13  Aligned_cols=87  Identities=21%  Similarity=0.352  Sum_probs=80.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus         9 ~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~V~   87 (102)
T 2cqb_A            9 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNE-SELFGRTIRVN   87 (102)
T ss_dssp             CCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTT-EEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCC-CEECCcEEEEE
Confidence            4567899999999999999999999999 99999999998899999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCCCC
Q psy13181        100 IADGKRNDNK  109 (137)
Q Consensus       100 ~a~~~~~~~~  109 (137)
                      ++.++.....
T Consensus        88 ~a~~~~~~~~   97 (102)
T 2cqb_A           88 LAKPMRIKES   97 (102)
T ss_dssp             ECCCCCCCCC
T ss_pred             eCCCCCCCCC
Confidence            9987765443

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens}

Probab=99.82  E-value=1.7e-19  Score=114.82  Aligned_cols=87  Identities=21%  Similarity=0.446  Sum_probs=79.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++ ++.+++||||+|.+.++|++|+. |++ ..|.|+.|.|.
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~g~afV~F~~~~~A~~Ai~~l~g-~~~~g~~l~V~   81 (116)
T 2fy1_A            4 ADHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR-TSKSRGFAFITFENPADAKNAAKDMNG-KSLHGKAIKVE   81 (116)
T ss_dssp             TCSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST-TTTCCCEEEEECSSHHHHHHHHHHCSS-CBCSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCCcccEEEEEECCHHHHHHHHHHhCC-CEECCEEEEEE
Confidence            3456899999999999999999999999 99999999988 89999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCCCCC
Q psy13181        100 IADGKRNDNKG  110 (137)
Q Consensus       100 ~a~~~~~~~~~  110 (137)
                      ++.++......
T Consensus        82 ~a~~~~~~~~~   92 (116)
T 2fy1_A           82 QAKKPSFQSGG   92 (116)
T ss_dssp             ECCCSSCSSSS
T ss_pred             ECCCCCCCCCC
Confidence            99877654433

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=99.82  E-value=1.1e-19  Score=109.62  Aligned_cols=83  Identities=28%  Similarity=0.440  Sum_probs=74.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|++|+. |++ ..++|+.|.|.
T Consensus         3 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v~   81 (87)
T 3bs9_A            3 LGSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGG-QWLGGRQIRTN   81 (87)
T ss_dssp             ---CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCC-CEECCeEEEEE
Confidence            3466899999999999999999999999 99999999998899999999999999999999999 999 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      ++.+++
T Consensus        82 ~a~~kp   87 (87)
T 3bs9_A           82 WATRKP   87 (87)
T ss_dssp             EEC---
T ss_pred             ecCCCC
Confidence            998753

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

Probab=99.82  E-value=5.3e-19  Score=109.47  Aligned_cols=85  Identities=22%  Similarity=0.429  Sum_probs=78.6

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|..|.++.++ ++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.
T Consensus        12 ~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~   89 (100)
T 2do4_A           12 STSLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR-AGKPKGLAYVEYENESQASQAVMKMDG-MTIKENIIK   89 (100)
T ss_dssp             SSCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTT-EESSSCEEE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCCEEeEEEEEECCHHHHHHHHHHhCC-CEECCEEEE
Confidence            334567899999999999999999999999 99999999998 89999999999999999999998 999 999999999


Q ss_pred             EEecCCCCC
Q psy13181         98 LDIADGKRN  106 (137)
Q Consensus        98 v~~a~~~~~  106 (137)
                      |.++.+++.
T Consensus        90 v~~a~~~~~   98 (100)
T 2do4_A           90 VAISNSGPS   98 (100)
T ss_dssp             EEECCCCSC
T ss_pred             EEECCCCCC
Confidence            999987764

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

Probab=99.82  E-value=5.9e-19  Score=109.79  Aligned_cols=88  Identities=22%  Similarity=0.350  Sum_probs=79.5

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ........++|||+|||..+++++|+++|++| .|..|.++.+  ++.++++|||+|.+.++|.+|+. |++ ..|.++.
T Consensus         8 ~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~--~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~   84 (103)
T 2d9p_A            8 DRITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME--GGRSKGFGFVCFSSPEEATKAVTEMNG-RIVATKP   84 (103)
T ss_dssp             CCCCCSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC--SSSEEEEEEEEESSHHHHHHHHHHHTT-CBSSSSB
T ss_pred             CccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC--CCCcCEEEEEEECCHHHHHHHHHHhCC-CEeCCcE
Confidence            33445577899999999999999999999999 9999999987  78999999999999999999999 999 9999999


Q ss_pred             EEEEecCCCCCCC
Q psy13181         96 VRLDIADGKRNDN  108 (137)
Q Consensus        96 l~v~~a~~~~~~~  108 (137)
                      |.|.++.++....
T Consensus        85 l~V~~a~~~~~~~   97 (103)
T 2d9p_A           85 LYVALAQRKEERQ   97 (103)
T ss_dssp             CEEEECSSCCCCC
T ss_pred             EEEEEecccccCC
Confidence            9999998876543

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

Probab=99.82  E-value=1.4e-19  Score=112.73  Aligned_cols=86  Identities=26%  Similarity=0.400  Sum_probs=79.5

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|.|
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~V   87 (103)
T 2dnm_A            9 DVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPREPHTKAPRGFAFVRFHDRRDAQDAEAAMDG-AELDGRELRV   87 (103)
T ss_dssp             CCSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBCSSSCSBCSCEEEEESSSSHHHHHHHHHSS-CCBTTBCCEE
T ss_pred             CCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCCCeEEEEEECCHHHHHHHHHHcCC-CEECCcEEEE
Confidence            34567899999999999999999999999 99999999999999999999999999999999999 999 9999999999


Q ss_pred             EecCCCCCC
Q psy13181         99 DIADGKRND  107 (137)
Q Consensus        99 ~~a~~~~~~  107 (137)
                      .++.+....
T Consensus        88 ~~a~~~~~~   96 (103)
T 2dnm_A           88 QVARYGRRD   96 (103)
T ss_dssp             EECSSCCSC
T ss_pred             EECCcCCCC
Confidence            999866543

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=99.82  E-value=2.9e-19  Score=106.93  Aligned_cols=80  Identities=20%  Similarity=0.403  Sum_probs=76.2

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      +.+|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|++|+. |++ ..|+|+.|.|.++.
T Consensus         1 t~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g-~~~~g~~l~v~~a~   79 (83)
T 3md1_A            1 TFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG-QDLNGRPLRINWAA   79 (83)
T ss_dssp             CEEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTT-CEETTEECEEEECC
T ss_pred             CeEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcC-CeeCCcEEEEEecC
Confidence            3689999999999999999999999 99999999998899999999999999999999999 999 99999999999998


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      +++
T Consensus        80 ~~~   82 (83)
T 3md1_A           80 KLE   82 (83)
T ss_dssp             CCC
T ss_pred             cCC
Confidence            765

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.82  E-value=3.9e-19  Score=111.93  Aligned_cols=87  Identities=23%  Similarity=0.380  Sum_probs=80.3

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC------CCeee
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD------GRITV   91 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~------~~~~l   91 (137)
                      ......++|||+|||+.+++++|+++|.+| .|..|.++.++.++.+++||||+|.+.++|.+|+. ++      + ..|
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~-~~~   88 (111)
T 1x4h_A           10 SDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGG-LKL   88 (111)
T ss_dssp             CCCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCC-EES
T ss_pred             CcCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCC-cEE
Confidence            344567899999999999999999999999 99999999999999999999999999999999999 99      9 999


Q ss_pred             cCeEEEEEecCCCCCC
Q psy13181         92 DGLQVRLDIADGKRND  107 (137)
Q Consensus        92 ~g~~l~v~~a~~~~~~  107 (137)
                      +|+.|.|.++.++...
T Consensus        89 ~g~~l~v~~a~~~~~~  104 (111)
T 1x4h_A           89 DGRQLKVDLAVTRDEA  104 (111)
T ss_dssp             SSCEEEEECCCCCCCC
T ss_pred             cCEEEEEEECCCCccC
Confidence            9999999999877544

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

Probab=99.81  E-value=1.1e-19  Score=112.86  Aligned_cols=88  Identities=30%  Similarity=0.548  Sum_probs=80.8

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|
T Consensus         8 ~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v   86 (102)
T 1x5s_A            8 MASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNG-KSVDGRQIRV   86 (102)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTT-CCTTSCCCEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHhCC-CEECCeEEEE
Confidence            34567899999999999999999999999 99999999998889999999999999999999998 999 9999999999


Q ss_pred             EecCCCCCCCC
Q psy13181         99 DIADGKRNDNK  109 (137)
Q Consensus        99 ~~a~~~~~~~~  109 (137)
                      .++.++...+.
T Consensus        87 ~~a~~~~~~~~   97 (102)
T 1x5s_A           87 DQAGKSSDNRS   97 (102)
T ss_dssp             EEEECCCCCCC
T ss_pred             EECCCCCCCCC
Confidence            99987765543

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

Probab=99.81  E-value=8.4e-19  Score=108.88  Aligned_cols=84  Identities=32%  Similarity=0.465  Sum_probs=75.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .....++|||+|||..+++++|+++|+.|  ..|.++.++.++.+++||||+|.+.++|++||. |++ ..|.++.|.|.
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~--~~~~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~V~   87 (102)
T 2fc8_A           11 RSQPSKTLFVKGLSEDTTEETLKESFDGS--VRARIVTDRETGSSKGFGFVDFNSEEDAKAAKEAMED-GEIDGNKVTLD   87 (102)
T ss_dssp             SSCCCSSEEEECCCTTCCHHHHHHTSTTC--SEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCCEEEEeCCCCccCHHHHHHHhcCC--eEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhCC-CeECCeEEEEE
Confidence            34567899999999999999999999986  356677888889999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      +++++...
T Consensus        88 ~a~~~~~~   95 (102)
T 2fc8_A           88 WAKPKGEG   95 (102)
T ss_dssp             ECCCCCSS
T ss_pred             EecCCCCC
Confidence            99877654

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

Probab=99.81  E-value=4.6e-19  Score=112.06  Aligned_cols=86  Identities=23%  Similarity=0.327  Sum_probs=79.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-cee--------EEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCee
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLV--------SVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRIT   90 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~--------~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~   90 (137)
                      .....++|||+|||..+++++|+++|++| .|.        .|.++.++.++.+++||||+|.+.++|.+|+. |++ ..
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~   89 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDG-KD   89 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTT-CE
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEeCCCCCeeeEEEEEECCHHHHHHHHHHcCC-Cc
Confidence            34567899999999999999999999999 887        69999998899999999999999999999999 999 99


Q ss_pred             ecCeEEEEEecCCCCCC
Q psy13181         91 VDGLQVRLDIADGKRND  107 (137)
Q Consensus        91 l~g~~l~v~~a~~~~~~  107 (137)
                      |.++.|.|.++.++...
T Consensus        90 ~~g~~l~V~~a~~~~~~  106 (113)
T 2cpe_A           90 FQGSKLKVSLARKKPPM  106 (113)
T ss_dssp             ETTEECEEECSSCCCCS
T ss_pred             cCCCEEEEEECCCCCCC
Confidence            99999999999876654

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

Probab=99.81  E-value=5.4e-19  Score=108.27  Aligned_cols=83  Identities=24%  Similarity=0.414  Sum_probs=77.5

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ....+.++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|+++.|.
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~   88 (95)
T 2cqc_A           10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG-MELDGRRIR   88 (95)
T ss_dssp             CSCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTT-EEETTEEEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCC-CEECCEEEE
Confidence            334567899999999999999999999999 99999999999999999999999999999999999 999 999999999


Q ss_pred             EEecCC
Q psy13181         98 LDIADG  103 (137)
Q Consensus        98 v~~a~~  103 (137)
                      |.++++
T Consensus        89 v~~a~~   94 (95)
T 2cqc_A           89 VSGPSS   94 (95)
T ss_dssp             EECCSC
T ss_pred             EEecCC
Confidence            999864

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

Probab=99.81  E-value=3.2e-19  Score=109.56  Aligned_cols=84  Identities=18%  Similarity=0.316  Sum_probs=78.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEE-EEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSV-RLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i-~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ...++|||+|||..+++++|+++|++| .|..+ .++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v~   81 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNG-QYLCNRPITVS   81 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTT-CEETTEECEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCC-CEECCEEEEEE
Confidence            356899999999999999999999999 99999 999998899999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      ++.++...
T Consensus        82 ~a~~~~~~   89 (96)
T 1x5t_A           82 YAFKKDSK   89 (96)
T ss_dssp             ESCCCCCC
T ss_pred             EecccCCC
Confidence            99876543

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

Probab=99.81  E-value=3e-19  Score=111.29  Aligned_cols=86  Identities=29%  Similarity=0.454  Sum_probs=78.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcC-C-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCee-ecCeEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPE-Q-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRIT-VDGLQV   96 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~-~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~-l~g~~l   96 (137)
                      ...+.++|||+|||..+++++|+++|++ | .|..|.++.++ ++.+++||||+|.+.++|.+|+. |++ .. |.|+.|
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~~g~~l   82 (104)
T 2dhg_A            5 SSGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ-TGVSKGYGFVKFTDELEQKRALTECQG-AVGLGSKPV   82 (104)
T ss_dssp             CSSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT-TCCEEEEEEEEESCHHHHHHHHHHTTT-CCSSSSSCC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC-CCCccceEEEEECCHHHHHHHHHHccC-CcccCCEeE
Confidence            3456689999999999999999999999 9 99999999998 89999999999999999999999 999 88 999999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.++....
T Consensus        83 ~v~~a~~~~~~~   94 (104)
T 2dhg_A           83 RLSVAIPKASRV   94 (104)
T ss_dssp             CCCBCCCCCSCC
T ss_pred             EEEEccCCCcCC
Confidence            999998766443

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

Probab=99.81  E-value=3.8e-18  Score=107.88  Aligned_cols=83  Identities=18%  Similarity=0.217  Sum_probs=76.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|.+| .|..|.++.++ ++.++++|||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus        12 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~   89 (114)
T 2do0_A           12 GRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDK-DGKSRGIGTVTFEQSIEAVQAISMFNG-QLLFDRPMHVK   89 (114)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT-TCSEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCeeeEEEEEECCHHHHHHHHHHhCC-CEeCCCEEEEE
Confidence            4556899999999999999999999999 99999999987 58999999999999999999999 999 99999999999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      ++.....
T Consensus        90 ~a~~~~~   96 (114)
T 2do0_A           90 MDERALP   96 (114)
T ss_dssp             ECSCCCC
T ss_pred             EcccCCC
Confidence            9875443

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

Probab=99.81  E-value=6.7e-19  Score=110.14  Aligned_cols=88  Identities=23%  Similarity=0.379  Sum_probs=80.2

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeec-CCCCCeecEEEEEEcCHHHHHHHHH-h-CCCeeecCe
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKD-KETDRFKGFCYVEFVDVENLRQALL-K-DGRITVDGL   94 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~-~~t~~~~g~~fv~f~~~~~a~~al~-l-~~~~~l~g~   94 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++.+ +.++.+++||||+|.+.++|.+|+. | ++ ..|.++
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~~~-~~~~g~   87 (107)
T 2cph_A            9 VPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHS-THLYGR   87 (107)
T ss_dssp             SCCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTC-CBSSSC
T ss_pred             cccCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceEEEEECCHHHHHHHHHHhccC-CeECCC
Confidence            3344567899999999999999999999999 9999999998 7789999999999999999999999 9 89 999999


Q ss_pred             EEEEEecCCCCCC
Q psy13181         95 QVRLDIADGKRND  107 (137)
Q Consensus        95 ~l~v~~a~~~~~~  107 (137)
                      .|.|.++.++...
T Consensus        88 ~l~v~~a~~~~~~  100 (107)
T 2cph_A           88 RLVLEWADSEVTV  100 (107)
T ss_dssp             BCEEEECCCCCCC
T ss_pred             EEEEEeCCCCCCC
Confidence            9999999877654

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

Probab=99.80  E-value=8.2e-19  Score=107.34  Aligned_cols=81  Identities=28%  Similarity=0.454  Sum_probs=76.1

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v   90 (94)
T 2e5h_A           12 LAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDKDTRKSKGVAFILFLDKDSAQNCTRAINN-KQLFGRVIKA   90 (94)
T ss_dssp             CCCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCSSSCCCTTCEEEEESCHHHHHHHHHHTTT-EEETTEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCCcccEEEEEECCHHHHHHHHHHcCC-CeeCCcEEEE
Confidence            34566899999999999999999999999 99999999999889999999999999999999998 999 9999999999


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      .+++
T Consensus        91 ~~ak   94 (94)
T 2e5h_A           91 SIAI   94 (94)
T ss_dssp             EECC
T ss_pred             EecC
Confidence            9874

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

Probab=99.80  E-value=4.7e-20  Score=112.74  Aligned_cols=82  Identities=21%  Similarity=0.403  Sum_probs=74.6

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      .+|||+|||.+++|++|+++|++|  .|..|.+++++.|+.++|||||+|.+.++|.+|++ +++...++|++|.|.++.
T Consensus         2 ~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A            2 NIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             CEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEecCCCCCcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            589999999999999999999998  58899999999999999999999999999999998 743278999999999998


Q ss_pred             CCCCC
Q psy13181        103 GKRND  107 (137)
Q Consensus       103 ~~~~~  107 (137)
                      ++++.
T Consensus        82 ~~~~~   86 (91)
T 2lxi_A           82 PKPKI   86 (91)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            87643

>2kxn_B Transformer-2 protein homolog beta; SR protein, RRM, splicing factor, RNA protein complex, SMN, binding protein-RNA complex; NMR {Homo sapiens} PDB: 2rra_A 2rrb_A

Probab=99.80  E-value=2.4e-19  Score=116.25  Aligned_cols=87  Identities=26%  Similarity=0.439  Sum_probs=80.3

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .....+.++|||+|||..+++++|+++|++| .|..|.++.++.++..++||||+|.+.++|++|+. |++ ..|+|+.|
T Consensus        40 ~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~lng-~~i~g~~l  118 (129)
T 2kxn_B           40 RANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG-MELDGRRI  118 (129)
T ss_dssp             SSCCCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECCSSSSCCCCEEEEEESCHHHHHHHHHHHTT-CCSSSSCC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCC-CEECCEEE
Confidence            3444567899999999999999999999999 99999999999999999999999999999999999 999 99999999


Q ss_pred             EEEecCCCCC
Q psy13181         97 RLDIADGKRN  106 (137)
Q Consensus        97 ~v~~a~~~~~  106 (137)
                      .|.++.+++.
T Consensus       119 ~V~~a~~~~p  128 (129)
T 2kxn_B          119 RVDFSITKRP  128 (129)
T ss_dssp             EESCCSSSSC
T ss_pred             EEEEecCCCC
Confidence            9999987653

>2dgp_A Bruno-like 4, RNA binding protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dgq_A

Probab=99.80  E-value=2.7e-19  Score=111.85  Aligned_cols=88  Identities=18%  Similarity=0.358  Sum_probs=80.0

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee---cCe
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV---DGL   94 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l---~g~   94 (137)
                      .+....++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|.+|+. |++ ..+   .++
T Consensus         8 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~~~~g~   86 (106)
T 2dgp_A            8 MKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKDRFTGMHKGCAFLTYCERESALKAQSALHE-QKTLPGMNR   86 (106)
T ss_dssp             CCCTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCCSSSCSCCSEEEEEESSHHHHHHHHHHHTT-TCCCTTCSS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhcC-CcccCCCCc
Confidence            344567899999999999999999999999 99999999999999999999999999999999999 999 877   889


Q ss_pred             EEEEEecCCCCCCC
Q psy13181         95 QVRLDIADGKRNDN  108 (137)
Q Consensus        95 ~l~v~~a~~~~~~~  108 (137)
                      .|.|.++.++....
T Consensus        87 ~l~v~~a~~~~~~~  100 (106)
T 2dgp_A           87 PIQVKPADSESRGG  100 (106)
T ss_dssp             CCEEEECCCCSCCC
T ss_pred             eEEEEECCcccccC
Confidence            99999998776543

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=99.80  E-value=7.4e-19  Score=134.32  Aligned_cols=83  Identities=22%  Similarity=0.432  Sum_probs=77.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      .+..+|||+|||..+++++|..+|.+| .|..|.|+.++.++.++|||||+|.+.++|.+||. |++ ..|.|+.|.|.+
T Consensus       100 ~~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng-~~i~gr~i~V~~  178 (437)
T 3pgw_S          100 DAFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADG-KKIDGRRVLVDV  178 (437)
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            345799999999999999999999999 99999999998899999999999999999999998 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus       179 a~~~~~  184 (437)
T 3pgw_S          179 ERGRTV  184 (437)
T ss_pred             eCCCCC
Confidence            987653

>1wez_A HnRNP H', FTP-3, heterogeneous nuclear ribonucleoprotein H'; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.80  E-value=8.4e-19  Score=109.30  Aligned_cols=83  Identities=22%  Similarity=0.252  Sum_probs=75.0

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      .....++|||+|||+++++++|+++|++|.+..|.++.++ +++++|+|||+|.+.++|++||.+++ ..|+++.|.|..
T Consensus        11 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~v~i~~d~-~g~~~G~afV~F~~~~~a~~Al~~~~-~~~~gr~i~V~~   88 (102)
T 1wez_A           11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGP-DGRVTGEADVEFATHEDAVAAMAKDK-ANMQHRYVELFL   88 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCCCSEEEEEESS-SSCEEEEEEEECSSSHHHHHHHTTSS-CCSSSSCCEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCceEEEEEECC-CCCEeeEEEEEECCHHHHHHHHHhCC-CeECCcEEEEEE
Confidence            3456689999999999999999999999944489999998 79999999999999999999999999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +.+..
T Consensus        89 ~~~~~   93 (102)
T 1wez_A           89 NSTAG   93 (102)
T ss_dssp             ECCCC
T ss_pred             CCCCC
Confidence            87655

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

Probab=99.80  E-value=7e-19  Score=108.49  Aligned_cols=85  Identities=25%  Similarity=0.346  Sum_probs=77.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCC---CCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKE---TDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~---t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++.   |+.++++|||+|.+.++|++|+. |++ ..|.++.|.
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~   81 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQG-HTVDGHKLE   81 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTT-CEETTEECE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCC-CeeCCeEEE
Confidence            345799999999999999999999999 999999998876   66899999999999999999999 999 999999999


Q ss_pred             EEecCCCCCCC
Q psy13181         98 LDIADGKRNDN  108 (137)
Q Consensus        98 v~~a~~~~~~~  108 (137)
                      |.++.++....
T Consensus        82 V~~a~~~~~~~   92 (98)
T 2cpf_A           82 VRISERATKPA   92 (98)
T ss_dssp             EECSSCSSCCC
T ss_pred             EEEccCCCCCC
Confidence            99998776544

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.80  E-value=5.4e-19  Score=110.34  Aligned_cols=87  Identities=24%  Similarity=0.365  Sum_probs=80.4

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      .....++|||+|||+.+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++||..++ ..|+++.|.|.
T Consensus        12 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~V~   90 (105)
T 2dh8_A           12 GADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLASRP-HTLDGRNIDPK   90 (105)
T ss_dssp             CSSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHHCS-EEETTEEEBCC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHhCC-CeECCEEEEEE
Confidence            34567899999999999999999999999 99999999999999999999999999999999999988 99999999999


Q ss_pred             ecCCCCCCC
Q psy13181        100 IADGKRNDN  108 (137)
Q Consensus       100 ~a~~~~~~~  108 (137)
                      ++.++....
T Consensus        91 ~a~~~~~~~   99 (105)
T 2dh8_A           91 PCTPRGMQP   99 (105)
T ss_dssp             CSCCSSCCT
T ss_pred             EccCCCCCC
Confidence            998776543

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

Probab=99.80  E-value=8.8e-19  Score=108.33  Aligned_cols=84  Identities=25%  Similarity=0.371  Sum_probs=77.5

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE--------EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCC
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS--------VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDG   87 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~--------i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~   87 (137)
                      ...+.....+|||+|||..+++++|+++|++| .|..        +.++.++.++.++|+|||+|.+.++|++|+. |++
T Consensus         6 ~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~G~afV~f~~~~~a~~Ai~~l~g   85 (99)
T 2la6_A            6 HHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDG   85 (99)
T ss_dssp             SCCSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEECTTTCSEEEEEEEEBSSHHHHHHHHHHHTT
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEecCCCCCeeeEEEEEECCHHHHHHHHHHhCC
Confidence            34445667899999999999999999999999 8988        9999999999999999999999999999999 999


Q ss_pred             CeeecCeEEEEEecC
Q psy13181         88 RITVDGLQVRLDIAD  102 (137)
Q Consensus        88 ~~~l~g~~l~v~~a~  102 (137)
                       ..|.|+.|+|.+|+
T Consensus        86 -~~~~g~~l~V~~A~   99 (99)
T 2la6_A           86 -KEFSGNPIKVSFAT   99 (99)
T ss_dssp             -CBSSSSBCEEEECC
T ss_pred             -CEeCCcEEEEEecC
Confidence             99999999999874

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=99.80  E-value=5.3e-19  Score=106.20  Aligned_cols=80  Identities=21%  Similarity=0.381  Sum_probs=75.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..|+|+.|+|.
T Consensus         4 ~~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~   82 (85)
T 3mdf_A            4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNE-SELFGRTIRVN   82 (85)
T ss_dssp             CCCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEECCCCCccccEEEEEECCHHHHHHHHHHhCC-CEECCcEEEEE
Confidence            3566899999999999999999999999 99999999998899999999999999999999998 999 99999999999


Q ss_pred             ecC
Q psy13181        100 IAD  102 (137)
Q Consensus       100 ~a~  102 (137)
                      +++
T Consensus        83 ~ak   85 (85)
T 3mdf_A           83 LAK   85 (85)
T ss_dssp             ECC
T ss_pred             EcC
Confidence            874

>1x4c_A Splicing factor, arginine/serine-rich 1; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.80  E-value=2.6e-18  Score=107.95  Aligned_cols=82  Identities=18%  Similarity=0.256  Sum_probs=73.6

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC---
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG---   93 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g---   93 (137)
                      +.+....++|||+|||..+++++|+++|++| .|..|.++.+       +||||+|.+.++|++||+ |++ ..|.+   
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~~   80 (108)
T 1x4c_A            9 PPSRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDN-TKFRSHEG   80 (108)
T ss_dssp             CCCCSCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT-------TEEEEEESSHHHHHHHHHHSSS-EEEECTTS
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC-------CEEEEEECCHHHHHHHHHHHCc-CCccCCcC
Confidence            3344567899999999999999999999999 9999998865       699999999999999999 999 99999   


Q ss_pred             --eEEEEEecCCCCCCC
Q psy13181         94 --LQVRLDIADGKRNDN  108 (137)
Q Consensus        94 --~~l~v~~a~~~~~~~  108 (137)
                        +.|+|.++.+++..+
T Consensus        81 ~~~~i~V~~a~~~~~~~   97 (108)
T 1x4c_A           81 ETAYIRVKVDGPRSPSY   97 (108)
T ss_dssp             CEEEEEEEESSCCSCCC
T ss_pred             cceEEEEEeCCCCCCCC
Confidence              999999999876543

>2jrs_A RNA-binding protein 39; RNA binding motif of RBM39_human (caper), RRM2 domain, solution structure, structural genomics, PSI-2; NMR {Homo sapiens}

Probab=99.80  E-value=9.9e-19  Score=109.98  Aligned_cols=86  Identities=26%  Similarity=0.447  Sum_probs=79.9

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      +......++|||+|||..+++++|+++|++| .|..|.++.++.++.++|+|||+|.+.++|.+|+. |++ ..|.|+.|
T Consensus        20 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g-~~i~g~~l   98 (108)
T 2jrs_A           20 QKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNG-FELAGRPM   98 (108)
T ss_dssp             CCSCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTT-CCSSSSCC
T ss_pred             ccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCC-CEECCEEE
Confidence            3445567899999999999999999999999 99999999999899999999999999999999999 999 99999999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      .|.++.++.
T Consensus        99 ~V~~a~~k~  107 (108)
T 2jrs_A           99 KVGHVTERT  107 (108)
T ss_dssp             EEECSCSSC
T ss_pred             EEEEcccCC
Confidence            999998764

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

Probab=99.80  E-value=2.6e-19  Score=110.27  Aligned_cols=81  Identities=21%  Similarity=0.355  Sum_probs=73.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-c--eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC---eeecCeE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-K--LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR---ITVDGLQ   95 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~--i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~---~~l~g~~   95 (137)
                      ..-.+|||+|||+.+|+++|+++|++| .  +.+|.+++|+.|++++|||||+|.+.++|.+|++ |++.   +.|+|++
T Consensus         7 ~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~   86 (95)
T 2lkz_A            7 HHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKT   86 (95)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEE
T ss_pred             CccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEecCCCCCCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEE
Confidence            344689999999999999999999999 4  6789999999999999999999999999999999 9872   2699999


Q ss_pred             EEEEecCC
Q psy13181         96 VRLDIADG  103 (137)
Q Consensus        96 l~v~~a~~  103 (137)
                      |.|++|++
T Consensus        87 i~V~~Aks   94 (95)
T 2lkz_A           87 IGVDFAKS   94 (95)
T ss_dssp             EEEEECCC
T ss_pred             EEEEEccC
Confidence            99999874

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.80  E-value=4e-19  Score=111.83  Aligned_cols=88  Identities=17%  Similarity=0.248  Sum_probs=80.3

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      +......++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.|+.|
T Consensus        20 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l   98 (110)
T 1oo0_B           20 PQRSVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG-AEIMGQTI   98 (110)
T ss_dssp             BCCBTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBCTTTSSBCSEEEEEESSHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCC-CEECCcEE
Confidence            3334566899999999999999999999999 99999999999899999999999999999999999 999 99999999


Q ss_pred             EEEecCCCCCC
Q psy13181         97 RLDIADGKRND  107 (137)
Q Consensus        97 ~v~~a~~~~~~  107 (137)
                      .|.++.++...
T Consensus        99 ~V~~a~~~~~~  109 (110)
T 1oo0_B           99 QVDWCFVKGPK  109 (110)
T ss_dssp             EEEESEESSCC
T ss_pred             EEEEcccCCCC
Confidence            99999876543

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

Probab=99.80  E-value=4.7e-19  Score=110.76  Aligned_cols=83  Identities=20%  Similarity=0.332  Sum_probs=78.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.|+.|.|.
T Consensus        20 ~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~V~   98 (106)
T 1p27_B           20 SVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDRRTGYLKGYTLVEYETYKEAQAAMEGLNG-QDLMGQPISVD   98 (106)
T ss_dssp             BTTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESCHHHHHHHHHHHTT-CBSSSSBCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEecCCCCceeeEEEEEECCHHHHHHHHHHhcC-CEECCcEEEEE
Confidence            4456899999999999999999999999 99999999999999999999999999999999999 999 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      ++.++.
T Consensus        99 ~a~~~~  104 (106)
T 1p27_B           99 WCFVRG  104 (106)
T ss_dssp             ESEESS
T ss_pred             eecCCC
Confidence            998764

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

Probab=99.80  E-value=5.1e-19  Score=109.28  Aligned_cols=84  Identities=23%  Similarity=0.431  Sum_probs=78.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-cee-EEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE---
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLV-SVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ---   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~-~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~---   95 (137)
                      ....++|||+|||..+++++|+++|++| .|. .|.++.++.++.+++||||+|.+.++|++|+. |++ ..|.++.   
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~~~~   84 (99)
T 2div_A            6 SGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKING-KPLPGATPAK   84 (99)
T ss_dssp             CSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTT-SEESSCSSCE
T ss_pred             CCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcC-CccCCCCcce
Confidence            4566899999999999999999999999 898 99999999999999999999999999999999 999 9999999   


Q ss_pred             -EEEEecCCCCC
Q psy13181         96 -VRLDIADGKRN  106 (137)
Q Consensus        96 -l~v~~a~~~~~  106 (137)
                       |+|.++.+...
T Consensus        85 ~l~v~~a~~~~~   96 (99)
T 2div_A           85 RFKLNYATYSGP   96 (99)
T ss_dssp             ECCEEETTCCSS
T ss_pred             eEEEeecCCCCC
Confidence             99999886654

>3s7r_A Heterogeneous nuclear ribonucleoprotein A/B; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 2.15A {Homo sapiens} PDB: 1hd0_A 1hd1_A

Probab=99.80  E-value=1.4e-18  Score=104.93  Aligned_cols=80  Identities=24%  Similarity=0.398  Sum_probs=74.6

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      .....++|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+.+++ ..|+|+.|.|+
T Consensus         7 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~-~~~~g~~i~v~   85 (87)
T 3s7r_A            7 NEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLDQKE-HRLDGRVIDPK   85 (87)
T ss_dssp             CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHHSSC-EEETTEEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHHhCC-CEECCEEEEEE
Confidence            34567899999999999999999999999 99999999999999999999999999999999999877 88999999998


Q ss_pred             ec
Q psy13181        100 IA  101 (137)
Q Consensus       100 ~a  101 (137)
                      +|
T Consensus        86 ~A   87 (87)
T 3s7r_A           86 KA   87 (87)
T ss_dssp             EC
T ss_pred             eC
Confidence            75

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=4.3e-18  Score=105.87  Aligned_cols=87  Identities=22%  Similarity=0.364  Sum_probs=78.8

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL   98 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v   98 (137)
                      ......++|||+|||..+++++|+++|.+| .|..|.++.++.++.+++||||+|.+.++|.+|+. ++ ..|+|+.|.|
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~-~~~~g~~l~v   87 (103)
T 2cqg_A           10 RAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QR-HMIDGRWCDC   87 (103)
T ss_dssp             CCCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SC-EEETTEEEEE
T ss_pred             CccCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH-cC-CeeCCeEEEE
Confidence            334566899999999999999999999999 99999999999999999999999999999999998 56 8899999999


Q ss_pred             EecCCCCCCC
Q psy13181         99 DIADGKRNDN  108 (137)
Q Consensus        99 ~~a~~~~~~~  108 (137)
                      .++.++....
T Consensus        88 ~~a~~~~~~~   97 (103)
T 2cqg_A           88 KLPNSKQSQD   97 (103)
T ss_dssp             ECCCTTCCCC
T ss_pred             EecCCCCcCC
Confidence            9998876543

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=4.9e-19  Score=112.43  Aligned_cols=84  Identities=20%  Similarity=0.375  Sum_probs=78.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||..+++++|+++|.+| .|..|.++.++.++.+++||||+|.+.++|.+||..++ ..|+|+.|.|.++.
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~-~~~~g~~l~V~~a~  104 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARP-HSIDGRVVEPKRAV  104 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCS-EEETTEEEEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHhCC-cEECCEEEEEEECC
Confidence            44899999999999999999999999 99999999999999999999999999999999999988 99999999999998


Q ss_pred             CCCCCC
Q psy13181        103 GKRNDN  108 (137)
Q Consensus       103 ~~~~~~  108 (137)
                      ++....
T Consensus       105 ~~~~~~  110 (116)
T 1x4b_A          105 AREESG  110 (116)
T ss_dssp             SCCCCC
T ss_pred             CCccCC
Confidence            776543

>2dnh_A Bruno-like 5, RNA binding protein; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dnk_A 2dno_A

Probab=99.79  E-value=2.2e-18  Score=107.52  Aligned_cols=85  Identities=19%  Similarity=0.265  Sum_probs=77.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC---eEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG---LQV   96 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g---~~l   96 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++ ++.+++||||+|.+.++|.+|+. |++ ..+.+   +.|
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~gg~~~~l   89 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGP-DGSSKGCAFVKFSSHTEAQAAIHALHG-SQTMPGASSSL   89 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECS-SSCEEEEEEEEESSHHHHHHHHHHHSS-CCCCTTCSSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcCcEEEEEeCCHHHHHHHHHHHcC-CccCCCCCccE
Confidence            3457899999999999999999999999 99999999988 68999999999999999999999 999 88887   999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.++....
T Consensus        90 ~V~~a~~~~~~~  101 (105)
T 2dnh_A           90 VVKFADTDKESG  101 (105)
T ss_dssp             EEEESCSSCCCS
T ss_pred             EEEECccCcccC
Confidence            999998776543

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=4.8e-18  Score=105.67  Aligned_cols=87  Identities=22%  Similarity=0.392  Sum_probs=77.7

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++.++.  .++++|||+|.+.++|.+|+. |++ ..|+++.|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~--~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l   85 (103)
T 2cq3_A            9 SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAREKLHG-TVVEGRKI   85 (103)
T ss_dssp             SCCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTT--TTCCEEEEEESCHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCC--CCcEEEEEEECCHHHHHHHHHHhCC-CEECCEEE
Confidence            3445667899999999999999999999999 999999998864  378999999999999999999 999 99999999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.++....
T Consensus        86 ~v~~a~~~~~~~   97 (103)
T 2cq3_A           86 EVNNATARVMTN   97 (103)
T ss_dssp             EEEECCSSCCCC
T ss_pred             EEEEcccCCCCC
Confidence            999998776543

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B

Probab=99.79  E-value=8.9e-19  Score=107.74  Aligned_cols=80  Identities=18%  Similarity=0.406  Sum_probs=76.5

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      .++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|.++.
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~~a~   80 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFDPQTGRSKGYAFIEFRDLESSASAVRNLNG-YQLGSRFLKCGYSS   80 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCTTTCCBCSEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEECS
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCC-CeECCeEEEEEEcC
Confidence            5799999999999999999999999 99999999999899999999999999999999999 999 99999999999998


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      +++
T Consensus        81 ~~~   83 (96)
T 2x1f_A           81 NSD   83 (96)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            765

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

Probab=99.79  E-value=3e-18  Score=104.29  Aligned_cols=84  Identities=20%  Similarity=0.308  Sum_probs=76.8

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      +....++|||+|||..+++++|+++|++|.|..|.++.+ .+++++|+|||+|.+.++|.+|+.+++ ..|+|+.|.|.+
T Consensus         6 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~~i~~v~i~~~-~~g~~~g~afV~f~~~~~a~~A~~~~g-~~~~gr~i~v~~   83 (91)
T 2dgw_A            6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPLKPVAIRIVRN-AHGNKTGYIFVDFSNEEEVKQALKCNR-EYMGGRYIEVFR   83 (91)
T ss_dssp             CCCCCCEEEEECCCSSCCHHHHHHHHTTSCCSEEEEEEC-TTSCEEEEEEEECSSHHHHHHHHHSCS-EEETTEEEEEEE
T ss_pred             CCCCccEEEEECCCCCCCHHHHHHHHhhCCceEEEEEEC-CCCCCceEEEEEECCHHHHHHHHHhCC-ceeCCcEEEEEE
Confidence            345678999999999999999999999988888999988 679999999999999999999999999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus        84 a~~~~~   89 (91)
T 2dgw_A           84 EKSGPS   89 (91)
T ss_dssp             ESSCCC
T ss_pred             CCcCCC
Confidence            987654

>1x4a_A Splicing factor, arginine/serine-rich 1 (splicing factor 2, alternate splicing factor)...; structure genomics, SURP domain, splicing factor SF2; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=3.8e-18  Score=107.19  Aligned_cols=85  Identities=26%  Similarity=0.449  Sum_probs=74.9

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.+..+   +.+++||||+|.+.++|++|+. |++ ..|.++.|
T Consensus        16 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~---~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l   91 (109)
T 1x4a_A           16 GPAGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR---RGGPPFAFVEFEDPRDAEDAVYGRDG-YDYDGYRL   91 (109)
T ss_dssp             CCCCCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS---SSSSCCEEEEESCHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC---CCCCcEEEEEECCHHHHHHHHHHcCC-CEECCeEE
Confidence            3444567899999999999999999999999 9999988654   4578999999999999999998 999 99999999


Q ss_pred             EEEecCCCCCC
Q psy13181         97 RLDIADGKRND  107 (137)
Q Consensus        97 ~v~~a~~~~~~  107 (137)
                      .|.++.++...
T Consensus        92 ~V~~a~~~~~~  102 (109)
T 1x4a_A           92 RVEFPRSGRGT  102 (109)
T ss_dssp             EEECCCCCCCC
T ss_pred             EEEEcccCCCC
Confidence            99999876544

>2dgu_A Heterogeneous nuclear ribonucleoprotein Q; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} PDB: 2dk2_A

Probab=99.79  E-value=3.1e-18  Score=106.64  Aligned_cols=80  Identities=23%  Similarity=0.372  Sum_probs=71.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++        ++||||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~--------~~~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~   78 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKL--------KDYAFIHFDERDGAVKAMEEMNG-KDLEGENIEIV   78 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEEC--------SSCEEEEESSHHHHHHHHHHHTT-EEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEE--------CCEEEEEeCCHHHHHHHHHHHCC-CccCCCEEEEE
Confidence            3456899999999999999999999999 99999886        3499999999999999999 999 99999999999


Q ss_pred             ecCCCCCCCCC
Q psy13181        100 IADGKRNDNKG  110 (137)
Q Consensus       100 ~a~~~~~~~~~  110 (137)
                      ++.++......
T Consensus        79 ~a~~~~~~~~~   89 (103)
T 2dgu_A           79 FAKPPDQKRKE   89 (103)
T ss_dssp             ECCCCCCCCCC
T ss_pred             EcCCCcccchh
Confidence            99887655443

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.79  E-value=4.4e-18  Score=105.80  Aligned_cols=87  Identities=22%  Similarity=0.412  Sum_probs=77.3

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++.++.+  .++||||+|.+.++|.+|+. |++ ..|.++.|
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l   85 (103)
T 2cqi_A            9 MEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS--NDPYCFVEFYEHRDAAAALAAMNG-RKILGKEV   85 (103)
T ss_dssp             CCCSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCS--SCCEEEEEESSHHHHHHHHHHHTT-EEETTEEE
T ss_pred             CCCCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCC--CCCEEEEEECCHHHHHHHHHHhCC-CCcCCCeE
Confidence            3344567899999999999999999999999 9999999988654  58899999999999999999 999 99999999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.++...+
T Consensus        86 ~V~~a~~~~~~~   97 (103)
T 2cqi_A           86 KVNWATTPSSQK   97 (103)
T ss_dssp             EEEECCCTTCCC
T ss_pred             EEEECCCCcccc
Confidence            999998765443

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.79  E-value=1.4e-18  Score=107.17  Aligned_cols=84  Identities=18%  Similarity=0.228  Sum_probs=76.5

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ......+|||+|||..+++++|+++|.+| .|..+.++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|+|
T Consensus        11 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~l~V   89 (98)
T 2cqp_A           11 GKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND-RPIGSRKVKL   89 (98)
T ss_dssp             CCCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTT-CEETTEECEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCC-CeeCCeEEEE
Confidence            34556899999999999999999999999 88878888888899999999999999999999998 999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++..+.
T Consensus        90 ~~a~~~~   96 (98)
T 2cqp_A           90 VLGSGPS   96 (98)
T ss_dssp             EESSCSS
T ss_pred             EEcCCCC
Confidence            9987543

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

Probab=99.79  E-value=1.5e-18  Score=105.70  Aligned_cols=86  Identities=20%  Similarity=0.271  Sum_probs=77.6

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      +....++|||+|||..+++++|+++|++| .|..|.++.+  ++.++++|||+|.+.++|++|+. |++ ..|+++.|.|
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~~--~g~~~g~afV~f~~~~~a~~a~~~l~g-~~~~g~~l~v   80 (92)
T 2dgv_A            4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKME--NGKSKGCGVVKFESPEVAERACRMMNG-MKLSGREIDV   80 (92)
T ss_dssp             SSSSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEES--SSCEEEEEEEEESSHHHHHHHHHHHTT-CCBTTBCCCC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcc--CCCcceEEEEEECCHHHHHHHHHHhCC-CEECCcEEEE
Confidence            34567899999999999999999999999 9999988874  68899999999999999999999 999 9999999999


Q ss_pred             EecCCCCCCCC
Q psy13181         99 DIADGKRNDNK  109 (137)
Q Consensus        99 ~~a~~~~~~~~  109 (137)
                      .++.+......
T Consensus        81 ~~a~~~~~~~~   91 (92)
T 2dgv_A           81 RIDRNASGPSS   91 (92)
T ss_dssp             EECSCCSSCCC
T ss_pred             EEcCCCCCCCC
Confidence            99988766543

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.78  E-value=1.6e-18  Score=110.31  Aligned_cols=80  Identities=21%  Similarity=0.360  Sum_probs=75.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||.++++++|+++|++| .|..|.++.++.++++++||||+|.+.+++++|+. |++ ..|+|+.|+|+
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~V~  115 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFIDKQTSLSKCFGFVSFDNPDSAQVAIKAMNG-FQVGTKRLKVQ  115 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCCSSSSCCCCEEEEEEESSHHHHHHHHHCCC-CEETTEECCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeCCCCCCcCcEEEEEECCHHHHHHHHHHcCC-CEECCEEEEEE
Confidence            4556899999999999999999999999 99999999998899999999999999999999999 999 99999999999


Q ss_pred             ecC
Q psy13181        100 IAD  102 (137)
Q Consensus       100 ~a~  102 (137)
                      +++
T Consensus       116 ~ak  118 (118)
T 2khc_A          116 LKK  118 (118)
T ss_dssp             EC-
T ss_pred             ecC
Confidence            874

>2cpy_A RNA-binding protein 12; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=2.4e-19  Score=113.72  Aligned_cols=82  Identities=18%  Similarity=0.231  Sum_probs=76.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ce-eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KL-VSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i-~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|+.| .+ ..|.++.++ ++.++|||||+|.+.++|++||.+++ ..|+++.|.|.
T Consensus        12 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~-~g~~~G~afV~F~~~~~a~~Al~~~~-~~~~gr~i~v~   89 (114)
T 2cpy_A           12 NSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN-NGQGLGQALVQFKNEDDARKSERLHR-KKLNGREAFVH   89 (114)
T ss_dssp             CSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT-TSSCSSCEEEECSSHHHHHHHGGGCS-EEETTEEEEEE
T ss_pred             CCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC-CCCcceEEEEEECCHHHHHHHHHhCC-CccCCeEEEEE
Confidence            4556899999999999999999999999 77 789999998 89999999999999999999999998 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      ++.++.
T Consensus        90 ~a~~~~   95 (114)
T 2cpy_A           90 VVTLED   95 (114)
T ss_dssp             EECHHH
T ss_pred             ECCHHH
Confidence            998765

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.78  E-value=4.6e-18  Score=107.29  Aligned_cols=85  Identities=18%  Similarity=0.266  Sum_probs=76.4

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHH---hcCcCC-ceeEEEEeecCCCC---CeecEEEEEEcCHHHHHHHHH-hCCCeeec
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVE---RFFPEQ-KLVSVRLVKDKETD---RFKGFCYVEFVDVENLRQALL-KDGRITVD   92 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~---~~f~~~-~i~~i~~~~~~~t~---~~~g~~fv~f~~~~~a~~al~-l~~~~~l~   92 (137)
                      ......+|||+|||+.+++++|+   ++|++| .|..|.++.++.++   .++|+|||+|.+.++|++|+. |++ ..|+
T Consensus        11 r~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~~~~~~~~~~~~G~afV~f~~~~~A~~Ai~~lng-~~~~   89 (111)
T 2cpi_A           11 RVVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNN-VVVD   89 (111)
T ss_dssp             CCCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTT-EEET
T ss_pred             cccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEecCCCcCccCCCCeEEEEEECcHHHHHHHHHHhCC-CEEC
Confidence            34456899999999999999999   999999 99999999887654   455999999999999999999 999 9999


Q ss_pred             CeEEEEEecCCCCC
Q psy13181         93 GLQVRLDIADGKRN  106 (137)
Q Consensus        93 g~~l~v~~a~~~~~  106 (137)
                      |+.|+|.++.++..
T Consensus        90 gr~l~V~~a~~k~~  103 (111)
T 2cpi_A           90 GRTLKASLGTTKYC  103 (111)
T ss_dssp             TEEEEEESCCCCSC
T ss_pred             CEEEEEEecccccc
Confidence            99999999998764

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=99.78  E-value=2.5e-18  Score=107.59  Aligned_cols=82  Identities=22%  Similarity=0.350  Sum_probs=76.1

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      +.+....++|||+|||..+++++|+++|++| .|..|.++.++ ++.++++|||+|.+.++|++|+. |++ ..|.|+.|
T Consensus        23 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l  100 (107)
T 3ulh_A           23 GAGVETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQYNG-VPLDGRPM  100 (107)
T ss_dssp             -CCCCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCC-CEeCCcEE
Confidence            3445667899999999999999999999999 99999999998 89999999999999999999999 999 99999999


Q ss_pred             EEEecC
Q psy13181         97 RLDIAD  102 (137)
Q Consensus        97 ~v~~a~  102 (137)
                      .|.++.
T Consensus       101 ~V~~a~  106 (107)
T 3ulh_A          101 NIQLVT  106 (107)
T ss_dssp             EEEEEC
T ss_pred             EEEEeC
Confidence            999986

>1rk8_A CG8781-PA, CG8781-PA protein; mRNA processing, RRM, RBD, NMD, oskar mRNA localization, translation; 1.90A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 1hl6_A 2x1g_A

Probab=99.78  E-value=1.8e-18  Score=116.33  Aligned_cols=85  Identities=18%  Similarity=0.266  Sum_probs=77.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+.+|++| .|..|.++.++.++.+++||||+|.+.++|.+||. |++ ..|.|+.|.|.
T Consensus        69 ~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~  147 (165)
T 1rk8_A           69 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG-AEIMGQTIQVD  147 (165)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEecCCCCcEeeEEEEEECCHHHHHHHHHHhCC-CEECCEEEEEE
Confidence            4456899999999999999999999999 99999999999999999999999999999999999 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      ++.++...
T Consensus       148 ~a~~~~~~  155 (165)
T 1rk8_A          148 WCFVKGPK  155 (165)
T ss_dssp             ESEECC--
T ss_pred             EecCCCCC
Confidence            99876543

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

Probab=99.78  E-value=7.8e-18  Score=104.32  Aligned_cols=83  Identities=19%  Similarity=0.406  Sum_probs=72.8

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|   .++.+ .++..+++|||+|.+.++|++|+. |++ ..|.++.|.|
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v   85 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQN-QNGKSKGYAFIEFASFEDAKEALNSCNK-REIEGRAIRL   85 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCBC-SSSCBCSEEEEECSSHHHHHHHHHHTSS-EEETTEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEEC-CCCCEeeEEEEEECCHHHHHHHHHHhCC-CEeCCeEEEE
Confidence            44567899999999999999999999999 65   44555 568899999999999999999999 999 9999999999


Q ss_pred             EecCCCCCCC
Q psy13181         99 DIADGKRNDN  108 (137)
Q Consensus        99 ~~a~~~~~~~  108 (137)
                      .++.++...+
T Consensus        86 ~~a~~~~~~~   95 (101)
T 2fc9_A           86 ELQGPRGSPN   95 (101)
T ss_dssp             EECSSCCCCC
T ss_pred             EEcCCCCCCC
Confidence            9998775443

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.78  E-value=2.4e-18  Score=105.90  Aligned_cols=83  Identities=13%  Similarity=0.198  Sum_probs=75.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHH----hcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVE----RFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~----~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      .....+|||+|||..+++++|+    ++|++| .|..|.++.++.+   ++||||+|.+.++|++|+. |++ ..|+|+.
T Consensus         6 ~~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~~~~---rg~afV~f~~~~~A~~Ai~~l~g-~~~~gr~   81 (96)
T 2dgx_A            6 SGNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPHTDY---QLKAVVQMENLQDAIGAVNSLHR-YKIGSKK   81 (96)
T ss_dssp             CSSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSCCST---TCCEEEEESSHHHHHHHHHHHTT-EEETTEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeCCCC---CeEEEEEECCHHHHHHHHHHhCC-CEECCeE
Confidence            3456899999999999999999    999999 9999999988765   7899999999999999999 999 9999999


Q ss_pred             EEEEecCCCCCCC
Q psy13181         96 VRLDIADGKRNDN  108 (137)
Q Consensus        96 l~v~~a~~~~~~~  108 (137)
                      |+|.++.++....
T Consensus        82 l~V~~a~~~~~~~   94 (96)
T 2dgx_A           82 ILVSLATGASGPS   94 (96)
T ss_dssp             EEEEECCCSSCCC
T ss_pred             EEEEEcCCCCCCC
Confidence            9999998776543

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.77  E-value=2.4e-18  Score=109.26  Aligned_cols=79  Identities=20%  Similarity=0.348  Sum_probs=72.9

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+|||+|||+.+++++|+++|++| .|..|.++.++.  .++|||||+|.+.++|++|+. |++ ..|+|+.|.|.++.
T Consensus         5 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~--~~kg~afV~f~~~~~A~~Ai~~l~~-~~~~g~~i~V~~a~   81 (115)
T 4f25_A            5 SGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERAIEKMNG-MLLNDRKVFVGRFK   81 (115)
T ss_dssp             CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT--EEEEEEEEEESCHHHHHHHHHHHTT-CEETTEECEEEESS
T ss_pred             CCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCC--CCCceEEEEECCHHHHHHHHHHcCC-CEECCEEEEEEECC
Confidence            4689999999999999999999999 999999998864  478999999999999999999 999 99999999999998


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      ++..
T Consensus        82 ~~~~   85 (115)
T 4f25_A           82 SRKE   85 (115)
T ss_dssp             CCCC
T ss_pred             Cccc
Confidence            7643

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=99.77  E-value=2.9e-18  Score=105.08  Aligned_cols=82  Identities=27%  Similarity=0.401  Sum_probs=75.3

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|..|.++.++. +.++++|||+|.+.++|.+|+. |++ ..|.++.|.
T Consensus        11 ~~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~-g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~   88 (95)
T 2ywk_A           11 AQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE-GKPKSFGFVCFKHPESVSYAIALLNG-IRLYGRPIN   88 (95)
T ss_dssp             -CTTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT-SCEEEEEEEEESSTHHHHHHHHHHTT-CEETTEECE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC-CCCceEEEEEECCHHHHHHHHHHhCC-CEECCCEEE
Confidence            344567899999999999999999999999 999999999886 8999999999999999999999 999 999999999


Q ss_pred             EEecCC
Q psy13181         98 LDIADG  103 (137)
Q Consensus        98 v~~a~~  103 (137)
                      |.+++.
T Consensus        89 V~~a~~   94 (95)
T 2ywk_A           89 VSGPSS   94 (95)
T ss_dssp             EECCCC
T ss_pred             EEEcCC
Confidence            999763

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.77  E-value=1.2e-18  Score=112.98  Aligned_cols=85  Identities=26%  Similarity=0.423  Sum_probs=77.6

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE--EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCe----eec
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS--VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRI----TVD   92 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~--i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~----~l~   92 (137)
                      ......+|||+|||+.+++++|+++|++| .|..  |.+++++.+++++|||||+|.+. ++.+|+. |++ .    .|+
T Consensus        19 ~~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g-~~~~~~~~   96 (131)
T 2m2b_A           19 SENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQA-LHPPLTID   96 (131)
T ss_dssp             CSCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTT-CCCSCCGG
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcC-CCCCccCC
Confidence            34566899999999999999999999999 8866  99999999999999999999999 9999999 999 8    999


Q ss_pred             CeEEEEEecCCCCCC
Q psy13181         93 GLQVRLDIADGKRND  107 (137)
Q Consensus        93 g~~l~v~~a~~~~~~  107 (137)
                      |+.|.|.++.++.+.
T Consensus        97 gr~l~V~~a~~~~~~  111 (131)
T 2m2b_A           97 GKTINVEFAKGSKRD  111 (131)
T ss_dssp             GCCCCCEECCCSCCC
T ss_pred             CEEEEEEECCCCCCC
Confidence            999999999876543

>3ucg_A Polyadenylate-binding protein 2; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG, protein structure initiative; HET: PGE; 1.95A {Homo sapiens} PDB: 3b4d_A 3b4m_A

Probab=99.77  E-value=3.3e-18  Score=103.52  Aligned_cols=80  Identities=30%  Similarity=0.452  Sum_probs=75.5

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|++|+.+++ ..|.|+.|.|.++++
T Consensus         6 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~g-~~~~g~~l~V~~a~~   84 (89)
T 3ucg_A            6 ARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCDKFSGHPKGFAYIEFSDKESVRTSLALDE-SLFRGRQIKVIPKRT   84 (89)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEESCSSSSCCEEEEEEESSTHHHHHHGGGTT-CEETTEECEEEETTT
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHhcCC-CEECCcEEEEEEccC
Confidence            4789999999999999999999999 99999999998899999999999999999999999999 999999999999976


Q ss_pred             CC
Q psy13181        104 KR  105 (137)
Q Consensus       104 ~~  105 (137)
                      ..
T Consensus        85 ~~   86 (89)
T 3ucg_A           85 NR   86 (89)
T ss_dssp             TS
T ss_pred             CC
Confidence            43

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=99.77  E-value=2.9e-18  Score=103.54  Aligned_cols=81  Identities=22%  Similarity=0.414  Sum_probs=75.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCC-eecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDR-FKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~-~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..++|||+|||..+++++|+++|++| .|..+.++.++.++. ++++|||+|.+.++|.+|+. |++ ..++|+.|.|.+
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~~   81 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDG-GQIDGQEITATA   81 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCC-CeECCeEEEEEE
Confidence            45799999999999999999999999 999999999887655 89999999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +.+..
T Consensus        82 a~~~~   86 (88)
T 4a8x_A           82 VLAPW   86 (88)
T ss_dssp             ECCCC
T ss_pred             CCCCC
Confidence            97654

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=99.77  E-value=1.8e-18  Score=105.98  Aligned_cols=80  Identities=18%  Similarity=0.208  Sum_probs=73.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|++|+. |++ ..|.++.|+|.+
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g-~~~~gr~l~v~~   91 (95)
T 2ek1_A           13 PGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND-RPIGSRKVKLSG   91 (95)
T ss_dssp             --CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCC-CeECCcEEEEEe
Confidence            345899999999999999999999999 88888888888899999999999999999999999 999 999999999998


Q ss_pred             cCC
Q psy13181        101 ADG  103 (137)
Q Consensus       101 a~~  103 (137)
                      +.+
T Consensus        92 a~s   94 (95)
T 2ek1_A           92 PSS   94 (95)
T ss_dssp             CC-
T ss_pred             ccC
Confidence            763

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.76  E-value=6.7e-18  Score=106.28  Aligned_cols=84  Identities=21%  Similarity=0.371  Sum_probs=75.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|.+|+...+ ..|+|+.|.|.+
T Consensus        22 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~~-~~l~g~~l~V~~  100 (109)
T 2rs2_A           22 GSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKV  100 (109)
T ss_dssp             ----CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSSC-EEETTEEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHCC-CcCCCEEEEEEE
Confidence            3456899999999999999999999999 99999999999899999999999999999999999546 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus       101 a~~~~~  106 (109)
T 2rs2_A          101 AFPRRA  106 (109)
T ss_dssp             CCCCCC
T ss_pred             ccCCCC
Confidence            987654

>1wel_A RNA-binding protein 12; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.2e-18  Score=111.98  Aligned_cols=88  Identities=16%  Similarity=0.237  Sum_probs=77.3

Q ss_pred             CCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeE
Q psy13181         17 QKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQ   95 (137)
Q Consensus        17 ~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~   95 (137)
                      ....+....++|||+|||+.+++++|+++|..| .|..+.++.+..++.++|||||+|.+.++|++||.+++ ..|+++.
T Consensus        17 ~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~~~g-~~~~gr~   95 (124)
T 1wel_A           17 RSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHK-QYMGNRF   95 (124)
T ss_dssp             CCSSCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCS-BCSTTSC
T ss_pred             CCCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHHhCC-CeECCcE
Confidence            344455677899999999999999999999999 88776666667789999999999999999999999999 9999999


Q ss_pred             EEEEecCCCC
Q psy13181         96 VRLDIADGKR  105 (137)
Q Consensus        96 l~v~~a~~~~  105 (137)
                      |.|.++.++.
T Consensus        96 i~V~~a~~~~  105 (124)
T 1wel_A           96 IQVHPITKKG  105 (124)
T ss_dssp             BEEEEECHHH
T ss_pred             EEEEECCHHH
Confidence            9999987643

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=8.1e-19  Score=109.23  Aligned_cols=83  Identities=34%  Similarity=0.543  Sum_probs=77.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.|+.|.|.+
T Consensus         6 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~~   84 (104)
T 1p1t_A            6 RSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNG-REFSGRALRVDN   84 (104)
T ss_dssp             HHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSS-BSCSSSCBEEEE
T ss_pred             CCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCC-CeeCCcEEEEEe
Confidence            345799999999999999999999999 99999999999899999999999999999999999 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus        85 a~~~~~   90 (104)
T 1p1t_A           85 AASEKN   90 (104)
T ss_dssp             TTCTTH
T ss_pred             CCCccc
Confidence            987653

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=5.5e-18  Score=106.33  Aligned_cols=84  Identities=17%  Similarity=0.249  Sum_probs=77.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-c-eeEEEEe-ecCCCCCeecEEEEEEcCHHHHHHHHH-hC--CCeeecCeEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-K-LVSVRLV-KDKETDRFKGFCYVEFVDVENLRQALL-KD--GRITVDGLQV   96 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~-i~~i~~~-~~~~t~~~~g~~fv~f~~~~~a~~al~-l~--~~~~l~g~~l   96 (137)
                      ...++|||+|||..+++++|+++|.+| . |..+.++ .++.++.+++||||+|.+.++|.+|+. |+  + ..|.|+.|
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~g~-~~~~g~~l   84 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGR-IQLWGHQI   84 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCC-SCBTTBCC
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEEEEEecCHHHHHHHHHHhhCCC-ceecCCeE
Confidence            456899999999999999999999999 7 9999988 788888999999999999999999999 97  6 89999999


Q ss_pred             EEEecCCCCCC
Q psy13181         97 RLDIADGKRND  107 (137)
Q Consensus        97 ~v~~a~~~~~~  107 (137)
                      .|.++.++...
T Consensus        85 ~V~~a~~~~~~   95 (109)
T 2dis_A           85 AVDWAEPEIDV   95 (109)
T ss_dssp             EEEESCSSCST
T ss_pred             EEEEcCCCCCc
Confidence            99999887653

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.4e-18  Score=104.52  Aligned_cols=78  Identities=21%  Similarity=0.324  Sum_probs=72.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      .+.++|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|++.+
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~~~~~~   81 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKA-SGVQAQMAKQSG   81 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHH-HTCCEESCCSSC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHHhcC-CeEeeEEEeecC
Confidence            456899999999999999999999999 99999999998899999999999999999999999 999 999999887765


Q ss_pred             c
Q psy13181        101 A  101 (137)
Q Consensus       101 a  101 (137)
                      +
T Consensus        82 ~   82 (85)
T 1x4e_A           82 P   82 (85)
T ss_dssp             C
T ss_pred             C
Confidence            4

>1wg5_A Heterogeneous nuclear ribonucleoprotein H; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.5e-17  Score=103.77  Aligned_cols=84  Identities=19%  Similarity=0.201  Sum_probs=75.3

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE-EEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS-VRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~-i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v   98 (137)
                      +.....+|||+|||+.+++++|+++|++| .|.. |.++.+ .+++++|+|||+|.+.++|++||..++ ..|+++.|.|
T Consensus        11 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~-~~g~~~G~afV~F~~~~~a~~A~~~~~-~~~~gr~i~v   88 (104)
T 1wg5_A           11 DTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVD-FQGRSTGEAFVQFASQEIAEKALKKHK-ERIGHRYIEI   88 (104)
T ss_dssp             SCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBC-SSSCBCSEEEEEESSHHHHHHHHTTTT-CCSSSSCCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEEC-CCCCcceEEEEEECCHHHHHHHHHhCc-chhCCcEEEE
Confidence            34566899999999999999999999999 8876 788888 679999999999999999999999888 9999999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++..+..
T Consensus        89 ~~~~~~~~   96 (104)
T 1wg5_A           89 FKSSRAEV   96 (104)
T ss_dssp             EEECTTTS
T ss_pred             EECCHHHH
Confidence            99876653

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

Probab=99.76  E-value=5.2e-19  Score=109.75  Aligned_cols=81  Identities=19%  Similarity=0.276  Sum_probs=76.3

Q ss_pred             CCceEEEcCCCC------CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC-e
Q psy13181         24 PPYTAFVGNLPN------GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG-L   94 (137)
Q Consensus        24 ~~~~l~v~nlp~------~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g-~   94 (137)
                      ..++|||+|||.      .+++++|+++|++| .|..|.++.++.|++++|||||+|.+.++|++|+. |++ ..|.+ +
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng-~~~~g~r   83 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHG-KRLDLKH   83 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTT-CBSSSSC
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCC-cccCCCe
Confidence            357999999999      99999999999999 99999999999999999999999999999999999 999 99999 9


Q ss_pred             EEEEEecCCCC
Q psy13181         95 QVRLDIADGKR  105 (137)
Q Consensus        95 ~l~v~~a~~~~  105 (137)
                      .|.|.++.++.
T Consensus        84 ~l~V~~a~~~~   94 (100)
T 3ns6_A           84 RLFLYTMKDVE   94 (100)
T ss_dssp             BCEEEESHHHH
T ss_pred             EEEEEECchhh
Confidence            99999987643

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.76  E-value=1.2e-18  Score=123.07  Aligned_cols=79  Identities=13%  Similarity=0.202  Sum_probs=73.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCc---eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQK---LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~---i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ..++|||+|||+.+++++|+++|++|.   |..|.|++++.|+++++||||+|.+.++|++||. |++ ..|.++.|+|.
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng-~~~~Gr~l~V~  145 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPK-RELHGQNPVVT  145 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTT-SCBTTBCCEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCC-CeECCEEeEEE
Confidence            456899999999999999999999993   9999999999999999999999999999999999 999 99999999999


Q ss_pred             ecCC
Q psy13181        100 IADG  103 (137)
Q Consensus       100 ~a~~  103 (137)
                      ++.+
T Consensus       146 ~a~~  149 (229)
T 3q2s_C          146 PVNK  149 (229)
T ss_dssp             ECCH
T ss_pred             ECCC
Confidence            9864

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.76  E-value=1.7e-18  Score=109.60  Aligned_cols=81  Identities=27%  Similarity=0.498  Sum_probs=76.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.++|++||.|++ ..|.|+.|.|.++.
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~l~V~~a~  102 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTG-QRLLGVPIIVQASQ  102 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTT-EEETTEEEEEEEHH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHHHcCC-CEeCCeEEEEEecC
Confidence            34799999999999999999999999 99999999999999999999999999999999999999 99999999999987


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      ++.
T Consensus       103 ~~~  105 (114)
T 2cq4_A          103 AEK  105 (114)
T ss_dssp             HHH
T ss_pred             CCc
Confidence            654

>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C

Probab=99.76  E-value=8.8e-19  Score=106.64  Aligned_cols=80  Identities=13%  Similarity=0.214  Sum_probs=69.5

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      .+|||+|||.++++++|+++|++|   .+..+.++.++.+++++|||||+|.+.++|++|++ |++ ..|+|+.|+|.++
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g-~~~~gr~i~V~~~   80 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPK-RELHGQNPVVTPS   80 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGG-SCSSSCCCEECCC
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCC-CeeCCEEEEEEEC
Confidence            579999999999999999999998   48899999999999999999999999999999998 999 9999999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .+...
T Consensus        81 ~~~~~   85 (90)
T 3p5t_L           81 NKLEH   85 (90)
T ss_dssp             -----
T ss_pred             CCCcc
Confidence            87653

>2kn4_A Immunoglobulin G-binding protein G, splicing FACT arginine/serine-rich 2, S35, splicing factor SC35,; RRM domain, cell WALL; NMR {Streptococcus SP}

Probab=99.75  E-value=1.1e-17  Score=111.45  Aligned_cols=84  Identities=26%  Similarity=0.404  Sum_probs=78.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .....+|||+|||..+++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|.+|+. |++ ..|.|+.|.|.
T Consensus        67 ~~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~  145 (158)
T 2kn4_A           67 VEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG-AVLDGRELRVQ  145 (158)
T ss_dssp             CCBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTT-EESSSSEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCC-CEECCeEEEEE
Confidence            3456899999999999999999999999 99999999998899999999999999999999999 999 99999999999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      ++.++..
T Consensus       146 ~a~~~~~  152 (158)
T 2kn4_A          146 MARYGRP  152 (158)
T ss_dssp             EECCSSC
T ss_pred             ECCCCCC
Confidence            9987654

>1x5o_A RNA binding motif, single-stranded interacting protein 1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=2.7e-17  Score=103.95  Aligned_cols=81  Identities=14%  Similarity=0.316  Sum_probs=74.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee--------
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV--------   91 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l--------   91 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++ ++.+++||||+|.+.++|.+|+. |++ ..|        
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~-~g~~~g~afV~f~~~~~a~~A~~~l~g-~~~~~~~~~~~   99 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNG-KFIKTPPGVSA   99 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBT-CCCCCCTTSCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC-CCCcceEEEEEECCHHHHHHHHHHhCC-CEEcCCccccC
Confidence            4566899999999999999999999999 99999999998 89999999999999999999999 999 888        


Q ss_pred             cCeEEEEEecCCC
Q psy13181         92 DGLQVRLDIADGK  104 (137)
Q Consensus        92 ~g~~l~v~~a~~~  104 (137)
                      .+++|.|.++.++
T Consensus       100 ~~~~l~v~~a~p~  112 (114)
T 1x5o_A          100 PTEPLLCKFSGPS  112 (114)
T ss_dssp             CSSCBEEEECCCS
T ss_pred             CCCceeEEccCCC
Confidence            5788999998864

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

Probab=99.75  E-value=1.4e-17  Score=106.83  Aligned_cols=84  Identities=21%  Similarity=0.349  Sum_probs=78.0

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++.++ ++.++++|||+|.+.++|.+|+. |++ ..|.|+.|.|
T Consensus        31 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V  108 (124)
T 2kt5_A           31 GVETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQYKG-VPLDGRPMDI  108 (124)
T ss_dssp             CCSSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS-SSSCCSEEEEEESSHHHHHHHHHHHTT-EESSSCEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC-CCCEeeEEEEEECCHHHHHHHHHHcCC-CEECCcEEEE
Confidence            44566899999999999999999999999 99999999998 89999999999999999999999 999 9999999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++.+...
T Consensus       109 ~~a~~~~~  116 (124)
T 2kt5_A          109 QLVASQID  116 (124)
T ss_dssp             EEECCTTC
T ss_pred             EEeCCCCC
Confidence            99987653

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

Probab=99.75  E-value=1.8e-17  Score=100.68  Aligned_cols=78  Identities=18%  Similarity=0.420  Sum_probs=70.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++        +++|||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~--------~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v~   75 (90)
T 2dnq_A            5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDII--------KNYGFVHIEDKTAAEDAIRNLHH-YKLHGVNINVE   75 (90)
T ss_dssp             SSCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEE--------TTEEEEEESSHHHHHHHHHHHTT-CBCSSCBCEEE
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEE--------CCEEEEEECCHHHHHHHHHHhcC-CccCCcEEEEE
Confidence            4567899999999999999999999999 99999886        4699999999999999999 999 99999999999


Q ss_pred             ecCCCCCCC
Q psy13181        100 IADGKRNDN  108 (137)
Q Consensus       100 ~a~~~~~~~  108 (137)
                      ++.++....
T Consensus        76 ~a~~~~~~~   84 (90)
T 2dnq_A           76 ASKNKSKAS   84 (90)
T ss_dssp             CSSCCCCCC
T ss_pred             ECCCCCCCC
Confidence            998776543

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

Probab=99.75  E-value=9.2e-18  Score=105.78  Aligned_cols=79  Identities=23%  Similarity=0.297  Sum_probs=73.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      ...+|||+|||+.+++++|+++|++|.|..|.++.++. ++++|+|||+|.+.++|++||.+++ ..|+++.|.|..+.+
T Consensus        15 ~~~~v~V~nLp~~~te~dl~~~F~~~~v~~v~i~~d~~-g~~~G~afV~F~~~~~a~~Al~~~~-~~~~gr~i~V~~a~~   92 (109)
T 2dnn_A           15 DDLYVSVHGMPFSAMENDVRDFFHGLRVDAVHLLKDHV-GRNNGNGLVKFLSPQDTFEALKRNR-MLMIQRYVEVSPATE   92 (109)
T ss_dssp             HHHEEEEECCCSSCCHHHHHHHTTTSCCCEEEECCCTT-CCCCSEEEEECSSHHHHHHHHHTTT-EEETTEEEEEEECCH
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHhccCCeeEEEEEECCC-CCCCeEEEEEECCHHHHHHHHhcCC-CeECCeEEEEEECCc
Confidence            45799999999999999999999999888999999876 8999999999999999999999999 999999999998865


Q ss_pred             C
Q psy13181        104 K  104 (137)
Q Consensus       104 ~  104 (137)
                      +
T Consensus        93 ~   93 (109)
T 2dnn_A           93 R   93 (109)
T ss_dssp             H
T ss_pred             c
Confidence            4

>2hgn_A Heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg1_A

Probab=99.75  E-value=5.4e-19  Score=115.90  Aligned_cols=85  Identities=21%  Similarity=0.257  Sum_probs=74.3

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      .....++|||+|||+++++++|+++|++|.+..|.++.++. ++++|||||+|.+.++|++||.+++ ..|+++.|.|..
T Consensus        42 ~~~~~~~lfV~nLp~~~te~dL~~~F~~~Gi~~v~i~~d~~-g~srGfaFV~F~~~e~A~~Al~~~g-~~l~gR~i~V~~  119 (139)
T 2hgn_A           42 QSTTGHCVHMRGLPYKATENDIYNFFSPLNPVRVHIEIGPD-GRVTGEADVEFATHEEAVAAMSKDR-ANMQHRYIELFL  119 (139)
T ss_dssp             ---CCCCEECCSCCTTCCHHHHHHHHCSCCCSEEECCCSSS-SCSSCCCEEECSHHHHHHHHTTCCS-CSSSSCCCCCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECCC-CCCceEEEEEeCCHHHHHHHHhhCC-CEECCEEEEEEE
Confidence            34566899999999999999999999999555899999986 8999999999999999999999999 999999999999


Q ss_pred             cCCCCCC
Q psy13181        101 ADGKRND  107 (137)
Q Consensus       101 a~~~~~~  107 (137)
                      +.++...
T Consensus       120 a~~~~~~  126 (139)
T 2hgn_A          120 NSTTGAS  126 (139)
T ss_dssp             CCCSCC-
T ss_pred             CCCCCCC
Confidence            8876543

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

Probab=99.75  E-value=1.3e-17  Score=106.88  Aligned_cols=81  Identities=22%  Similarity=0.386  Sum_probs=76.2

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||..+++++|+++|++| .|..|.++.++.++.+++||||+|.+.+++.+|+.|++ ..|+|+.|.|.++.+
T Consensus        36 ~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~l~V~~a~~  114 (124)
T 2jwn_A           36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAVAMDE-TVFRGRTIKVLPKRT  114 (124)
T ss_dssp             HTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHHTTTT-CEETTEECEEEESSC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHHhcCC-CeECCeEEEEEECCC
Confidence            4799999999999999999999999 99999999998899999999999999999999999999 999999999999886


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      ...
T Consensus       115 ~~~  117 (124)
T 2jwn_A          115 NMP  117 (124)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            543

>2ad9_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.75  E-value=1.8e-17  Score=105.85  Aligned_cols=91  Identities=14%  Similarity=0.186  Sum_probs=74.9

Q ss_pred             CCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-
Q psy13181         12 RYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-   88 (137)
Q Consensus        12 ~~~~~~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-   88 (137)
                      +.-+........+.++|||+|||+.++|++|+++|++| .|..|.++.+      +++|||+|.+.++|.+|+. +++. 
T Consensus        18 ~~~~~~~~~~~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~~------kG~AFVeF~~~e~A~~Ai~~l~~~~   91 (119)
T 2ad9_A           18 GSHMGDSRSAGVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG------KNQAFIEMNTEEAANTMVNYYTSVT   91 (119)
T ss_dssp             ----CCTTSCSSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEGG------GTEEEEECSCHHHHHHHHHHHHHHC
T ss_pred             ccccccccccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeCC------CCEEEEEECCHHHHHHHHHHhccCC
Confidence            33344445555677899999999999999999999999 9999998865      5799999999999999999 8731 


Q ss_pred             eeecCeEEEEEecCCCCCCC
Q psy13181         89 ITVDGLQVRLDIADGKRNDN  108 (137)
Q Consensus        89 ~~l~g~~l~v~~a~~~~~~~  108 (137)
                      ..|.|++|.|.++.+++...
T Consensus        92 ~~l~Gr~l~V~~a~~k~~~~  111 (119)
T 2ad9_A           92 PVLRGQPIYIQFSNHKELKT  111 (119)
T ss_dssp             CCBTTBCCEEEECSSSSCCC
T ss_pred             ceECCeEEEEEEccCCCCCc
Confidence            68999999999998776544

>2j76_E EIF-4B, EIF4B, eukaryotic translation initiation factor 4B; protein biosynthesis, RNA recognition motif, RNA binding domain, RRM, RBD, RNP; NMR {Homo sapiens}

Probab=99.75  E-value=3.3e-18  Score=106.03  Aligned_cols=85  Identities=39%  Similarity=0.757  Sum_probs=74.4

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecC-CCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDK-ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL   98 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~-~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v   98 (137)
                      .+....++|||+|||..+++++|+++|++|.|..|.++.++ .+++++|+|||+|.+.++|.+|+.|++ ..|+|+.|.|
T Consensus        14 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~Gi~~v~i~~~~~~~g~~~g~afV~f~~~~~a~~Ai~l~g-~~~~g~~l~V   92 (100)
T 2j76_E           14 LPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE-ESLGNRRIRV   92 (100)
T ss_dssp             ------CEEEESCCSSCCSSSHHHHHSCSSCEEEEECSCCTTTTCCCCSCEEEEECCHHHHHHHHHTTT-CCBTTBCCCC
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecCCcCCccCeEEEEEECCHHHHHHHHhcCC-CEECCeEEEE
Confidence            34456799999999999999999999999988889999887 689999999999999999999999999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.++.
T Consensus        93 ~~a~~~~   99 (100)
T 2j76_E           93 DVADQAQ   99 (100)
T ss_dssp             EECCCSC
T ss_pred             EeccCCC
Confidence            9998764

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.75  E-value=2.3e-18  Score=112.39  Aligned_cols=87  Identities=25%  Similarity=0.376  Sum_probs=79.5

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|++|+. |++ ..|.|+.|.
T Consensus        42 ~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~g~~~G~afV~F~~~~~A~~Ai~~l~g-~~i~g~~l~  120 (135)
T 2lea_A           42 PDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDG-AVLDGRELR  120 (135)
T ss_dssp             SSGGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSSSSCCSCCEEECSCHHHHHHHHTTTTT-CCSSSSCCE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCC-CEECCEEEE
Confidence            334566899999999999999999999999 99999999998889999999999999999999999 999 999999999


Q ss_pred             EEecCCCCCC
Q psy13181         98 LDIADGKRND  107 (137)
Q Consensus        98 v~~a~~~~~~  107 (137)
                      |.++++....
T Consensus       121 V~~a~~~~~~  130 (135)
T 2lea_A          121 VQMARYGRPP  130 (135)
T ss_dssp             EEECCCCCCC
T ss_pred             EEECCCCCCC
Confidence            9999876543

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=99.60  E-value=9.7e-20  Score=115.78  Aligned_cols=85  Identities=25%  Similarity=0.370  Sum_probs=78.1

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeE--------EEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVS--------VRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~--------i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      ..+.++|||+|||..+++++|+++|++| .|..        |.++.++.++.+++||||+|.+.++|.+|+. |++ ..|
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~   82 (116)
T 2lcw_A            4 NSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTDRETGKLKGEATVSFDDPPSAKAAIDWFDG-KEF   82 (116)
Confidence            3456899999999999999999999999 8888        8899998889999999999999999999999 999 999


Q ss_pred             cCeEEEEEecCCCCCC
Q psy13181         92 DGLQVRLDIADGKRND  107 (137)
Q Consensus        92 ~g~~l~v~~a~~~~~~  107 (137)
                      .++.|.|.++.++...
T Consensus        83 ~g~~l~V~~a~~~~~~   98 (116)
T 2lcw_A           83 SGNPIKVSFATRRADF   98 (116)
Confidence            9999999999877654

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

Probab=99.74  E-value=4.6e-17  Score=99.24  Aligned_cols=80  Identities=18%  Similarity=0.344  Sum_probs=71.5

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.++++        +|||+|.+.++|.+|+. |++ ..|.++.|.|
T Consensus         6 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~~--------~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~V   76 (92)
T 2dgt_A            6 SGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVKD--------YAFVHMERAEDAVEAIRGLDN-TEFQGKRMHV   76 (92)
T ss_dssp             CCCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECSS--------EEEEEESCHHHHHHHHHHHTT-EEETTEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEECC--------EEEEEECCHHHHHHHHHHhCC-CeeCCcEEEE
Confidence            34567899999999999999999999999 9999988633        99999999999999999 999 9999999999


Q ss_pred             EecCCCCCCCC
Q psy13181         99 DIADGKRNDNK  109 (137)
Q Consensus        99 ~~a~~~~~~~~  109 (137)
                      .++.++.....
T Consensus        77 ~~a~~~~~~~~   87 (92)
T 2dgt_A           77 QLSTSRLRTAS   87 (92)
T ss_dssp             EESSCCCSCCC
T ss_pred             EEccCCCCCCC
Confidence            99987765443

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

Probab=99.74  E-value=1.4e-17  Score=106.26  Aligned_cols=82  Identities=20%  Similarity=0.292  Sum_probs=75.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-c---eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-K---LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~---i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~   97 (137)
                      ....++|||+|||+++++++|+++|+.| .   |..|.++.++. ++++|+|||+|.+.++|++||.+++ ..|+++.|+
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~g-~~~~gr~i~   91 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE-GRQSGEAFVELESEDDVKLALKKDR-ESMGHRYIE   91 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS-SCEEEEEEEEBSSHHHHHHHGGGTT-EEETTEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC-CCCCeEEEEEECCHHHHHHHHhcCC-CeECCeEEE
Confidence            3456899999999999999999999999 6   89999999987 8999999999999999999999999 999999999


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      |.++..++
T Consensus        92 V~~a~~~~   99 (118)
T 2db1_A           92 VFKSHRTE   99 (118)
T ss_dssp             EEEECHHH
T ss_pred             EEECCHHH
Confidence            99987654

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.74  E-value=6.4e-18  Score=110.41  Aligned_cols=82  Identities=18%  Similarity=0.267  Sum_probs=75.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-c---eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-K---LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~---i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~   97 (137)
                      ....++|||+|||+++++++|+++|++| .   |..|.+++++. ++++|+|||+|.+.++|++||.+++ ..|+++.|.
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~-g~srG~aFV~F~~~e~a~~Al~~~g-~~l~gr~i~  118 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE-GRQSGEAFVELGSEDDVKMALKKDR-ESMGHRYIE  118 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS-SCEEEEEEEECSSHHHHHHHHTTTE-EESSSSEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC-CCCCeEEEEEECCHHHHHHHHhcCC-CEECCEEEE
Confidence            4556899999999999999999999999 7   78999999987 9999999999999999999999999 999999999


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      |.++.+++
T Consensus       119 V~~a~~~e  126 (136)
T 2hgl_A          119 VFKSHRTE  126 (136)
T ss_dssp             EEECCHHH
T ss_pred             EEECChHH
Confidence            99987543

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.74  E-value=1.4e-17  Score=108.69  Aligned_cols=81  Identities=21%  Similarity=0.358  Sum_probs=75.2

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|++|+. |++ ..|.|+.|+
T Consensus        58 ~~~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~  136 (140)
T 2ku7_A           58 GSATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNE-SELFGRTIR  136 (140)
T ss_dssp             SSCSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCCTTTCCCCSEEEEEESCHHHHHHHHHHSTE-EEETTEEEE
T ss_pred             CCCCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeecCCCCCcCcEEEEEECCHHHHHHHHHHhCC-CEECCEEEE
Confidence            344567899999999999999999999999 99999999998899999999999999999999998 999 999999999


Q ss_pred             EEec
Q psy13181         98 LDIA  101 (137)
Q Consensus        98 v~~a  101 (137)
                      |.+|
T Consensus       137 v~~A  140 (140)
T 2ku7_A          137 VNLA  140 (140)
T ss_dssp             EEC-
T ss_pred             EEeC
Confidence            9875

>2cpx_A Hypothetical protein FLJ11016; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=4.6e-18  Score=107.67  Aligned_cols=87  Identities=22%  Similarity=0.350  Sum_probs=72.1

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      +..+.++|||+|||..+++++|+++|.+| .|..+.+..+..++.+++||||+|.+.++|.+|+. |++ ..|.|+.|.|
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~l~v   99 (115)
T 2cpx_A           21 PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNG-YKLYGKILVI   99 (115)
T ss_dssp             CCSCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTT-CBCSSCBCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCccceEEEEEcCCCccceEEEEEECCHHHHHHHHHHhCC-CEeCCcEEEE
Confidence            34466899999999999999999999999 77332222222267889999999999999999999 999 9999999999


Q ss_pred             EecCCCCCCC
Q psy13181         99 DIADGKRNDN  108 (137)
Q Consensus        99 ~~a~~~~~~~  108 (137)
                      .++.++....
T Consensus       100 ~~a~~~~~~~  109 (115)
T 2cpx_A          100 EFGKNKKQRS  109 (115)
T ss_dssp             EECCCCSCCC
T ss_pred             EEccCCCCCC
Confidence            9998776543

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=6.3e-18  Score=105.52  Aligned_cols=79  Identities=14%  Similarity=0.351  Sum_probs=73.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ...++|||+|||+++++++|+++|++| .|..|.+++++. +.++|||||+|.+.++|.+|+.+++ ..|+|+.|.|.++
T Consensus         9 ~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g~~rG~aFV~F~~~e~a~~Ai~~~~-~~~~gr~l~V~~~   86 (103)
T 1s79_A            9 VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFVVFDSIESAKKFVETPG-QKYKETDLLILFK   86 (103)
T ss_dssp             SGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-TSCCCEEEEEESSHHHHHHHHTSSC-CCCTTTTCEEEEH
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC-CCCccEEEEEECCHHHHHHHHHcCC-CEECCEEEEEEEc
Confidence            455899999999999999999999999 999999999987 8999999999999999999999999 9999999999986


Q ss_pred             CC
Q psy13181        102 DG  103 (137)
Q Consensus       102 ~~  103 (137)
                      ..
T Consensus        87 ~~   88 (103)
T 1s79_A           87 DD   88 (103)
T ss_dssp             HH
T ss_pred             hH
Confidence            54

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

Probab=99.74  E-value=2.7e-18  Score=100.92  Aligned_cols=74  Identities=27%  Similarity=0.372  Sum_probs=70.4

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +|||+|||+++++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|++|+++++ ..|+|+.|.|.+|
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~A   75 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHF-HEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCSSSTTSCBEEEEECSCHHHHHHHHSSSC-CCSSSCCCEEECC
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcCcEEEEEECCHHHHHHHHHCCC-CEECCEEEEEEeC
Confidence            58999999999999999999999 99999999998889999999999999999999999999 9999999999875

>2cq1_A PTB-like protein L; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.74  E-value=1.1e-16  Score=99.53  Aligned_cols=81  Identities=14%  Similarity=0.185  Sum_probs=70.9

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC--CCeeecCeEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD--GRITVDGLQV   96 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~--~~~~l~g~~l   96 (137)
                      ...+.++|||+|||+.+++++|+++|++| .|..|.++.+      +++|||+|.+.++|.+|+. |+  + ..|.|++|
T Consensus        11 ~~~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~-~~~~Gr~l   83 (101)
T 2cq1_A           11 DGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG------KNQAFLELATEEAAITMVNYYSAVT-PHLRNQPI   83 (101)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSC-CEETTEEC
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEECC------CCEEEEEECCHHHHHHHHHHhccCC-ceECCcEE
Confidence            34566899999999999999999999999 9999988754      5799999999999999998 74  6 78999999


Q ss_pred             EEEecCCCCCCC
Q psy13181         97 RLDIADGKRNDN  108 (137)
Q Consensus        97 ~v~~a~~~~~~~  108 (137)
                      .|.++.+++...
T Consensus        84 ~V~~a~~~~~~~   95 (101)
T 2cq1_A           84 YIQYSNHKELKT   95 (101)
T ss_dssp             EEEECSCSSCCC
T ss_pred             EEEEcCcccCcC
Confidence            999998776443

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

Probab=99.74  E-value=8.6e-18  Score=112.19  Aligned_cols=80  Identities=15%  Similarity=0.259  Sum_probs=74.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ..++|||+|||+++++++|+++|++|   .|..|.++.++.+++++|||||+|.+.++|++||. |++ ..|+|+.|.|.
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng-~~~~Gr~l~V~  132 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPG-KVLNGEKVDVR  132 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTT-CEETTEECEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCC-CEECCeEeEEE
Confidence            35799999999999999999999998   38899999999999999999999999999999999 999 99999999999


Q ss_pred             ecCCC
Q psy13181        100 IADGK  104 (137)
Q Consensus       100 ~a~~~  104 (137)
                      ++.++
T Consensus       133 ~a~~~  137 (156)
T 3n9u_C          133 PATRQ  137 (156)
T ss_dssp             ECCHH
T ss_pred             EcCCC
Confidence            98754

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

Probab=99.74  E-value=1.3e-17  Score=104.88  Aligned_cols=84  Identities=23%  Similarity=0.408  Sum_probs=75.8

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ........++|||+|||..+++++|+++|++| .|..|.++.++.  .++++|||+|.+.++|++|+. |++ ..|+|+.
T Consensus        22 ~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~--~~kg~afV~f~~~~~A~~Ai~~l~g-~~~~g~~   98 (109)
T 2err_A           22 NTENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER--GSKGFGFVTFENSADADRAREKLHG-TVVEGRK   98 (109)
T ss_dssp             CCSCTTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT--BCTTEEEEECCCSHHHHHHHHHHTT-CEETTEE
T ss_pred             CccCCCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC--CCceEEEEEECCHHHHHHHHHHcCC-CEECCEE
Confidence            34445567899999999999999999999999 999999998853  478999999999999999999 999 9999999


Q ss_pred             EEEEecCCC
Q psy13181         96 VRLDIADGK  104 (137)
Q Consensus        96 l~v~~a~~~  104 (137)
                      |.|.++.++
T Consensus        99 l~V~~a~~~  107 (109)
T 2err_A           99 IEVNNATAR  107 (109)
T ss_dssp             CEEEECCCS
T ss_pred             EEEEECCCC
Confidence            999999875

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

Probab=99.74  E-value=1.7e-17  Score=101.80  Aligned_cols=82  Identities=24%  Similarity=0.396  Sum_probs=72.1

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..+     ..++.++|+|||+|.+.++|.+|+. |++ ..|.|+.|.|
T Consensus        12 ~~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~-----~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v   85 (96)
T 1fjc_A           12 KVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSKGIAYIEFKSEADAEKNLEEKQG-AEIDGRSVSL   85 (96)
T ss_dssp             TTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE-----EETTEEEEEEEEEESSHHHHHHHHHHTTE-EEETTEEEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe-----CCCCCcceEEEEEECCHHHHHHHHHHhCC-CEECCeEEEE
Confidence            34566899999999999999999999998 66555     3457889999999999999999999 999 9999999999


Q ss_pred             EecCCCCCCC
Q psy13181         99 DIADGKRNDN  108 (137)
Q Consensus        99 ~~a~~~~~~~  108 (137)
                      .++.++...+
T Consensus        86 ~~a~~~~~~~   95 (96)
T 1fjc_A           86 YYTGEKGGTR   95 (96)
T ss_dssp             EECSSSCCCC
T ss_pred             EEcCCCCCCC
Confidence            9998776554

>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase, SR protein, PRE-mRNA splicing, at binding, chromosome partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP: d.58.7.1 PDB: 2o3d_A 1wg4_A

Probab=99.74  E-value=6.2e-18  Score=107.40  Aligned_cols=80  Identities=19%  Similarity=0.276  Sum_probs=65.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE----
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ----   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~----   95 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.+       +||||+|.+.++|++||. |++ ..|+|+.    
T Consensus        13 ~r~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g-~~~~gr~~~~~   84 (115)
T 3beg_B           13 RRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDN-TKFRSHEGETA   84 (115)
T ss_dssp             ----CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-------SEEEEEESSHHHHHHHHHHHTT-CBCCCTTSCCC
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC-------CEEEEEECCHHHHHHHHHHhCC-CEECCcEeeeE
Confidence            3456899999999999999999999999 9999988765       799999999999999999 999 9999988    


Q ss_pred             -EEEEecCCCCCCCC
Q psy13181         96 -VRLDIADGKRNDNK  109 (137)
Q Consensus        96 -l~v~~a~~~~~~~~  109 (137)
                       |+|..+.++...+.
T Consensus        85 ~i~v~~~~~~~~~~~   99 (115)
T 3beg_B           85 YIRVKVDGPRSPSYG   99 (115)
T ss_dssp             BCEEEECC----CCC
T ss_pred             EEEeccCCCCCCCCC
Confidence             88888776554443

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A

Probab=99.73  E-value=5e-17  Score=102.22  Aligned_cols=95  Identities=22%  Similarity=0.483  Sum_probs=76.7

Q ss_pred             ccCCccCCCCCCC---CCCCCCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHH
Q psy13181          5 SYGGYPERYGRNQ---KTLPTEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENL   79 (137)
Q Consensus         5 ~~~~~~~~~~~~~---~~~~~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a   79 (137)
                      .+.+++.+.....   ...+....++|||+|||.. +++++|+++|++| .|..|.+        .+++|||+|.+.++|
T Consensus         4 g~~g~~~~~~~s~~~~~~~~~~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i--------~~g~afV~f~~~~~A   75 (110)
T 1wf1_A            4 GSSGMSLKLQASNVTNKNDPKSINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSV--------HKGYAFVQYSNERHA   75 (110)
T ss_dssp             CCCSCCCCCCCCCSCCSCCCTTCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEE--------ETTEEEEECSSSHHH
T ss_pred             CCCCcccccccCCCCCCCCCCCCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEE--------eCCEEEEEECCHHHH
Confidence            4555555444332   2233345589999999999 9999999999999 9998877        367999999999999


Q ss_pred             HHHHH-hCCCeeecCeEEEEEecCCCCCCC
Q psy13181         80 RQALL-KDGRITVDGLQVRLDIADGKRNDN  108 (137)
Q Consensus        80 ~~al~-l~~~~~l~g~~l~v~~a~~~~~~~  108 (137)
                      ++|+. |++ ..|+++.|.|.++.+++..+
T Consensus        76 ~~A~~~l~g-~~~~g~~l~V~~a~~~~~~~  104 (110)
T 1wf1_A           76 RAAVLGENG-RVLAGQTLDINMAGEPKPDR  104 (110)
T ss_dssp             HHHHHHHTT-CEETTEECCEEESCCCCSCC
T ss_pred             HHHHHHcCC-CEECCeEEEEEECCCCCCCC
Confidence            99998 999 99999999999998655433

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

Probab=99.73  E-value=1.4e-18  Score=107.69  Aligned_cols=84  Identities=26%  Similarity=0.434  Sum_probs=74.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ...++|||+|||..+++++|+++|++| .+.. .++.++.++.+++||||+|.+.++|++|++|++ ..|.|+.|.|.++
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~-~~~~~~~~g~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~l~V~~a   92 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTG-LKVFGNEIKLEKP   92 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGG-CCBTTBCCEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEecCCCCCcCcEEEEEECCHHHHHHHHhcCC-cEECCcEEEEEEc
Confidence            457899999999999999999999999 6666 556666678889999999999999999999999 9999999999999


Q ss_pred             CCCCCCC
Q psy13181        102 DGKRNDN  108 (137)
Q Consensus       102 ~~~~~~~  108 (137)
                      .++...+
T Consensus        93 ~~~~~~~   99 (101)
T 1fj7_A           93 KGRDGTR   99 (101)
T ss_dssp             SCCCCSS
T ss_pred             CCCCCCC
Confidence            8776543

>1wex_A Hypothetical protein (riken cDNA 2810036L13); structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.73  E-value=5.8e-17  Score=101.28  Aligned_cols=84  Identities=15%  Similarity=0.235  Sum_probs=72.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~v   98 (137)
                      ..+.++|||+|||+.+++++|+++|++| .|..|.++.+      +++|||+|.+.++|.+|+. |++. ..|.|++|.|
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V   85 (104)
T 1wex_A           12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF------KRQALVEFENIDSAKECVTFAADVPVYIAGQQAFF   85 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEECC------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEE
Confidence            3456899999999999999999999999 9999988753      5799999999999999999 8651 5699999999


Q ss_pred             EecCCCCCCCCCC
Q psy13181         99 DIADGKRNDNKGG  111 (137)
Q Consensus        99 ~~a~~~~~~~~~~  111 (137)
                      .++..+...+.++
T Consensus        86 ~~a~~~~~~~~~~   98 (104)
T 1wex_A           86 NYSTSKRITRPGN   98 (104)
T ss_dssp             EECSSSSCCCSCC
T ss_pred             EEccCccccCCCC
Confidence            9999877655443

>1why_A Hypothetical protein riken cDNA 1810017N16; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.72  E-value=6.9e-17  Score=99.37  Aligned_cols=77  Identities=19%  Similarity=0.389  Sum_probs=70.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec--CeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD--GLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~--g~~l~v   98 (137)
                      .+.++|||+|||..+++++|+++|++| .|..|.+..+      +++|||+|.+.++|++|+. |++ ..|.  ++.|.|
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~~------~g~afV~f~~~~~A~~A~~~l~g-~~~~~~g~~l~V   87 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG------DSFAYIQYESLDAAQAACAKMRG-FPLGGPDRRLRV   87 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS------SCCEEEEESSHHHHHHHHHHHTT-CBCSSSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeCC------CCEEEEEECCHHHHHHHHHHHCC-CEeCCCCcEEEE
Confidence            456899999999999999999999999 9999988753      5699999999999999999 999 9999  999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++.++..
T Consensus        88 ~~a~~~~~   95 (97)
T 1why_A           88 DFAKSGPS   95 (97)
T ss_dssp             EECCCCCC
T ss_pred             EECCCCCC
Confidence            99987654

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.72  E-value=2e-17  Score=103.39  Aligned_cols=81  Identities=16%  Similarity=0.242  Sum_probs=71.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVRLD   99 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~v~   99 (137)
                      ....+|||+|||+.++|++|+++|++| .|.+|.++++      +|||||+|.+.++|.+|++ +++. ..|.|++|.|.
T Consensus        14 ~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~~------kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~   87 (105)
T 1sjq_A           14 VPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLKG------KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQ   87 (105)
T ss_dssp             CCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEE
Confidence            456899999999999999999999999 9999999865      5799999999999999999 8631 78999999999


Q ss_pred             ecCCCCCCCC
Q psy13181        100 IADGKRNDNK  109 (137)
Q Consensus       100 ~a~~~~~~~~  109 (137)
                      ++.+++....
T Consensus        88 ~A~~~~~~~~   97 (105)
T 1sjq_A           88 FSNHKELKTD   97 (105)
T ss_dssp             CCSSSSCCCT
T ss_pred             EcCCCCCCcc
Confidence            9987765443

>2hgm_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kg0_A

Probab=99.72  E-value=7.2e-18  Score=108.79  Aligned_cols=83  Identities=20%  Similarity=0.275  Sum_probs=74.1

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCCcee--EEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~--~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~   97 (137)
                      .+.....+|||+|||+++++++|+++|++|.|.  .|.++.++. ++++|||||+|.+.++|++||.+++ ..|+++.|.
T Consensus        37 ~~~~~~~~lfVgnLp~~~te~dL~~~F~~~~i~~~~v~i~~d~~-GrsrGfaFV~F~~~e~A~~Al~~~~-~~l~gR~I~  114 (126)
T 2hgm_A           37 ADSANDGFVRLRGLPFGCTKEEIVQFFSGLEIVPNGITLPVDPE-GKITGEAFVQFASQELAEKALGKHK-ERIGHRYIE  114 (126)
T ss_dssp             TCSSSCCEEEEECCCTTCCHHHHHHHTTTSCEEEEEEECCCCSS-SSSCSEEEEEESSTTHHHHHHTTTT-CCBTTBCCC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHhcCCceeeEEEEEECCC-CCCceEEEEEECCHHHHHHHHHHCC-CEECCEEEE
Confidence            334566899999999999999999999999665  899999987 8999999999999999999999888 999999999


Q ss_pred             EEecCCC
Q psy13181         98 LDIADGK  104 (137)
Q Consensus        98 v~~a~~~  104 (137)
                      |..+.++
T Consensus       115 V~~a~~~  121 (126)
T 2hgm_A          115 VFKSSQE  121 (126)
T ss_dssp             CEEECHH
T ss_pred             EEECCHH
Confidence            9988654

>1x4d_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.72  E-value=9.4e-17  Score=99.97  Aligned_cols=79  Identities=10%  Similarity=0.100  Sum_probs=69.6

Q ss_pred             CCCceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEEE
Q psy13181         23 EPPYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~v   98 (137)
                      .+.++|||+|||+ .+++++|+++|++| .|..|.+++++      ++|||+|.+.++|.+|+. |++. ..|.|++|.|
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~~k------g~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V   86 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI------NEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRV   86 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS------SCEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEcCC------CEEEEEECCHHHHHHHHHHHcCCCceECCcEEEE
Confidence            4678999999999 99999999999999 99999998653      599999999999999999 8851 5699999999


Q ss_pred             EecCCCCCC
Q psy13181         99 DIADGKRND  107 (137)
Q Consensus        99 ~~a~~~~~~  107 (137)
                      .++..+...
T Consensus        87 ~~a~~~~~~   95 (102)
T 1x4d_A           87 HLSQKYKRI   95 (102)
T ss_dssp             EEECCCTTS
T ss_pred             EECCCCCCC
Confidence            999876543

>2ki2_A SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA binding proteins, RNA binding protein/SS-DNA binding protein complex; NMR {Helicobacter pylori}

Probab=99.72  E-value=2.8e-18  Score=104.21  Aligned_cols=79  Identities=30%  Similarity=0.505  Sum_probs=71.4

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ++|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.+ |.+|+. |++ ..++|+.|.|.+|.+
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~-a~~a~~~l~g-~~~~g~~l~V~~a~~   79 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYDRETKKPKGFGFVEMQEES-VSEAIAKLDN-TDFMGRTIRVTEANP   79 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCCSSSCCCCEEEEEEECTTH-HHHHHHTSCS-SCCSSSSCSEEEC--
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEcCCCCCcceEEEEEECCHH-HHHHHHHhCC-CEECCeEEEEEEcCC
Confidence            589999999999999999999999 9999999999989999999999999999 999999 999 999999999999987


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      ...
T Consensus        80 ~~~   82 (90)
T 2ki2_A           80 KKS   82 (90)
T ss_dssp             ---
T ss_pred             CCC
Confidence            643

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

Probab=99.71  E-value=7.3e-17  Score=97.96  Aligned_cols=77  Identities=18%  Similarity=0.477  Sum_probs=69.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++++        +|||+|.+.++|++|+. |++ ..|.++.|.|.
T Consensus         6 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~~--------~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~   76 (90)
T 2dnp_A            6 SGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVKD--------YAFVHMEKEADAKAAIAQLNG-KEVKGKRINVE   76 (90)
T ss_dssp             SCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECSS--------CEEEEESCHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEECC--------EEEEEECCHHHHHHHHHHhCC-CEECCcEEEEE
Confidence            3556899999999999999999999999 9999988733        99999999999999999 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      ++.++...
T Consensus        77 ~a~~~~~~   84 (90)
T 2dnp_A           77 LSTKGQKK   84 (90)
T ss_dssp             ESCCCCCC
T ss_pred             ECCCCCCC
Confidence            99876543

>2cpj_A Non-POU domain-containing octamer-binding protein; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.71  E-value=1.5e-16  Score=98.18  Aligned_cols=81  Identities=27%  Similarity=0.377  Sum_probs=72.4

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....++|||+|||..+++++|+++|++| .|..|.+..+      +++|||+|.+.++|.+|+. |++ ..|.++.|.|
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~~------kg~afV~f~~~~~a~~a~~~l~g-~~~~g~~l~v   83 (99)
T 2cpj_A           11 TFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDN-MPLRGKQLRV   83 (99)
T ss_dssp             CCCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT------TTEEEEECSSSHHHHHHHHHHTT-CCBTTBCCEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEecC------CCEEEEEECCHHHHHHHHHHhCC-CEeCCceEEE
Confidence            34566899999999999999999999999 9999988754      5699999999999999998 999 9999999999


Q ss_pred             EecCCCCCCC
Q psy13181         99 DIADGKRNDN  108 (137)
Q Consensus        99 ~~a~~~~~~~  108 (137)
                      .++.++....
T Consensus        84 ~~a~~~~~~~   93 (99)
T 2cpj_A           84 RFACHSASLT   93 (99)
T ss_dssp             EESSCCSCCC
T ss_pred             EEcCCCCCCC
Confidence            9998766543

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

Probab=99.71  E-value=3.2e-17  Score=102.45  Aligned_cols=81  Identities=17%  Similarity=0.279  Sum_probs=73.0

Q ss_pred             CCCCceEEEcCCCCCC------CHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC
Q psy13181         22 TEPPYTAFVGNLPNGI------TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG   93 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~------~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g   93 (137)
                      ....++|||+|||..+      ++++|+.+|++| .|..|.++  +.++.++|||||+|.+.++|.+|+. |++ ..|.|
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~--~~~g~~~G~afV~f~~~~~A~~Ai~~l~g-~~~~g   88 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADG-YKLDK   88 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECC--CBTTBSCCEEEEEECSSSHHHHHHHHCSS-EECST
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEee--CCCCCeeeEEEEEECCHHHHHHHHHHhCC-cccCC
Confidence            4456899999999999      789999999999 99999887  4678999999999999999999999 999 99999


Q ss_pred             e-EEEEEecCCCC
Q psy13181         94 L-QVRLDIADGKR  105 (137)
Q Consensus        94 ~-~l~v~~a~~~~  105 (137)
                      + .|.|.++....
T Consensus        89 ~~~l~V~~a~~~~  101 (105)
T 2nlw_A           89 QHTFRVNLFTDFD  101 (105)
T ss_dssp             TCEEEEECSCCCC
T ss_pred             CceEEEEEcchHh
Confidence            8 99999987554

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.71  E-value=8.7e-18  Score=105.39  Aligned_cols=83  Identities=16%  Similarity=0.237  Sum_probs=75.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-c---eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-K---LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV   96 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~---i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l   96 (137)
                      ......+|||+|||+++++++|+++|+.| .   |..|.++.++. ++++|+|||+|.+.++|.+||.+++ ..|+++.|
T Consensus         7 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~-g~~~G~afV~F~~~~~a~~Al~~~~-~~~~gr~i   84 (107)
T 2lmi_A            7 EVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD-GKRRGDALIEMESEQDVQKALEKHR-MYMGQRYV   84 (107)
T ss_dssp             CCSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT-STTCSEEEEEBSSHHHHHHHHTTTT-CCSSSSCC
T ss_pred             CCCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC-CCEeeEEEEEECCHHHHHHHHHhCc-ceeCCeEE
Confidence            34567899999999999999999999998 5   88999999987 8999999999999999999999999 99999999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      .|.++.++.
T Consensus        85 ~V~~a~~~~   93 (107)
T 2lmi_A           85 EVYEINNED   93 (107)
T ss_dssp             CCEECCHHH
T ss_pred             EEEECCHHH
Confidence            999987653

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

Probab=99.71  E-value=5.5e-17  Score=99.88  Aligned_cols=81  Identities=21%  Similarity=0.331  Sum_probs=70.3

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||..+++++|+++|++| .|. +.++.+    .+++||||+|.+.++|++|+. |++ ..|+|+.|.
T Consensus        14 ~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~~----~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~   87 (97)
T 2e5j_A           14 EGAPLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTWQ----GPRRRAFLHYPDSAAAQQAVSCLQG-LRLGTDTLR   87 (97)
T ss_dssp             SSSCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEEE----TTTTEEEEECSSHHHHHHHHHHHTT-CCSSSSCCE
T ss_pred             CCCCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEcC----CCCcEEEEEECCHHHHHHHHHHhCC-CEECCcEEE
Confidence            344567899999999999999999999999 775 555543    457899999999999999999 999 999999999


Q ss_pred             EEecCCCCC
Q psy13181         98 LDIADGKRN  106 (137)
Q Consensus        98 v~~a~~~~~  106 (137)
                      |.++.+++.
T Consensus        88 V~~a~~~~~   96 (97)
T 2e5j_A           88 VALARQQRD   96 (97)
T ss_dssp             EEECCCCCC
T ss_pred             EEEcCCCCC
Confidence            999987653

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.71  E-value=7.5e-17  Score=108.02  Aligned_cols=96  Identities=25%  Similarity=0.435  Sum_probs=82.8

Q ss_pred             cCCccCCCCCCCCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH
Q psy13181          6 YGGYPERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL   84 (137)
Q Consensus         6 ~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~   84 (137)
                      +.+.......+....+.....+|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+.
T Consensus        75 ~~g~~i~v~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~  154 (172)
T 2g4b_A           75 FQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIA  154 (172)
T ss_dssp             ETTEECEEECCSSCCCCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCSEEEEEEEEESSTTHHHHHHH
T ss_pred             ecCceeeecCCcccCCCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEecCCCCCcceEEEEEeCCHHHHHHHHH
Confidence            34444444444444444567899999999999999999999999 99999999998889999999999999999999999


Q ss_pred             -hCCCeeecCeEEEEEecC
Q psy13181         85 -KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        85 -l~~~~~l~g~~l~v~~a~  102 (137)
                       |++ ..|+|+.|.|.+|.
T Consensus       155 ~l~g-~~~~g~~l~V~~As  172 (172)
T 2g4b_A          155 GLNG-MQLGDKKLLVQRAS  172 (172)
T ss_dssp             HHTT-CEETTEECEEEECC
T ss_pred             HcCC-CEECCeEEEEEeCC
Confidence             999 99999999999873

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

Probab=99.71  E-value=9.6e-17  Score=111.72  Aligned_cols=84  Identities=25%  Similarity=0.392  Sum_probs=75.9

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      +..+.++|||+|||++++|++|+++|++| .|..|.+++++.+++++|||||+|.+.++|.+|+. +++ ..+.++.|++
T Consensus        11 p~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~~G~afV~F~~~~~A~~Ai~~~~~-~~~~g~~i~~   89 (213)
T 4f02_A           11 PSYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNF-DVIKGKPVRI   89 (213)
T ss_dssp             ----CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEecccCCCCccccccceeCCHHHHHHHHHHhhh-hhcCCccccc
Confidence            34456899999999999999999999999 99999999999999999999999999999999999 999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++....
T Consensus        90 ~~~~~~~   96 (213)
T 4f02_A           90 MWSQRDP   96 (213)
T ss_dssp             EECCCCT
T ss_pred             ccccccc
Confidence            9987543

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.71  E-value=1.2e-16  Score=109.15  Aligned_cols=88  Identities=18%  Similarity=0.377  Sum_probs=74.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ....+|||+|||..+++++|+++|++| .|..|.++.++.++.++|+|||+|.+.++|.+|+..++ ..|+|+.|.|.++
T Consensus       102 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~~~-~~~~G~~i~v~~a  180 (196)
T 1l3k_A          102 LTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY-HTVNGHNCEVRKA  180 (196)
T ss_dssp             -CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSC-CEETTEECEEEEC
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeecCCCCCccceEEEEECCHHHHHHHHHhCC-cEECCEEEEEEec
Confidence            355899999999999999999999999 99999999999899999999999999999999999778 9999999999999


Q ss_pred             CCCCCCCCCC
Q psy13181        102 DGKRNDNKGG  111 (137)
Q Consensus       102 ~~~~~~~~~~  111 (137)
                      .++....+.+
T Consensus       181 ~~k~~~~~~~  190 (196)
T 1l3k_A          181 LSKQEMASAS  190 (196)
T ss_dssp             C---------
T ss_pred             CChhHhcccc
Confidence            9887665543

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

Probab=99.70  E-value=4.8e-16  Score=95.89  Aligned_cols=80  Identities=19%  Similarity=0.316  Sum_probs=68.7

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC---ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~---~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      .......++|||+|||..+++++|+++|++|   .|..|.+.        +++|||+|.+.++|.+|+. |++ ..|.++
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~--------~g~afV~f~~~~~A~~A~~~l~g-~~~~g~   79 (99)
T 2cpd_A            9 EDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKI--------RDYAFVHFSNREDAVEAMKALNG-KVLDGS   79 (99)
T ss_dssp             CSCSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEEC--------SSEEEEEESSHHHHHHHHHHHSS-EEETTE
T ss_pred             ccccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEe--------CCeEEEEeCCHHHHHHHHHHhCC-CEeCCc
Confidence            3344567899999999999999999999998   46666543        4599999999999999999 999 999999


Q ss_pred             EEEEEecCCCCCC
Q psy13181         95 QVRLDIADGKRND  107 (137)
Q Consensus        95 ~l~v~~a~~~~~~  107 (137)
                      .|.|.++.++...
T Consensus        80 ~l~v~~a~~~~~~   92 (99)
T 2cpd_A           80 PIEVTLAKPVDKD   92 (99)
T ss_dssp             EEEEECCCCCCCC
T ss_pred             EEEEEECCCCCCC
Confidence            9999999876543

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.70  E-value=1e-16  Score=100.62  Aligned_cols=79  Identities=20%  Similarity=0.437  Sum_probs=71.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.+      ++||||+|.+.++|.+|+. |++ ..|.|+.|.|.+
T Consensus        23 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~------~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~~   95 (109)
T 1x4g_A           23 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNG-TTIEGHVVKCYW   95 (109)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEC
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeCC------CCEEEEEECCHHHHHHHHHHcCC-CEECCcEEEEEe
Confidence            456899999999999999999999999 9999998865      5699999999999999998 999 999999999999


Q ss_pred             cCCCCCCC
Q psy13181        101 ADGKRNDN  108 (137)
Q Consensus       101 a~~~~~~~  108 (137)
                      +.++....
T Consensus        96 a~~~~~~~  103 (109)
T 1x4g_A           96 GKESPDMT  103 (109)
T ss_dssp             CCCCCSSC
T ss_pred             cCCCCCCC
Confidence            98876543

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

Probab=99.70  E-value=1e-16  Score=99.30  Aligned_cols=78  Identities=19%  Similarity=0.252  Sum_probs=68.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~v   98 (137)
                      ..+.++|||+|||..+++++|+++|++| .|.++.++++      +++|||+|.+.++|.+|+. |++. +.|.|++|.|
T Consensus        18 ~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~~------kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V   91 (100)
T 3r27_A           18 TPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMPK------KRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFV   91 (100)
T ss_dssp             CCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEcC------CCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEE
Confidence            4567899999999999999999999999 9999988743      5699999999999999999 8872 3589999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++++++
T Consensus        92 ~~S~~k~   98 (100)
T 3r27_A           92 NYSTSQK   98 (100)
T ss_dssp             EECSCSC
T ss_pred             Eeccccc
Confidence            9998764

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.70  E-value=2.7e-16  Score=96.20  Aligned_cols=78  Identities=24%  Similarity=0.387  Sum_probs=69.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ...++|||+|||..+++++|+++|++| .|..|  +.++.++.   ||||+|.+.+++.+|+.|++ ..|+|+.|.|.++
T Consensus         6 ~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v--~~~~~~g~---~afV~f~~~~~a~~ai~l~g-~~~~g~~l~V~~a   79 (94)
T 2e5g_A            6 SGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV--VMDKDKGV---FAIVEMGDVGAREAVLSQSQ-HSLGGHRLRVRPR   79 (94)
T ss_dssp             TTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE--EECSSSCC---EEEEEESSHHHHHHHHTCSC-CEETTEECCCBCS
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE--EEcCCCCc---EEEEEECCHHHHHHHHhcCC-eEECCEEEEEEEC
Confidence            345799999999999999999999999 88887  56666655   99999999999999999999 9999999999988


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .++..
T Consensus        80 ~~~~~   84 (94)
T 2e5g_A           80 EQKEF   84 (94)
T ss_dssp             CCSCC
T ss_pred             CcCCC
Confidence            76554

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

Probab=99.70  E-value=3.6e-17  Score=101.32  Aligned_cols=77  Identities=31%  Similarity=0.563  Sum_probs=70.5

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ++|||+|||..+++++|+++|++| .|..|.++.+     ++++|||+|.+.++|.+|+. |++ ..+.|+.|.|.++.+
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~V~~a~~   74 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN-----PPGFAFVEFEDPRDAEDAVRGLDG-KVICGSRVRVELSTG   74 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS-----SSSEEEEECSSHHHHHHHHHHHHH-SCSSSCCCEEEESSS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC-----CCCEEEEEECCHHHHHHHHHHHCC-CeECCcEEEEEEccC
Confidence            479999999999999999999999 9999998876     57799999999999999999 999 999999999999988


Q ss_pred             CCCCC
Q psy13181        104 KRNDN  108 (137)
Q Consensus       104 ~~~~~  108 (137)
                      +....
T Consensus        75 ~~~~~   79 (101)
T 2hvz_A           75 MPRRS   79 (101)
T ss_dssp             CCCSS
T ss_pred             CCCcc
Confidence            76443

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

Probab=99.70  E-value=1.1e-16  Score=100.63  Aligned_cols=79  Identities=16%  Similarity=0.304  Sum_probs=69.6

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||..+++++|+++|++| .|..|.++        +++|||+|.+.++|.+|+. |++ ..|+|+.|
T Consensus        25 ~~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~--------kg~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l   95 (108)
T 2jvo_A           25 QEGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKIL--------NGFAFVEFEEAESAAKAIEEVHG-KSFANQPL   95 (108)
T ss_dssp             ---CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEE--------TTEEEEECSSHHHHHHHHHHHTT-CEETTEEC
T ss_pred             cCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEE--------CCEEEEEECCHHHHHHHHHHcCC-CEECCeEE
Confidence            3344567899999999999999999999999 99999886        5699999999999999999 999 99999999


Q ss_pred             EEEecCCCCC
Q psy13181         97 RLDIADGKRN  106 (137)
Q Consensus        97 ~v~~a~~~~~  106 (137)
                      .|.++.++..
T Consensus        96 ~V~~a~~~~~  105 (108)
T 2jvo_A           96 EVVYSKLPAK  105 (108)
T ss_dssp             EEESCSCCC-
T ss_pred             EEEEecCCCC
Confidence            9999987654

>1iqt_A AUF1, heterogeneous nuclear ribonucleoprotein D0; RNA-binding protein, hnRNP, telomere, DNA-binding protein, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wtb_A 1x0f_A

Probab=99.70  E-value=7.5e-18  Score=98.91  Aligned_cols=74  Identities=23%  Similarity=0.480  Sum_probs=70.0

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|++|+.+++ ..+.|+.|.|.+|
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~-~~~~g~~l~v~~a   75 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY-HNVGLSKCEIKVA   75 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCSCCCSSSCCCEEEECSSSHHHHHHHTTSS-CCBTTBCCCEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCcCCEEEEEECCHHHHHHHHHhCC-CeECCEEEEEEEC
Confidence            58999999999999999999999 99999999998899999999999999999999999888 8999999999875

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

Probab=99.69  E-value=4.7e-16  Score=103.27  Aligned_cols=82  Identities=20%  Similarity=0.412  Sum_probs=77.1

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      .......+|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+. |++ ..++|+.|.
T Consensus        82 ~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~i~  160 (166)
T 3md3_A           82 SSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQG-QDLNGRPLR  160 (166)
T ss_dssp             CCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTT-CEETTEECE
T ss_pred             CCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEecCCCCCcceEEEEEeCCHHHHHHHHHHhCC-CccCCcEEE
Confidence            344567899999999999999999999999 99999999998899999999999999999999999 999 999999999


Q ss_pred             EEecC
Q psy13181         98 LDIAD  102 (137)
Q Consensus        98 v~~a~  102 (137)
                      |.+|+
T Consensus       161 v~~a~  165 (166)
T 3md3_A          161 INWAA  165 (166)
T ss_dssp             EEESC
T ss_pred             EEecC
Confidence            99986

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.69  E-value=2.6e-17  Score=96.98  Aligned_cols=74  Identities=23%  Similarity=0.421  Sum_probs=69.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ++|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+. ++  ..++|+.|.|.+|
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~--~~~~g~~l~v~~a   76 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR--HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT--CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC--CccCCEEEEEEec
Confidence            479999999999999999999999 99999999999889999999999999999999999 65  8999999999986

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A

Probab=99.69  E-value=1.7e-16  Score=108.38  Aligned_cols=87  Identities=24%  Similarity=0.348  Sum_probs=77.7

Q ss_pred             CCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEE
Q psy13181         18 KTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV   96 (137)
Q Consensus        18 ~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l   96 (137)
                      .+......++|||+|||+++++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|.+|+.+++ ..|.|+.|
T Consensus         6 ~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~-~~~~g~~l   84 (196)
T 1l3k_A            6 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARP-HKVDGRVV   84 (196)
T ss_dssp             --CCCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCS-CEETTEEC
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhcCC-CEECCEEe
Confidence            33445567899999999999999999999999 99999999999999999999999999999999999888 99999999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      .|.++.++.
T Consensus        85 ~v~~~~~~~   93 (196)
T 1l3k_A           85 EPKRAVSRE   93 (196)
T ss_dssp             EEEECCC--
T ss_pred             eeecccCcc
Confidence            999987654

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.69  E-value=8.9e-17  Score=101.73  Aligned_cols=81  Identities=21%  Similarity=0.336  Sum_probs=73.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      +....++|||+|||..+++++|+++|++| .|..|.++.+.   .++++|||+|.+.++|.+|+. |++ ..++|+.|.|
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~---~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v   79 (115)
T 3lqv_A            4 PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNTP---ETRGTAYVVYEDIFDAKNAVDHLSG-FNVSNRYLVV   79 (115)
T ss_dssp             CTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECST---TTTTCEEEEESSHHHHHHHHHHHTT-CBSSSCBCEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeCC---CCCcEEEEEECCHHHHHHHHHHcCC-CEECCeEEEE
Confidence            44567899999999999999999999999 99999998764   448999999999999999999 999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.++.
T Consensus        80 ~~a~~~~   86 (115)
T 3lqv_A           80 LYYNANR   86 (115)
T ss_dssp             EECCHHH
T ss_pred             EEecCCh
Confidence            9998654

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A

Probab=99.69  E-value=2.4e-16  Score=97.13  Aligned_cols=78  Identities=18%  Similarity=0.390  Sum_probs=68.7

Q ss_pred             CCCCCCCceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         19 TLPTEPPYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ..+....++|||+|||. .+++++|+++|++| .|..+.+.        +++|||+|.+.++|.+|+. |++ ..+.|+.
T Consensus        16 ~~~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~   86 (97)
T 2xnq_A           16 PRGSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------NAFGFIQFDNPQSVRDAIEXESQ-EMNFGKK   86 (97)
T ss_dssp             ---CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEEC--------SSEEEEEESSHHHHHHHHHHHTT-SEETTEE
T ss_pred             cCCCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--------CCEEEEEECCHHHHHHHHHHcCC-CEECCEE
Confidence            33445678999999998 99999999999999 99998873        5799999999999999999 999 9999999


Q ss_pred             EEEEecCCCC
Q psy13181         96 VRLDIADGKR  105 (137)
Q Consensus        96 l~v~~a~~~~  105 (137)
                      |.|.+++++.
T Consensus        87 l~V~~a~~~~   96 (97)
T 2xnq_A           87 LILEVSSSNA   96 (97)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEecCCCC
Confidence            9999998654

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

Probab=99.69  E-value=7.6e-17  Score=99.11  Aligned_cols=77  Identities=19%  Similarity=0.440  Sum_probs=68.2

Q ss_pred             CCCCceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ..+.++|||+|||. .+++++|+++|++| .|..|.+.        +++|||+|.+.++|.+|+. |++ ..+.|+.|.|
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~--------~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~V   77 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIK--------NAFGFIQFDNPQSVRDAIECESQ-EMNFGKKLIL   77 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEE--------TTEEEEEESCHHHHHHHHHHHTC-SSCBTTTBCE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEe--------CCEEEEEECCHHHHHHHHHHcCC-CeeCCcEEEE
Confidence            34678999999998 99999999999999 99998874        5699999999999999999 999 9999999999


Q ss_pred             EecCCCCCC
Q psy13181         99 DIADGKRND  107 (137)
Q Consensus        99 ~~a~~~~~~  107 (137)
                      .++.++...
T Consensus        78 ~~a~~~~~~   86 (96)
T 2kvi_A           78 EVSSSNARP   86 (96)
T ss_dssp             EEEECCCC-
T ss_pred             EEcCcCCCC
Confidence            999876543

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ...

Probab=99.69  E-value=5.5e-17  Score=99.66  Aligned_cols=80  Identities=20%  Similarity=0.405  Sum_probs=71.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHH----hcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVE----RFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~----~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ..+.++|||+|||..+++++|+    ++|++| .|..|.+..   ++.++++|||+|.+.++|..|+. |++ ..|.|+.
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~---~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~   80 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQG-FPFYDKP   80 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH---HHHHTTCEEEEESSHHHHHHHHHHHTT-CEETTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc---CCCcCcEEEEEeCCHHHHHHHHHHhCC-CEECCcE
Confidence            4567899999999999999999    999999 999988763   46678999999999999999999 999 9999999


Q ss_pred             EEEEecCCCC
Q psy13181         96 VRLDIADGKR  105 (137)
Q Consensus        96 l~v~~a~~~~  105 (137)
                      |.|.++.+++
T Consensus        81 l~v~~a~~~~   90 (97)
T 1nu4_A           81 MRIQYAKTDS   90 (97)
T ss_dssp             CEEEECSSCC
T ss_pred             EEEEEccCCC
Confidence            9999998765

>2ytc_A PRE-mRNA-splicing factor RBM22; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.68  E-value=3.5e-16  Score=93.79  Aligned_cols=76  Identities=17%  Similarity=0.320  Sum_probs=68.6

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h-CCCeeecCeEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K-DGRITVDGLQV   96 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l-~~~~~l~g~~l   96 (137)
                      ......++|||+|||..+++++|+++|++| .|..|.++.+      +++|||+|.+.++|.+|+. | ++ ..+.|+.|
T Consensus         7 ~~~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~~------kg~afV~f~~~~~A~~a~~~l~~~-~~~~g~~l   79 (85)
T 2ytc_A            7 GEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQR------QQCAFIQFATRQAAEVAAEKSFNK-LIVNGRRL   79 (85)
T ss_dssp             CSCSSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEGG------GTEEEEEESSHHHHHHHHHTTTTT-CEETTEEC
T ss_pred             CCCCCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEECC------CCEEEEEECCHHHHHHHHHHhcCC-eeECCCEE
Confidence            334566899999999999999999999999 9999988864      5799999999999999999 8 88 99999999


Q ss_pred             EEEecC
Q psy13181         97 RLDIAD  102 (137)
Q Consensus        97 ~v~~a~  102 (137)
                      .|.+++
T Consensus        80 ~v~~ak   85 (85)
T 2ytc_A           80 NVKWGR   85 (85)
T ss_dssp             CEEECC
T ss_pred             EEEecC
Confidence            999874

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.68  E-value=9.4e-17  Score=109.18  Aligned_cols=80  Identities=23%  Similarity=0.374  Sum_probs=75.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++ ++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|.+
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~-~g~~kG~afV~F~~~~~A~~Ai~~lng-~~l~Gr~l~V~~  163 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR-SGRSLGTADVHFERRADALKAMKQYKG-VPLDGRPMDIQL  163 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT-TSSCSCCEEEEESCHHHHHHHHHHSTT-CBCSSSBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC-CCCEeeEEEEEeCCHHHHHHHHHHhCC-CEECCEEEEEEE
Confidence            346899999999999999999999999 99999999998 88999999999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      +...
T Consensus       164 a~~~  167 (177)
T 2f3j_A          164 VASQ  167 (177)
T ss_dssp             ESSG
T ss_pred             ecCC
Confidence            8764

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.68  E-value=4.8e-16  Score=103.30  Aligned_cols=81  Identities=22%  Similarity=0.424  Sum_probs=76.5

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      .++|||+|||+.+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..+.++.|.|.++.
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~-~~~~g~~l~v~~~~   80 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG-LRLQTKTIKVSYAR   80 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEECC
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCC-CccCCceEEEEecC
Confidence            4789999999999999999999999 99999999999899999999999999999999999 999 99999999999998


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      +...
T Consensus        81 ~~~~   84 (167)
T 1fxl_A           81 PSSA   84 (167)
T ss_dssp             CCCG
T ss_pred             CCcc
Confidence            6543

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

Probab=99.68  E-value=1.3e-16  Score=98.75  Aligned_cols=75  Identities=19%  Similarity=0.373  Sum_probs=68.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..+.+..      +++||||+|.+.++|.+|+. |++ ..|+|+.|+|.+
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~------~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~~   97 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP------EKGCCFIKYDTHEQAAVCIVALAN-FPFQGRNLRTGW   97 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET------TTTEEEEECSSHHHHHHHHHHHTT-CEETTEECCCCB
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec------CCCEEEEEECCHHHHHHHHHHhCC-CeECCeEEEEEe
Confidence            345899999999999999999999999 999998873      46799999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ++++
T Consensus        98 a~~~  101 (101)
T 2la4_A           98 GKER  101 (101)
T ss_dssp             CCCC
T ss_pred             ccCC
Confidence            8764

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.68  E-value=4.1e-17  Score=101.20  Aligned_cols=82  Identities=24%  Similarity=0.459  Sum_probs=75.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      ....++|||+|||..+++++|+++|++| .|..|.++.++ ++.++|+|||+|.+.++|++|+. ++ ..|+|+.|.|..
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~a~~Ai~-~~-~~~~g~~l~v~~   82 (102)
T 2xs2_A            6 KIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR-TGVSKGYGFVSFYNDVDVQKIVE-SQ-INFHGKKLKLGP   82 (102)
T ss_dssp             EEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TSCEEEEEEEEESSCCCHHHHTT-CC-CEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC-CCCccceEEEEECCHHHHHHHHh-CC-CeECCEEEEEEE
Confidence            3456899999999999999999999999 99999999998 89999999999999999999999 88 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus        83 a~~~~~   88 (102)
T 2xs2_A           83 AIRKQN   88 (102)
T ss_dssp             EEECC-
T ss_pred             CCcCcc
Confidence            876543

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

Probab=99.68  E-value=1.4e-16  Score=102.84  Aligned_cols=80  Identities=15%  Similarity=0.302  Sum_probs=70.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHH----hcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVE----RFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~----~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ..+..+|||+|||+.+++++|+    ++|++| .|..|.+..   ++.++|||||+|.+.++|..|+. |++ ..|.|+.
T Consensus        26 ~~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~---~~~~rG~aFV~F~~~~~A~~Ai~~lng-~~l~gr~  101 (127)
T 2a3j_A           26 TEPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL---SDDNSGKAYIVFATQESAQAFVEAFQG-YPFQGNP  101 (127)
T ss_dssp             CSCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC---CCSSCCCEEEEESSHHHHHHHHHHSTT-CCCTTSC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc---CCCcCCEEEEEECCHHHHHHHHHHHCC-CEeCCCE
Confidence            4456899999999999999876    689999 898887743   57789999999999999999999 999 9999999


Q ss_pred             EEEEecCCCC
Q psy13181         96 VRLDIADGKR  105 (137)
Q Consensus        96 l~v~~a~~~~  105 (137)
                      |.|.++.++.
T Consensus       102 l~V~~a~~~~  111 (127)
T 2a3j_A          102 LVITFSETPQ  111 (127)
T ss_dssp             CEEEECCCCC
T ss_pred             EEEEEccCcc
Confidence            9999998765

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

Probab=99.68  E-value=1.2e-16  Score=101.01  Aligned_cols=80  Identities=23%  Similarity=0.287  Sum_probs=68.0

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....+|||+|||+.+++++|+++|++|  .|..+.+..    ..++|||||+|.+.++|++|++ |++ ..|+|+.|+|
T Consensus        25 p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~~----~~~rGfaFV~F~~~e~A~~Ai~~lng-~~l~Gr~i~V   99 (111)
T 2jvr_A           25 PAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVNT----RDFDGTGALEFPSEEILVEALERLNN-IEFRGSVITV   99 (111)
T ss_dssp             CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECSS----CSSSCCEEEEESSHHHHHHHHHHTTT-EEETTEEEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEEc----CCCCCEEEEEECCHHHHHHHHHHcCC-CEECCeEEEE
Confidence            4456899999999999999999999988  477776643    2468899999999999999999 999 9999999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++...+.
T Consensus       100 ~~a~~~p~  107 (111)
T 2jvr_A          100 ERDDNPPP  107 (111)
T ss_dssp             EESCC---
T ss_pred             EECCCCCC
Confidence            99976543

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.67  E-value=4.9e-17  Score=104.50  Aligned_cols=81  Identities=21%  Similarity=0.186  Sum_probs=73.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ce----eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KL----VSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i----~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~   97 (137)
                      ....+|||+|||+++++++|+++|++| .|    ..|.++.++ +++++|+|||+|.+.++|++||..++ ..|+++.|.
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~-~gr~~G~aFV~F~~~~~A~~Al~~~~-~~l~gR~i~   98 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP-DGRPTGDAFVLFACEEYAQNALRKHK-DLLGKRYIE   98 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT-TSCEEEEEEECCSSHHHHHHHHTTTT-EESSSCEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC-CCCEeeEEEEEECCHHHHHHHHHhCC-CeeCCeEEE
Confidence            456899999999999999999999999 64    689998885 79999999999999999999999988 999999999


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      |..+.+++
T Consensus        99 V~~a~~~e  106 (123)
T 2dha_A           99 LFRSTAAE  106 (123)
T ss_dssp             CEEECHHH
T ss_pred             EEECCHHH
Confidence            99886543

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.67  E-value=3.9e-16  Score=104.02  Aligned_cols=82  Identities=21%  Similarity=0.378  Sum_probs=77.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      +.++|||+|||.++++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+. +++ ..+.++.|.|.++
T Consensus         2 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~-~~~~g~~l~v~~~   80 (168)
T 1b7f_A            2 SNTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG-ITVRNKRLKVSYA   80 (168)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEEC
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCC-CEeCCcEEEEEec
Confidence            35799999999999999999999999 99999999998899999999999999999999999 999 9999999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .+...
T Consensus        81 ~~~~~   85 (168)
T 1b7f_A           81 RPGGE   85 (168)
T ss_dssp             CCCSS
T ss_pred             CCCcc
Confidence            87653

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.67  E-value=6.3e-16  Score=106.96  Aligned_cols=83  Identities=18%  Similarity=0.332  Sum_probs=78.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||..+++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|.++
T Consensus       124 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g-~~~~g~~i~V~~a  202 (216)
T 2qfj_A          124 AFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNL-FDLGGQYLRVGKA  202 (216)
T ss_dssp             TSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CBCSSSBCEEEEC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccC-CEeCCcEEEEEEe
Confidence            45799999999999999999999999 99999999998899999999999999999999999 999 9999999999999


Q ss_pred             CCCCCC
Q psy13181        102 DGKRND  107 (137)
Q Consensus       102 ~~~~~~  107 (137)
                      .++...
T Consensus       203 ~~~~~~  208 (216)
T 2qfj_A          203 VTPPMP  208 (216)
T ss_dssp             SSCSST
T ss_pred             cCCCCC
Confidence            877544

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=99.67  E-value=2.4e-16  Score=104.19  Aligned_cols=80  Identities=31%  Similarity=0.480  Sum_probs=72.6

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||+.+++++|+++|++| .|..|.++.+     ++|||||+|.+.++|..|+. |++ ..|.|+.|.
T Consensus        68 ~~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-----~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~  141 (150)
T 2i2y_A           68 DSCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN-----PPGFAFVEFEDPRDAADAVRELDG-RTLCGCRVR  141 (150)
T ss_dssp             SSSTTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS-----SCSEEEEEESSHHHHHHHHHHHSS-SCSSSSCCE
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC-----CCcEEEEEECCHHHHHHHHHHcCC-CEECCeEEE
Confidence            334567899999999999999999999999 9999999865     47899999999999999999 999 999999999


Q ss_pred             EEecCCCC
Q psy13181         98 LDIADGKR  105 (137)
Q Consensus        98 v~~a~~~~  105 (137)
                      |.++.+++
T Consensus       142 v~~a~~~~  149 (150)
T 2i2y_A          142 VELSNGEK  149 (150)
T ss_dssp             EEECCCCC
T ss_pred             EEEcCCCC
Confidence            99998764

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

Probab=99.67  E-value=3e-16  Score=94.53  Aligned_cols=73  Identities=12%  Similarity=0.123  Sum_probs=67.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      .....|+|+||++.++|++|+++|.+| .|..+.+..      ++|||||+|.+.++|.+|++ ||+ ..|.++.|+|.+
T Consensus         5 ~~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~------~kGfaFVey~~~~eA~~Ai~~Ln~-~~l~gr~I~V~~   77 (89)
T 2wbr_A            5 WGSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL------NQGIALCKYTTREEANKAQMALNN-CVLANTTIFAES   77 (89)
T ss_dssp             CCCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET------TTTEEEEEESSHHHHHHHHHHHTT-EEETTEEEEEEC
T ss_pred             CccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC------CCcEEEEEECCHHHHHHHHHHhcC-CEECCcEEEEEE
Confidence            345689999999999999999999999 999998864      47899999999999999999 999 999999999999


Q ss_pred             cC
Q psy13181        101 AD  102 (137)
Q Consensus       101 a~  102 (137)
                      |.
T Consensus        78 A~   79 (89)
T 2wbr_A           78 PS   79 (89)
T ss_dssp             CC
T ss_pred             CC
Confidence            84

>2cqh_A IGF-II mRNA-binding protein 2 isoform A; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.66  E-value=3.5e-16  Score=95.40  Aligned_cols=79  Identities=20%  Similarity=0.410  Sum_probs=67.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-c-eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-K-LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~-i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ....++|||+|||..+++++|+++|++| . +..+.+.       .+++|||+|.+.++|++|+. |++...|.|+.|.|
T Consensus         5 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~-------~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v   77 (93)
T 2cqh_A            5 SSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL-------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEV   77 (93)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE-------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc-------CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEE
Confidence            3456899999999999999999999999 7 5555442       36799999999999999999 99756899999999


Q ss_pred             EecCCCCCC
Q psy13181         99 DIADGKRND  107 (137)
Q Consensus        99 ~~a~~~~~~  107 (137)
                      .++.++...
T Consensus        78 ~~a~~~~~~   86 (93)
T 2cqh_A           78 DYSVSKKLR   86 (93)
T ss_dssp             EECCCCCCC
T ss_pred             EEccCcccc
Confidence            999876543

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

Probab=99.66  E-value=2.3e-16  Score=96.74  Aligned_cols=79  Identities=15%  Similarity=0.240  Sum_probs=70.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEE-EEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSV-RLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i-~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ....++|||+|||+.+++++|+++|++| .|..+ .++.++.++    .|||+|.+.++|.+|+. |++ ..|+|+.|.|
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~----~afV~f~~~~~a~~Ai~~l~g-~~~~g~~l~V   86 (96)
T 2e44_A           12 RQRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNTDSETA----VVNVTYSSKDQARQALDKLNG-FQLENFTLKV   86 (96)
T ss_dssp             CCSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECCSSSSE----EEEEEESSHHHHHHHHHHHTT-CBCSSCBCEE
T ss_pred             CCCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeecCCCCC----EEEEEECCHHHHHHHHHHhCC-CEECCcEEEE
Confidence            3456899999999999999999999999 99999 588776543    39999999999999999 999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.++.
T Consensus        87 ~~a~~~~   93 (96)
T 2e44_A           87 AYIPDEM   93 (96)
T ss_dssp             EECCCCC
T ss_pred             EEcCccc
Confidence            9998773

>1x4f_A Matrin 3; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.66  E-value=9.9e-16  Score=96.76  Aligned_cols=80  Identities=16%  Similarity=0.205  Sum_probs=69.6

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEE
Q psy13181         22 TEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~   97 (137)
                      ..+.++|||+|||++ +++++|+++|++| .|..|.+++.      +++|||+|.+.++|.+|+. |++. ..|.|+.|.
T Consensus        22 ~~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~~------kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~   95 (112)
T 1x4f_A           22 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM------KSQAFIEMETREDAMAMVDHCLKKALWFQGRCVK   95 (112)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT------TTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCE
T ss_pred             CCCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEecC------CCEEEEEECCHHHHHHHHHHhccCCceECCEEEE
Confidence            456789999999998 9999999999999 9999988743      5799999999999999999 8631 679999999


Q ss_pred             EEecCCCCCC
Q psy13181         98 LDIADGKRND  107 (137)
Q Consensus        98 v~~a~~~~~~  107 (137)
                      |.++..+...
T Consensus        96 V~~a~~~~~~  105 (112)
T 1x4f_A           96 VDLSEKYKKL  105 (112)
T ss_dssp             EEEECSCSSS
T ss_pred             EEECcccccc
Confidence            9999876644

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=99.66  E-value=5.9e-16  Score=103.15  Aligned_cols=81  Identities=22%  Similarity=0.406  Sum_probs=74.8

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQ   95 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~   95 (137)
                      .......+|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..+.|  ++
T Consensus        84 ~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~~~  162 (168)
T 1b7f_A           84 GESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNN-VIPEGGSQP  162 (168)
T ss_dssp             SSTTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CCCTTCSSC
T ss_pred             cccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhcC-CEecCCCeE
Confidence            334567899999999999999999999999 99999999998889999999999999999999999 999 99977  99


Q ss_pred             EEEEec
Q psy13181         96 VRLDIA  101 (137)
Q Consensus        96 l~v~~a  101 (137)
                      |.|.+|
T Consensus       163 l~V~~A  168 (168)
T 1b7f_A          163 LSVRLA  168 (168)
T ss_dssp             CEEEEC
T ss_pred             EEEEeC
Confidence            999875

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

Probab=99.66  E-value=1.1e-16  Score=95.42  Aligned_cols=70  Identities=20%  Similarity=0.345  Sum_probs=64.2

Q ss_pred             ceEEEcCCCCCC------CHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe-EE
Q psy13181         26 YTAFVGNLPNGI------TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL-QV   96 (137)
Q Consensus        26 ~~l~v~nlp~~~------~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~-~l   96 (137)
                      ++|||+|||..+      ++++|+++|++| .|..+.++  +.++.++|+|||+|.+.++|.+|+. |++ ..|.|+ .|
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~--~~~g~~~g~afV~f~~~~~A~~Ai~~lng-~~~~g~~~l   78 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYP--EEDGKTKGYIFLEYASPAHAVDAVKNADG-YKLDKQHTF   78 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECC--CBTTBCCCEEEEEESSHHHHHHHHTTSSS-CCCSSSSCC
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEec--CCCCcEeEEEEEEECCHHHHHHHHHHhcC-cccCCceeE
Confidence            689999999999      679999999999 99999877  4578899999999999999999999 999 999998 87


Q ss_pred             EE
Q psy13181         97 RL   98 (137)
Q Consensus        97 ~v   98 (137)
                      +|
T Consensus        79 ~V   80 (81)
T 2krb_A           79 RV   80 (81)
T ss_dssp             CC
T ss_pred             Ee
Confidence            66

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.65  E-value=3.4e-17  Score=109.25  Aligned_cols=82  Identities=18%  Similarity=0.407  Sum_probs=76.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ....+|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+.+++ ..++|++|.|.++
T Consensus        85 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~~~-~~~~g~~i~V~~a  163 (167)
T 2cjk_A           85 DKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLDKDTGQSRGFGFVTYDSADAVDRVCQNKF-IDFKDRKIEIKRA  163 (167)
T ss_dssp             HHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCSSSSSTTSEEEEEEESSHHHHHHHHHCSE-ECSSSSCEEEEEC
T ss_pred             cCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEcCCCCccceEEEEEECCHHHHHHHHhCCC-EEeCCeEEEEeec
Confidence            345799999999999999999999999 99999999998889999999999999999999999999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .++.
T Consensus       164 ~pk~  167 (167)
T 2cjk_A          164 EPRH  167 (167)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8763

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.65  E-value=1.1e-15  Score=104.38  Aligned_cols=83  Identities=25%  Similarity=0.443  Sum_probs=78.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+|||..+++++|+++|++| .|..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|.+
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~l~v~~  190 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG-MQLGDKKLLVQR  190 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTT-CEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            466899999999999999999999999 99999999998889999999999999999999999 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      +.++..
T Consensus       191 a~~~~~  196 (198)
T 2yh0_A          191 ASVGAK  196 (198)
T ss_dssp             SCCCCC
T ss_pred             CCCCCC
Confidence            987654

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=99.65  E-value=1.9e-15  Score=91.33  Aligned_cols=75  Identities=16%  Similarity=0.208  Sum_probs=66.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||+.+++++|+++|++|.|..+.+.      +++++|||+|.+.++|++|+. |++ ..+.|+.|+|.++.
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~~v~~~~i~------~~~g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~l~V~~a~   76 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYVD------RNKRTAFVTLLNGEQAQNAIQMFHQ-YSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSCCCCEEEE------GGGTEEEECCSCHHHHHHHHHHHTT-EEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhCCeEEEEEe------CCCcEEEEEECCHHHHHHHHHHhCC-CeECCcEEEEEEcC
Confidence            4578999999999999999999999866666663      467899999999999999999 999 99999999999987


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      ...
T Consensus        77 ~~~   79 (88)
T 1wg1_A           77 TDA   79 (88)
T ss_dssp             CCC
T ss_pred             CCc
Confidence            654

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

Probab=99.65  E-value=4.9e-15  Score=91.03  Aligned_cols=77  Identities=17%  Similarity=0.251  Sum_probs=68.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+||  .+++++|+++|++| .|..|.+.      ..+++|||+|.+.++|.+|+. |++ ..|.++.|.|.
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~------~~~g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~l~v~   82 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMD------PPRNCAFVTYEKMESADQAVAELNG-TQVESVQLKVN   82 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEE------TTTTEEEEEESSHHHHHHHHHHTTT-EEETTEEEEEE
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEec------CCCCEEEEEECCHHHHHHHHHHhCC-CeECCeEEEEE
Confidence            345689999996  89999999999999 99999884      346799999999999999998 999 99999999999


Q ss_pred             ecCCCCCC
Q psy13181        100 IADGKRND  107 (137)
Q Consensus       100 ~a~~~~~~  107 (137)
                      ++.++...
T Consensus        83 ~a~~~~~~   90 (97)
T 1x5p_A           83 IARKQPML   90 (97)
T ss_dssp             CCSSCCCC
T ss_pred             ECCCCCCC
Confidence            99876543

>3egn_A RNA-binding protein 40; RNA recognition motif (RRM), RNP motif, U11/U12-65K protein, DI-snRNP, U1A protein, U2B protein; 2.50A {Homo sapiens}

Probab=99.64  E-value=1.4e-16  Score=104.54  Aligned_cols=83  Identities=20%  Similarity=0.361  Sum_probs=69.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEE--E---eecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVR--L---VKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~--~---~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      ..+..+|||+|||+.+++++|+.+|++| .|..+.  +   +....++.++|||||+|.+.++|.+|+. |++ ..|.|+
T Consensus        42 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng-~~~~g~  120 (143)
T 3egn_A           42 GEPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANG-YVLFGK  120 (143)
T ss_dssp             CSCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTT-BEETTE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCC-CEeCCc
Confidence            4566899999999999999999999999 765530  0   1112357889999999999999999999 999 999999


Q ss_pred             EEEEEecCCCC
Q psy13181         95 QVRLDIADGKR  105 (137)
Q Consensus        95 ~l~v~~a~~~~  105 (137)
                      .|.|.++.+..
T Consensus       121 ~l~V~~a~~~~  131 (143)
T 3egn_A          121 PMVVQFARSAR  131 (143)
T ss_dssp             ECEEEECCCSC
T ss_pred             EEEEEECCCCC
Confidence            99999997654

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.62  E-value=1.5e-15  Score=91.78  Aligned_cols=78  Identities=24%  Similarity=0.474  Sum_probs=65.6

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||..+++++|+++|++| .|..|.++.+     +++||||+|.+.++|++++.. . +.+.++.|.|.++.
T Consensus         4 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~-----~~g~afV~f~~~~~a~~~~~~-~-~~~~g~~l~v~~a~   76 (88)
T 1wf0_A            4 GSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP-----FRAFAFVTFADDQIAQSLCGE-D-LIIKGISVHISNAE   76 (88)
T ss_dssp             CCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS-----CCSCCEEECSCHHHHHHTTTC-E-EEETTEEEEEECCC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC-----CCCEEEEEECCHHHHHHHhcC-C-ceeCCEEEEEEecC
Confidence            45899999999999999999999999 9999988754     578999999999998764333 3 66799999999998


Q ss_pred             CCCCCC
Q psy13181        103 GKRNDN  108 (137)
Q Consensus       103 ~~~~~~  108 (137)
                      ++....
T Consensus        77 ~~~~~~   82 (88)
T 1wf0_A           77 PKHNSN   82 (88)
T ss_dssp             CCCCCC
T ss_pred             CCCCCC
Confidence            776543

>1fxl_A Paraneoplastic encephalomyelitis antigen HUD; protein-RNA complex, AU-rich element, transcription/RNA complex; 1.80A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1g2e_A 1fnx_H 1d8z_A 1d9a_A 3hi9_A

Probab=99.62  E-value=1.2e-15  Score=101.27  Aligned_cols=80  Identities=20%  Similarity=0.410  Sum_probs=72.9

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE--E
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ--V   96 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~--l   96 (137)
                      ......+|||+|||..+++++|+++|++| .+..+.++.++.++.++++|||+|.+.++|.+|+. |++ ..+.|+.  |
T Consensus        84 ~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~~~i  162 (167)
T 1fxl_A           84 ASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG-QKPSGATEPI  162 (167)
T ss_dssp             GGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CCCTTCSSCC
T ss_pred             ccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEecCCCCCccceEEEEeCCHHHHHHHHHHhcC-CccCCCccce
Confidence            34456899999999999999999999999 99999999998889999999999999999999999 999 9999964  8


Q ss_pred             EEEec
Q psy13181         97 RLDIA  101 (137)
Q Consensus        97 ~v~~a  101 (137)
                      .|.+|
T Consensus       163 ~v~~A  167 (167)
T 1fxl_A          163 TVKFA  167 (167)
T ss_dssp             EEEEC
T ss_pred             EEEeC
Confidence            88775

>3d2w_A TAR DNA-binding protein 43; DP-43 proteinopathy, TDP-43 inclusions, RNA recognition MOTI U, ALS, RRM; HET: DNA; 1.65A {Mus musculus}

Probab=99.61  E-value=2.5e-15  Score=91.18  Aligned_cols=78  Identities=26%  Similarity=0.479  Sum_probs=61.2

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCC-eeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR-ITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~-~~l~g~~l~v   98 (137)
                      +.....+|||+|||+++++++|+++|++| .|.+|.++.+     ++|||||+|.+.++|++   +++. +.+.++.|.|
T Consensus         7 ~~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~-----srGfaFV~F~~~~~A~~---~~~~~~~~~g~~v~v   78 (89)
T 3d2w_A            7 HHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP-----FRAFAFVTFADDKVAQS---LCGEDLIIKGISVHI   78 (89)
T ss_dssp             ----CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS-----CCSEEEEEESCHHHHHH---HTTCEEEETTEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC-----CCCEEEEEECCHHHHHH---HcCCCcccCCEEEEE
Confidence            44567899999999999999999999999 9999988764     57899999999999884   3331 5567999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++.++..
T Consensus        79 ~~a~~k~~   86 (89)
T 3d2w_A           79 SNAEPKHN   86 (89)
T ss_dssp             EECC----
T ss_pred             EEcCCCCc
Confidence            99987653

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

Probab=99.61  E-value=2.9e-15  Score=104.22  Aligned_cols=79  Identities=20%  Similarity=0.328  Sum_probs=73.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||..+++++|+++|++| .|..|.++.+..  .++++|||+|.+.++|.+|+. ||+ ..|+|++|.|.++
T Consensus       102 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~--~~~g~~fV~f~~~~~a~~Ai~~lng-~~~~g~~i~V~~a  178 (213)
T 4f02_A          102 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERAIEKMNG-MLLNDRKVFVGRF  178 (213)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT--EEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEEC
T ss_pred             ccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCC--CCceEEEEEeCCHHHHHHHHHHhCC-CEECCEEEEEEEc
Confidence            45789999999999999999999999 999999998863  478999999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .++.
T Consensus       179 ~~~~  182 (213)
T 4f02_A          179 KSRK  182 (213)
T ss_dssp             CCHH
T ss_pred             CCCc
Confidence            8764

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.60  E-value=7.9e-15  Score=98.50  Aligned_cols=78  Identities=26%  Similarity=0.416  Sum_probs=70.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .....+|||+|||..+++++|+++|++| .|..+     ..++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|.
T Consensus        96 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~-----~~~~~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~i~v~  169 (175)
T 1fje_B           96 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV-----SQDGKSKGIAYIEFKSEADAEKNLEEKQG-AEIDGRSVSLY  169 (175)
T ss_dssp             TGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE-----CSSSSCCSEEEEECSSHHHHHHHHHHHTE-EEETTEEEEEE
T ss_pred             cccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe-----cCCCCCceEEEEEECCHHHHHHHHHHhCC-CEECCeEEEEE
Confidence            4466899999999999999999999999 76554     4567889999999999999999999 999 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      ++.+++
T Consensus       170 ~a~~k~  175 (175)
T 1fje_B          170 YTGEKG  175 (175)
T ss_dssp             ECSSCC
T ss_pred             ecCCCC
Confidence            998764

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.60  E-value=2.9e-15  Score=103.62  Aligned_cols=80  Identities=19%  Similarity=0.311  Sum_probs=72.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||.++++++|+++|++| .|..|.++.++.++.++++|||+|.+.++|.+|+. |++ ..|.++.|.|.++
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~~-~~~~g~~l~v~~~  105 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSWDSVTMKHKGFAFVEYEVPEAAQLALEQMNS-VMLGGRNIKVGRP  105 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECCC-CC-CCCSEEEEEESSHHHHHHHHHHHSS-CCCC-CCCEEECC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEeecCCCCccCceEEEEeCCHHHHHHHHHHccC-CeeCCeeEEEecC
Confidence            34799999999999999999999999 99999999998889999999999999999999999 999 9999999999887


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ...
T Consensus       106 ~~~  108 (216)
T 2qfj_A          106 SNI  108 (216)
T ss_dssp             SCC
T ss_pred             CCc
Confidence            654

>1whx_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.60  E-value=2.1e-15  Score=95.08  Aligned_cols=74  Identities=20%  Similarity=0.167  Sum_probs=67.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|++| .|..|.++.      .+++|||+|.+.++|++|+. ||+ ..|.++.|.|.++
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~------~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~~a   81 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE------GGITAIVEFLEPLEARKAFRHLAY-SKFHHVPLYLEWA   81 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS------SSSCEEEEESCHHHHHHHHHHHTT-CBSSSSBCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC------CCCEEEEEeCCHHHHHHHHHHhCC-CEECCeEEEEEEC
Confidence            45799999999999999999999999 999988764      45699999999999999999 999 9999999999998


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ...
T Consensus        82 ~~~   84 (111)
T 1whx_A           82 PIG   84 (111)
T ss_dssp             ETT
T ss_pred             CCC
Confidence            754

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.59  E-value=2.2e-14  Score=92.15  Aligned_cols=75  Identities=19%  Similarity=0.178  Sum_probs=65.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecE-EEEEEcCHHHHHHHHH-hCCCeeecC--eEEEEE
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGF-CYVEFVDVENLRQALL-KDGRITVDG--LQVRLD   99 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~-~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v~   99 (137)
                      ...|||+||++.+++++|+++|++| .|.+|.++. +     .|+ |||+|.+.++|..|+. |+| ..|.+  +.|+|.
T Consensus        25 vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~-~-----~Gf~aFVef~~~~~A~~A~~~LnG-~~i~g~~~~l~V~   97 (124)
T 2e5i_A           25 VLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK-R-----NGIQAMVEFESVLCAQKAKAALNG-ADIYAGCCTLKIE   97 (124)
T ss_dssp             EEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE-S-----SSEEEEEEESSHHHHHHHHHHHTT-CCCBTTBSEEEEE
T ss_pred             EEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe-C-----CCCEEEEEECCHHHHHHHHHHhCC-CEecCCCeEEEEE
Confidence            3457899999999999999999999 999998864 2     265 9999999999999999 999 99987  689999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      +|+++..
T Consensus        98 ~Ak~~~l  104 (124)
T 2e5i_A           98 YARPTRL  104 (124)
T ss_dssp             CCSCSCC
T ss_pred             EecCCcc
Confidence            9987753

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.59  E-value=4.7e-15  Score=99.26  Aligned_cols=80  Identities=16%  Similarity=0.209  Sum_probs=69.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~   97 (137)
                      .....+|||+||+..+++++|+++|++| .|.+|.+..+.    .+++|||+|.+.++|+.|+. |+| ..|.+  +.|+
T Consensus        43 ps~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~k~----~rgfAFVeF~d~~~A~~Ai~~LnG-~~i~g~g~~L~  117 (164)
T 1sjr_A           43 QSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN----NQFQALLQYADPVSAQHAKLSLDG-QNIYNACCTLR  117 (164)
T ss_dssp             CCCEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEESS----SCEEEEEEESCHHHHHHHHHHSTT-BCSSSSCSCEE
T ss_pred             CCceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEeCC----CCCEEEEEECCHHHHHHHHHHhCC-CEecCCCcEEE
Confidence            3445679999999999999999999999 99999886432    46799999999999999999 999 99965  9999


Q ss_pred             EEecCCCCC
Q psy13181         98 LDIADGKRN  106 (137)
Q Consensus        98 v~~a~~~~~  106 (137)
                      |.+++++..
T Consensus       118 V~~Ak~~~l  126 (164)
T 1sjr_A          118 IDFSKLTSL  126 (164)
T ss_dssp             EEECSSSSC
T ss_pred             EEEecCCcc
Confidence            999998753

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

Probab=99.59  E-value=5.4e-15  Score=98.06  Aligned_cols=79  Identities=20%  Similarity=0.418  Sum_probs=72.4

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ++|||+|||.++++++|+++|++| .|..|.++.++. +.++++|||+|.+.++|.+|+. +++ ..+.++.|.|.++.+
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~-~~~~g~afV~f~~~~~a~~A~~~l~~-~~~~g~~i~v~~~~~   78 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKN-NKNVNYAFVEYHQSHDANIALQTLNG-KQIENNIVKINWAFQ   78 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC--CCEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEECCC
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCC-CCCCCEEEEEeCCHHHHHHHHHHcCC-CccCCCeeEEEEcCC
Confidence            589999999999999999999999 999999998875 6789999999999999999998 999 999999999999876


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      ...
T Consensus        79 ~~~   81 (166)
T 3md3_A           79 SQQ   81 (166)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.59  E-value=6.1e-15  Score=93.28  Aligned_cols=75  Identities=21%  Similarity=0.267  Sum_probs=62.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCC---CCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKET---DRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t---~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ...++|||+|||+.+++++|+++|++| .|. +.++.++.+   ++++|||||+|.+.++|++||. |+   .++|+.+.
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~aFV~f~~~~~a~~Ai~~~~---~~~G~~~~   81 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYAFLLFQEESSVQALIDACL---EEDGKLYL   81 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEEEECCSSHHHHHHHHHHSE---EETTEEEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEEEEEECCHHHHHHHHHhhh---hcCCcEEE
Confidence            456899999999999999999999999 887 888887776   6889999999999999999998 73   24555555


Q ss_pred             EEec
Q psy13181         98 LDIA  101 (137)
Q Consensus        98 v~~a  101 (137)
                      +..+
T Consensus        82 ~~~~   85 (114)
T 2dnl_A           82 CVSS   85 (114)
T ss_dssp             EECC
T ss_pred             eccC
Confidence            5443

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.58  E-value=1.9e-14  Score=93.03  Aligned_cols=78  Identities=18%  Similarity=0.284  Sum_probs=68.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecE-EEEEEcCHHHHHHHHH-hCCCeeecC--eEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGF-CYVEFVDVENLRQALL-KDGRITVDG--LQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~-~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~   97 (137)
                      ...-.|||+||+..+++++|+++|++| .|.+|.++.+.     +++ |||+|.+.++|.+|+. |+| ..|.+  ..|+
T Consensus        26 s~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~~~-----~gfqAFVef~~~~~A~~Ai~~LnG-~~i~g~~~~Lr   99 (130)
T 3zzy_A           26 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN-----NQFQALLQYADPVSAQHAKLSLDG-QNIYNACCTLR   99 (130)
T ss_dssp             CSEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEEET-----TEEEEEEEESCHHHHHHHHHHHTT-CEEETTEEEEE
T ss_pred             CceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEcCC-----CCcEEEEEECCHHHHHHHHHHcCC-CeecCCCcEEE
Confidence            445678899999999999999999999 99999887542     456 9999999999999999 999 99988  8999


Q ss_pred             EEecCCCCC
Q psy13181         98 LDIADGKRN  106 (137)
Q Consensus        98 v~~a~~~~~  106 (137)
                      |.+++++.-
T Consensus       100 I~~ak~~~l  108 (130)
T 3zzy_A          100 IDFSKLTSL  108 (130)
T ss_dssp             EEECSCSSC
T ss_pred             EEecCCCce
Confidence            999987753

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.58  E-value=5.9e-15  Score=94.69  Aligned_cols=76  Identities=9%  Similarity=0.188  Sum_probs=67.6

Q ss_pred             ceEEEcCC----CCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcC----HHH----HHHHHH---hCCCe
Q psy13181         26 YTAFVGNL----PNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVD----VEN----LRQALL---KDGRI   89 (137)
Q Consensus        26 ~~l~v~nl----p~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~----~~~----a~~al~---l~~~~   89 (137)
                      .+|||+||    |+.+++.+|+.+|++| .|..+.++.|+.|+.++||+||+|.+    .+.    |.+|+.   +++ .
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng-~   81 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSG-C   81 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTC-E
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcC-C
Confidence            68999999    9999999999999999 99999999999999999999999995    322    666655   689 9


Q ss_pred             eecCeEEEEEecC
Q psy13181         90 TVDGLQVRLDIAD  102 (137)
Q Consensus        90 ~l~g~~l~v~~a~  102 (137)
                      .|+|+.|+|.+..
T Consensus        82 ~I~Gr~irV~ln~   94 (136)
T 2j8a_A           82 FIMGFKFEVILNK   94 (136)
T ss_dssp             EETTEEEEEEECC
T ss_pred             eecCcEEEEEECc
Confidence            9999999999865

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.56  E-value=2e-14  Score=99.75  Aligned_cols=76  Identities=17%  Similarity=0.165  Sum_probs=69.1

Q ss_pred             CCceEEEcCCC-CCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLP-NGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp-~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +..+|||+||| ..+++++|+++|++| .|.+|.++.++     +|+|||+|.+.++|++|+. |++ ..|.|+.|.|.+
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~~-----~g~afV~f~~~~~A~~Ai~~lng-~~~~g~~l~v~~   76 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKSK-----PGAAMVEMADGYAVDRAITHLNN-NFMFGQKMNVCV   76 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTTS-----TTCEEEEESSHHHHHHHHHHHTT-CEETTEECEEEE
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecCC-----CCEEEEEECCHHHHHHHHHHhCC-CEECCceEEEEE
Confidence            35799999999 899999999999999 99999997653     6799999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      ++.+.
T Consensus        77 s~~~~   81 (205)
T 3tyt_A           77 SKQPA   81 (205)
T ss_dssp             CSCSC
T ss_pred             ccCCc
Confidence            87543

>2cq2_A Hypothetical protein LOC91801; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.56  E-value=5.8e-15  Score=93.40  Aligned_cols=77  Identities=14%  Similarity=0.316  Sum_probs=67.3

Q ss_pred             CCCCceEEE--cCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee-----c
Q psy13181         22 TEPPYTAFV--GNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV-----D   92 (137)
Q Consensus        22 ~~~~~~l~v--~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l-----~   92 (137)
                      ..+..+|||  +||+..+++++|+++|++| .|..|.++.+      ++||||+|.+.++|++|+. ||+ ..|     .
T Consensus        22 ~~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~~------rgfaFV~f~~~~~A~~Ai~~lnG-~~~~~~lg~   94 (114)
T 2cq2_A           22 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN------KPYSFARYRTTEESKRAYVTLNG-KEVVDDLGQ   94 (114)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT------CSCEEEEESSHHHHHHHHHHTTT-CEEECTTSC
T ss_pred             CCCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeCC------CCEEEEEECCHHHHHHHHHHhCC-CEEccccCC
Confidence            445688999  7799999999999999999 9988877532      5799999999999999999 999 887     6


Q ss_pred             CeEEEEEecCCCC
Q psy13181         93 GLQVRLDIADGKR  105 (137)
Q Consensus        93 g~~l~v~~a~~~~  105 (137)
                      +.+|.|.++...+
T Consensus        95 g~~l~v~~a~~~p  107 (114)
T 2cq2_A           95 KITLYLNFVEKVQ  107 (114)
T ss_dssp             EEECEEEEESCCC
T ss_pred             CcEEEEEecccCc
Confidence            8999999987544

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.56  E-value=1.5e-14  Score=96.78  Aligned_cols=81  Identities=20%  Similarity=0.425  Sum_probs=71.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCC--CeecEEEEEEcCHHHHHHHHH-hCCCeeec---CeEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETD--RFKGFCYVEFVDVENLRQALL-KDGRITVD---GLQV   96 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~--~~~g~~fv~f~~~~~a~~al~-l~~~~~l~---g~~l   96 (137)
                      ..++|||+|||+++++++|+++|++| .|..|.++.++.++  .++++|||+|.+.++|.+|+. |++ ..+.   ++.+
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~-~~~~~~~~~~~   80 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHN-MKVLPGMHHPI   80 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTT-TCCCTTCSSCC
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcC-cEEccCCccce
Confidence            45799999999999999999999999 99999999998876  899999999999999999999 998 6665   5778


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      .+..+.+..
T Consensus        81 ~~~~~~~~~   89 (175)
T 3nmr_A           81 QMKPADSEK   89 (175)
T ss_dssp             EEEECGGGC
T ss_pred             EEccccccc
Confidence            887776543

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.56  E-value=2.9e-14  Score=102.63  Aligned_cols=80  Identities=20%  Similarity=0.410  Sum_probs=72.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHH----hcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVE----RFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~----~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ..+.++|||+|||..+++++|+    ++|++| .|..|.+++   ++++++||||+|.+.++|.+|+. |++ ..|.|+.
T Consensus         6 ~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~---~~~~~g~afV~f~~~~~a~~A~~~l~g-~~~~g~~   81 (282)
T 3pgw_A            6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQG-FPFYDKP   81 (282)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC---CCCcceEEEEEECCHHHHHHHHHHhcC-CeeCCcE
Confidence            4567899999999999999966    899999 999998875   57789999999999999999998 999 9999999


Q ss_pred             EEEEecCCCC
Q psy13181         96 VRLDIADGKR  105 (137)
Q Consensus        96 l~v~~a~~~~  105 (137)
                      |+|.++..+.
T Consensus        82 l~v~~a~~~~   91 (282)
T 3pgw_A           82 MRIQYAKTDS   91 (282)
T ss_pred             EEEEEeccCc
Confidence            9999997654

>2voo_A Lupus LA protein; RNA-binding protein, RNA recognition motif, systemic lupus erythematosus, phosphoprotein, RNA maturation; 1.8A {Homo sapiens} SCOP: a.4.5.46 d.58.7.1 PDB: 2von_A 2vod_A 2vop_A 1zh5_A 1yty_A 1s7a_A

Probab=99.56  E-value=3.9e-14  Score=97.41  Aligned_cols=77  Identities=14%  Similarity=0.371  Sum_probs=70.8

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||..+++++|+++|++| .|..|.++++.. +.++|+|||+|.+.++|.+|+...+ ..++|+.|.|.++..
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~-~~~kG~aFVeF~~~e~A~~A~~~~~-~~~~Gr~l~V~~~~~  186 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFVVFDSIESAKKFVETPG-QKYKETDLLILFKDD  186 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT-CCEEEEEEEEESSHHHHHHHHHCTT-CEETTEECEEEETTT
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC-CCcccEEEEEECCHHHHHHHHHhCC-CeECCEEEEEEEhHH
Confidence            4789999999999999999999999 999999998864 8899999999999999999999556 789999999998764

>2cjk_A Nuclear polyadenylated RNA-binding protein 4; HRP1, RNA-binding, RNA processing, mRNA processing, nonsense-mediated mRNA decay, cleavage; NMR {Saccharomyces cerevisiae} PDB: 2km8_C

Probab=99.55  E-value=1.1e-14  Score=96.99  Aligned_cols=79  Identities=19%  Similarity=0.383  Sum_probs=72.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||.++++++|+++|++| .|..|.+++++.++.++|+|||+|.+.++|.+|+.. + ..++|+.|.|.++.
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~-~-~~~~g~~i~v~~~~   79 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKDPATGRSRGFGFLSFEKPSSVDEVVKT-Q-HILDGKVIDPKRAI   79 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCCTTTSSCCSCEEEEESSTHHHHHHHHS-C-CEETTEECCCEECC
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEECCCCCCccceEEEEEccHHHHHHHHhc-c-cccCCeEccccccc
Confidence            35799999999999999999999999 999999999998999999999999999999999983 4 68899999998876


Q ss_pred             CC
Q psy13181        103 GK  104 (137)
Q Consensus       103 ~~  104 (137)
                      ++
T Consensus        80 ~~   81 (167)
T 2cjk_A           80 PR   81 (167)
T ss_dssp             CH
T ss_pred             ch
Confidence            54

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A

Probab=99.55  E-value=1.2e-14  Score=87.36  Aligned_cols=71  Identities=32%  Similarity=0.606  Sum_probs=62.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC------------ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCee
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ------------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRIT   90 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~------------~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~   90 (137)
                      ...++|||+|||..+++++|+++|++|            .+..+.+..+      +++|||+|.+.++|.+|+.|++ ..
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~~------kg~afV~f~~~~~a~~A~~l~g-~~   76 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQD------KNFAFLEFRSVDETTQAMAFDG-II   76 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECSS------SSEEEEEESSHHHHHHHGGGTT-CE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecCC------CcEEEEEcCCHHHHHHHHhcCC-CE
Confidence            456899999999999999999999887            4677776543      6799999999999999999999 99


Q ss_pred             ecCeEEEEEe
Q psy13181         91 VDGLQVRLDI  100 (137)
Q Consensus        91 l~g~~l~v~~  100 (137)
                      |.|+.|+|+.
T Consensus        77 ~~g~~l~V~r   86 (87)
T 2hzc_A           77 FQGQSLKIRR   86 (87)
T ss_dssp             ETTEECEEEC
T ss_pred             ECCeEEEEeC
Confidence            9999999873

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

Probab=99.54  E-value=2.6e-14  Score=86.97  Aligned_cols=72  Identities=19%  Similarity=0.234  Sum_probs=62.7

Q ss_pred             Cce-EEEcCCCCCCCHHH----HHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         25 PYT-AFVGNLPNGITQGD----VERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        25 ~~~-l~v~nlp~~~~e~~----l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      ..+ |||+|||+.+++++    |+++|++|  .|.+|       ++   |+|||+|.+.++|.+|++ |++ ..|.|++|
T Consensus         8 ~~T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V-------tg---G~AfV~F~~~esA~~A~~~l~G-~~l~gr~i   76 (96)
T 2diu_A            8 CHTLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI-------TG---CSAILRFINQDSAERAQKRMEN-EDVFGNRI   76 (96)
T ss_dssp             SSEEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC-------CT---TCEEEEESSHHHHHHHHHHHTT-CCSSSSCC
T ss_pred             cceEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE-------ec---CEEEEEECCHHHHHHHHHHhcC-CccCCceE
Confidence            445 99999999999988    55789998  57666       33   899999999999999999 999 99999999


Q ss_pred             EEEecCCCCCC
Q psy13181         97 RLDIADGKRND  107 (137)
Q Consensus        97 ~v~~a~~~~~~  107 (137)
                      +|.+|+.++.-
T Consensus        77 ~v~~A~~~sd~   87 (96)
T 2diu_A           77 IVSFTPKNREL   87 (96)
T ss_dssp             EEESSCCSCCC
T ss_pred             EEEecCCCcce
Confidence            99999987653

>3nmr_A Cugbp ELAV-like family member 1; RRM, PRE-mRNA splicing, RNA binding protein-RNA complex; 1.85A {Homo sapiens} PDB: 3nna_A 3nnc_A 2dhs_A 3nnh_A

Probab=99.54  E-value=2.6e-14  Score=95.62  Aligned_cols=78  Identities=15%  Similarity=0.270  Sum_probs=70.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec---CeEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD---GLQVR   97 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~---g~~l~   97 (137)
                      ....+|||+|||..+++++|+++|++| .|..+.++.++ ++.++++|||+|.+.++|.+|+. |++ ..+.   +++|.
T Consensus        93 ~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~~g~~~~l~  170 (175)
T 3nmr_A           93 VEDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGP-DGLSRGCAFVTFTTRAMAQTAIKAMHQ-AQTMEGCSSPMV  170 (175)
T ss_dssp             GGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECT-TSCEEEEEEEEESSHHHHHHHHHHHTT-SCCCTTCSSCCE
T ss_pred             CCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECC-CCCEEEEEEEEECCHHHHHHHHHHhcC-CcccCCCCCCeE
Confidence            356799999999999999999999999 99999999886 48899999999999999999999 999 6665   39999


Q ss_pred             EEecC
Q psy13181         98 LDIAD  102 (137)
Q Consensus        98 v~~a~  102 (137)
                      |.+|.
T Consensus       171 V~~ad  175 (175)
T 3nmr_A          171 VKFAD  175 (175)
T ss_dssp             EEECC
T ss_pred             EEecC
Confidence            99874

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.54  E-value=8.2e-14  Score=100.34  Aligned_cols=83  Identities=19%  Similarity=0.287  Sum_probs=76.4

Q ss_pred             CCCCceEEEcCCCCCC-CHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGI-TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~-~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .....+|||+|||..+ ++++|+++|+.| .|..+.++.+. ++.++++|||+|.+.++|.+|+. |++ ..|+|+.|.|
T Consensus       181 ~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v~i~~~~-~g~~~g~afV~f~~~~~A~~A~~~l~g-~~~~g~~l~v  258 (284)
T 3smz_A          181 LLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFCQLACGQ-DGQLKGFAVLEYETAEMAEEAQQQADG-LSLGGSHLRV  258 (284)
T ss_dssp             TTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEEEEEECS-SCCEEEEEEEECSSHHHHHHHHHHHTT-CEETTEECEE
T ss_pred             cCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEEEEEECC-CCCcccEEEEEeCCHHHHHHHHHHhCC-CccCCeEEEE
Confidence            3466899999999995 999999999999 99999998887 68999999999999999999999 999 9999999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .++.++..
T Consensus       259 ~~a~~~~~  266 (284)
T 3smz_A          259 SFCAPGPP  266 (284)
T ss_dssp             EECCSSSC
T ss_pred             EEecCCCc
Confidence            99987764

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.53  E-value=2.9e-14  Score=103.05  Aligned_cols=83  Identities=12%  Similarity=0.182  Sum_probs=75.2

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCC-CCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKE-TDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~-t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v   98 (137)
                      .....+|||+|||.. +++++|+++|++| .|..|.++.+.. |+.++++|||+|.+.++|.+|+.|++ ..|.|+.|.|
T Consensus       207 ~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~~l~g-~~~~g~~i~V  285 (292)
T 2ghp_A          207 TLEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNR-SLLGNREISV  285 (292)
T ss_dssp             CCTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTT-EEETTEEEEE
T ss_pred             CCCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHHHhcC-CEECCcEEEE
Confidence            446689999999999 9999999999999 999999998876 58899999999999999999999999 9999999999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.+++
T Consensus       286 ~~a~~k~  292 (292)
T 2ghp_A          286 SLADKKP  292 (292)
T ss_dssp             EECCCCC
T ss_pred             EEecCCC
Confidence            9998764

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.53  E-value=7.4e-14  Score=100.56  Aligned_cols=81  Identities=21%  Similarity=0.258  Sum_probs=76.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||..+++++|+++|++| .|..+.++.++.++.++|+|||+|.+.++|.+|+. |++ ..++|+.|.|.++
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~~-~~~~g~~i~v~~a  172 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLG-KPLGPRTLYVHWT  172 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEEC
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCccceEEEEEECCHHHHHHHHHHhCC-CEeCCcEEEEEEC
Confidence            45799999999999999999999999 99999999999899999999999999999999998 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .++.
T Consensus       173 ~~~~  176 (284)
T 3smz_A          173 DAGQ  176 (284)
T ss_dssp             CGGG
T ss_pred             CCCC
Confidence            8654

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.51  E-value=6.1e-15  Score=99.04  Aligned_cols=83  Identities=27%  Similarity=0.440  Sum_probs=70.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      .....++|||+|||..+++++|+++|.++ .+.. .++.+..++.++++|||+|.+.++|.+|++|++ ..|.|+.|.|.
T Consensus         9 ~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~-~~~~~~~~~~~~g~afV~f~~~~~a~~A~~l~g-~~~~g~~l~v~   86 (175)
T 1fje_B            9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKND-LAVVDVRTGTNRKFGYVDFESAEDLEKALELTG-LKVFGNEIKLE   86 (175)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHT-CCCCEEEEETTTTEEEEEESSHHHHHHHHHGGG-EEETTEEEEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcce-EEEEECCCCccccEEEEEECCHHHHHHHHhcCC-CEeCCeEEEEe
Confidence            34567899999999999999999999988 5444 234444567789999999999999999999999 99999999999


Q ss_pred             ecCCCC
Q psy13181        100 IADGKR  105 (137)
Q Consensus       100 ~a~~~~  105 (137)
                      ++.++.
T Consensus        87 ~~~~~~   92 (175)
T 1fje_B           87 KPKGRD   92 (175)
T ss_dssp             CCCCSS
T ss_pred             cCCCcc
Confidence            998654

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.51  E-value=3e-14  Score=100.04  Aligned_cols=77  Identities=18%  Similarity=0.258  Sum_probs=70.8

Q ss_pred             CCCCceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         22 TEPPYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      ..+.++|||+|||. .+++++|+++|++| .|..|.++.++     +++|||+|.+.++|.+|++ |++ ..|.|+.|.|
T Consensus        31 ~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~-----~g~afV~F~~~~~A~~Ai~~l~g-~~~~g~~l~v  104 (229)
T 2adc_A           31 GAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNG-HKLHGKPIRI  104 (229)
T ss_dssp             CCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-----SCCEEEEESCHHHHHHHHHHHTT-CBCSSSBCEE
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC-----CCEEEEEECCHHHHHHHHHHhCC-CeECCeEEEE
Confidence            45668999999999 99999999999999 99999998765     5699999999999999999 999 9999999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .++.++
T Consensus       105 ~~a~~~  110 (229)
T 2adc_A          105 TLSKHQ  110 (229)
T ss_dssp             ECCSCC
T ss_pred             EEecCc
Confidence            999865

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

Probab=99.50  E-value=2.8e-13  Score=84.60  Aligned_cols=80  Identities=15%  Similarity=0.104  Sum_probs=69.9

Q ss_pred             CCCceEEEcCCCC-----CCCHHHHHhcCcCC-ceeEEEEeecCCC-CCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe
Q psy13181         23 EPPYTAFVGNLPN-----GITQGDVERFFPEQ-KLVSVRLVKDKET-DRFKGFCYVEFVDVENLRQALL-KDGRITVDGL   94 (137)
Q Consensus        23 ~~~~~l~v~nlp~-----~~~e~~l~~~f~~~-~i~~i~~~~~~~t-~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~   94 (137)
                      .++++|+|.||..     +-++++|+++|++| .|..|.++.++.+ +.++|++||+|.+.++|.+|+. ||| ..++|+
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG-~~~~Gr   84 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNG-RYFGGR   84 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTT-CEETTE
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCC-CEECCc
Confidence            4567999999962     23689999999999 9999999988653 5789999999999999999999 999 999999


Q ss_pred             EEEEEecCC
Q psy13181         95 QVRLDIADG  103 (137)
Q Consensus        95 ~l~v~~a~~  103 (137)
                      .|.|.++.+
T Consensus        85 ~i~v~~a~~   93 (105)
T 2pe8_A           85 VVKACFYNL   93 (105)
T ss_dssp             ECEEEECCH
T ss_pred             EEEEEEcCH
Confidence            999999874

>3pgw_A U1-A; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 1fht_A 2u1a_A 2aym_A 2b0g_A

Probab=99.48  E-value=3.6e-13  Score=96.87  Aligned_cols=74  Identities=22%  Similarity=0.334  Sum_probs=67.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeEEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQVRLD   99 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~l~v~   99 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++     +++|||+|.+.++|.+|+. |++ ..|. |+.|+|.
T Consensus       205 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~~~-----~g~afV~f~~~~~A~~A~~~l~g-~~~~~g~~l~v~  278 (282)
T 3pgw_A          205 PPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVPGR-----HDIAFVEFDNEVQAGAARDALQG-FKITQNNAMKIS  278 (282)
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEecCC-----CcEEEEEeCCHHHHHHHHHHcCC-cEeCCCCEEEEE
Confidence            356889999999999999999999999 99999988654     4799999999999999999 999 9998 9999999


Q ss_pred             ecC
Q psy13181        100 IAD  102 (137)
Q Consensus       100 ~a~  102 (137)
                      +++
T Consensus       279 ~ak  281 (282)
T 3pgw_A          279 FAK  281 (282)
T ss_pred             Eec
Confidence            986

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.47  E-value=1.1e-12  Score=82.60  Aligned_cols=81  Identities=19%  Similarity=0.211  Sum_probs=67.8

Q ss_pred             CCCCceEEEcCCCCCCC-----------HHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC
Q psy13181         22 TEPPYTAFVGNLPNGIT-----------QGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR   88 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~-----------e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~   88 (137)
                      ..+.++|+|.||.....           +++|+++|++| .|..|.+ .++.   ++|+|||+|.+.++|.+|+. |++ 
T Consensus        12 ~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i-~~~~---~~G~afV~f~~~~~A~~Ai~~lng-   86 (112)
T 2dit_A           12 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLL-FDRH---PDGVASVSFRDPEEADYCIQTLDG-   86 (112)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEE-ETTC---TTCEEEEECSCHHHHHHHHHHSTT-
T ss_pred             CCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEE-ecCC---CCEEEEEEECCHHHHHHHHHHcCC-
Confidence            34678999999944332           57999999999 9999955 5542   68999999999999999999 999 


Q ss_pred             eeecCeEEEEEecCCCCCC
Q psy13181         89 ITVDGLQVRLDIADGKRND  107 (137)
Q Consensus        89 ~~l~g~~l~v~~a~~~~~~  107 (137)
                      ..|+++.|.|.++.++...
T Consensus        87 ~~~~gr~l~v~~a~~~~~~  105 (112)
T 2dit_A           87 RWFGGRQITAQAWDGTTDY  105 (112)
T ss_dssp             CEETTEECEEEECCSCCCS
T ss_pred             CEECCcEEEEEEeCCCCCc
Confidence            9999999999999876543

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.47  E-value=1e-13  Score=98.12  Aligned_cols=78  Identities=18%  Similarity=0.279  Sum_probs=67.8

Q ss_pred             CCCCceEEEcCCCCCC---------CHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCee
Q psy13181         22 TEPPYTAFVGNLPNGI---------TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRIT   90 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~---------~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~   90 (137)
                      ....++|||+||+..+         +|++|+.+|++| .|..|.++.+      ++||||+|.+.++|+.|++ |++ ..
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~~------kG~AFV~F~~~~~Ae~A~~am~g-~~  203 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVES------KNCGFVKFKYQANAEFAKEAMSN-QT  203 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEGG------GTEEEEEESSHHHHHHHHHHHTT-CC
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEECC------CCEEEEEeCCHHHHHHHHHHhCC-CE
Confidence            4567899999999998         799999999999 9999998853      6799999999999999999 999 88


Q ss_pred             e------------cCeEEEEEecCCCCC
Q psy13181         91 V------------DGLQVRLDIADGKRN  106 (137)
Q Consensus        91 l------------~g~~l~v~~a~~~~~  106 (137)
                      |            .|+.|.|.+|..++.
T Consensus       204 l~~~~~~e~~~~~~gr~L~V~wA~~~pn  231 (240)
T 3u1l_A          204 LLLPSDKEWDDRREGTGLLVKWANEDPD  231 (240)
T ss_dssp             CCCTTSTTGGGGGGSCCCEEEECC----
T ss_pred             EeccccccccccCCCCEEEEEEccCCCC
Confidence            8            899999999987654

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.44  E-value=1e-13  Score=94.88  Aligned_cols=75  Identities=19%  Similarity=0.278  Sum_probs=69.0

Q ss_pred             CceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         25 PYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        25 ~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      .++|||+|||+ .+++++|+++|++| .|..|.++.++     +++|||+|.+.++|.+|+. |++ ..+.|+.|.|.++
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~-----~g~afV~f~~~~~a~~A~~~l~~-~~~~g~~l~v~~a   76 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNG-HKLHGKPIRITLS   76 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC-----SSCCEEECTTTHHHHHHHHHHTT-CCCSSCCCEEEEC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC-----CCEEEEEECCHHHHHHHHHHhCC-CeecCeEEEEEEe
Confidence            47999999999 99999999999999 99999988764     5699999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      ..+.
T Consensus        77 ~~~~   80 (198)
T 1qm9_A           77 KHQN   80 (198)
T ss_dssp             CCCS
T ss_pred             cCCC
Confidence            8653

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.44  E-value=7.5e-13  Score=94.60  Aligned_cols=79  Identities=25%  Similarity=0.383  Sum_probs=70.0

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .......++|||+|||.++++++|+++|++| .|..|.+.++      +++|||+|.+.++|..|+. +++ ..|.++.|
T Consensus        16 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~------kg~afV~f~~~~~A~~A~~~l~g-~~i~g~~l   88 (261)
T 3sde_A           16 EKTYTQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINRD------RGFGFIRLESRTLAEIAKAELDG-TILKSRPL   88 (261)
T ss_dssp             CCSSCGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEETT------TTEEEEECSSHHHHHHHHHHHTT-CEETTEEC
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeCC------CcEEEEEECCHHHHHHHHHHcCC-cEECCcee
Confidence            3334566899999999999999999999999 9999988643      5799999999999999999 999 99999999


Q ss_pred             EEEecCCC
Q psy13181         97 RLDIADGK  104 (137)
Q Consensus        97 ~v~~a~~~  104 (137)
                      .|.++.+.
T Consensus        89 ~v~~a~~~   96 (261)
T 3sde_A           89 RIRFATHG   96 (261)
T ss_dssp             EEEECCCS
T ss_pred             EeeecccC
Confidence            99998753

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A

Probab=99.41  E-value=6.9e-13  Score=95.81  Aligned_cols=79  Identities=19%  Similarity=0.255  Sum_probs=69.6

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      ....++|||+|||..+++++|+++|+.| .|..|.++.++.+  ++++|||+|.+.++|.+|+.+++ ..|.++.|.|.+
T Consensus        38 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~--~~g~afV~f~~~~~A~~A~~~~~-~~~~g~~i~v~~  114 (292)
T 2ghp_A           38 NRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKK--NFRFARIEFARYDGALAAITKTH-KVVGQNEIIVSH  114 (292)
T ss_dssp             ----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTS--SSEEEEEEESSHHHHHHHHTTTT-CEETTEECEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCC--CcEEEEEEECCHHHHHHHHHhCC-cEeCCcEEEEEE
Confidence            3456899999999999999999999999 9999999988754  47899999999999999999999 999999999998


Q ss_pred             cCC
Q psy13181        101 ADG  103 (137)
Q Consensus       101 a~~  103 (137)
                      +..
T Consensus       115 ~~~  117 (292)
T 2ghp_A          115 LTE  117 (292)
T ss_dssp             CCS
T ss_pred             CCC
Confidence            754

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.41  E-value=6.5e-14  Score=95.56  Aligned_cols=75  Identities=29%  Similarity=0.559  Sum_probs=63.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-c-----------eeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeee
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-K-----------LVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITV   91 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~-----------i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l   91 (137)
                      ..++|||+|||.++++++|+++|++| .           +..+.+      +.++++|||+|.+.++|.+|+.|++ ..|
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~------~~~~g~afV~F~~~~~A~~Al~l~g-~~~   75 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQI------NQDKNFAFLEFRSVDETTQAMAFDG-IIF   75 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEE------ETTTTEEEEEESCSHHHHHHGGGTT-EEE
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEe------cCCCCEEEEEeCCHHHHHHHHHhcC-CEE
Confidence            45799999999999999999999987 3           233333      3457899999999999999999999 999


Q ss_pred             cCeEEEEEecCCCC
Q psy13181         92 DGLQVRLDIADGKR  105 (137)
Q Consensus        92 ~g~~l~v~~a~~~~  105 (137)
                      .|+.|.|.++....
T Consensus        76 ~g~~i~v~~~~~~~   89 (198)
T 2yh0_A           76 QGQSLKIRRPHDYQ   89 (198)
T ss_dssp             TTEEEEEECCCCCC
T ss_pred             cCceEEEeCCCCCC
Confidence            99999999987654

>3sde_A Paraspeckle component 1; RRM, anti parallel right handed coiled-coil, NOPS, DBHS, RNA protein, RNA binding; 1.90A {Homo sapiens} PDB: 3sde_B

Probab=99.40  E-value=1.4e-12  Score=93.24  Aligned_cols=81  Identities=20%  Similarity=0.143  Sum_probs=71.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec---CeEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD---GLQVRL   98 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~---g~~l~v   98 (137)
                      ...+|||+|||..+++++|+++|+.| .|..|.++.+ .++.++|+|||+|.+.++|.+|+. |++...+.   +++|.|
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~-~~g~~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v  173 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVD-DRGRATGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIV  173 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEE-TTSCEEEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEE
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeC-CCCCcCcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEE
Confidence            35799999999999999999999999 9999999999 478999999999999999999999 84415555   899999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++.+..
T Consensus       174 ~~~~~~~  180 (261)
T 3sde_A          174 EPMEQFD  180 (261)
T ss_dssp             EECCCEE
T ss_pred             eeccccC
Confidence            9998654

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A

Probab=99.39  E-value=3.9e-13  Score=93.21  Aligned_cols=76  Identities=14%  Similarity=0.122  Sum_probs=65.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ce--eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCe----
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KL--VSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGL----   94 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i--~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~----   94 (137)
                      .+.++|||+|||+.+++++|+++|++| .|  ..+.++.++  +..+++|||+|.+.++|.+||. ||+ ..|.+.    
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~--~~~~g~gfV~f~~~~~A~~Ai~~lng-~~~~g~~~~~  197 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGK--SERSSSGLLEWDSKSDALETLGFLNH-YQMKNPNGPY  197 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCC--SSSSEEEEEECSSHHHHHHHHHHHTT-CEECCSSSSS
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCC--CCCceEEEEEeCCHHHHHHHHHHhCC-CCccCCCCCc
Confidence            345789999999999999999999999 77  888888765  4456899999999999999999 999 999875    


Q ss_pred             EEEEEec
Q psy13181         95 QVRLDIA  101 (137)
Q Consensus        95 ~l~v~~a  101 (137)
                      ++.|+++
T Consensus       198 p~~vk~~  204 (205)
T 3tyt_A          198 PYTLKLC  204 (205)
T ss_dssp             CEECEEE
T ss_pred             ceEEEec
Confidence            5666654

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.38  E-value=1.5e-12  Score=88.98  Aligned_cols=76  Identities=16%  Similarity=0.348  Sum_probs=67.6

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~l~v   98 (137)
                      .+..+|||+|||..+++++|+++|++|  .|..+.++.+     .+++|||+|.+.++|.+|+. |++ ..++ |+.|.|
T Consensus       118 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~-----~~g~afV~f~~~~~A~~A~~~l~g-~~~~~g~~l~v  191 (198)
T 1qm9_A          118 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK-----DRKMALIQMGSVEEAVQALIDLHN-HDLGENHHLRV  191 (198)
T ss_dssp             CCCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESST-----TSSCEEEECSSHHHHHHHHHHHTS-SCCSSCCSCCE
T ss_pred             CCccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeC-----CCcEEEEEeCCHHHHHHHHHHhcC-CccCCCCeEEE
Confidence            347899999999999999999999998  6788887653     26799999999999999999 999 9999 999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .+++++
T Consensus       192 ~~a~~~  197 (198)
T 1qm9_A          192 SFSKST  197 (198)
T ss_dssp             EEECCC
T ss_pred             Eeeccc
Confidence            998764

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=99.38  E-value=3.8e-12  Score=89.27  Aligned_cols=76  Identities=16%  Similarity=0.348  Sum_probs=67.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec-CeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD-GLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~-g~~l~v   98 (137)
                      .+..+|||+|||..+++++|+++|++|  .|..+.++.+     .+++|||+|.+.++|.+|+. |++ ..+. ++.|.|
T Consensus       149 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~-----~~g~afV~f~~~~~A~~Ai~~l~g-~~~~~g~~l~v  222 (229)
T 2adc_A          149 PPSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQK-----DRKMALIQMGSVEEAVQALIDLHN-HDLGENHHLRV  222 (229)
T ss_dssp             CSCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSS-----STTCEEEEESSHHHHHHHHHHHTT-CBSSSSCBCEE
T ss_pred             CCCCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEEC-----CCcEEEEEECCHHHHHHHHHHHCC-CccCCCCeEEE
Confidence            346899999999999999999999999  6788887542     25799999999999999999 999 9999 999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .+++++
T Consensus       223 ~~a~~~  228 (229)
T 2adc_A          223 SFSKST  228 (229)
T ss_dssp             EECSSC
T ss_pred             EEecCC
Confidence            998864

>2g4b_A Splicing factor U2AF 65 kDa subunit; protein-RNA complex, RNA splicing factor, RNA recognition motif, RNA binding protein/RNA complex; 2.50A {Homo sapiens} PDB: 2u2f_A

Probab=99.35  E-value=3.5e-12  Score=85.04  Aligned_cols=75  Identities=29%  Similarity=0.538  Sum_probs=63.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC------------ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeee
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ------------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITV   91 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~------------~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l   91 (137)
                      ..++|||+|||.++++++|+++|++|            .+..+.+.      .++++|||+|.+.++|.+|+.+++ ..+
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~------~~~g~afV~f~~~~~A~~A~~~~~-~~~   75 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQIN------QDKNFAFLEFRSVDETTQAMAFDG-IIF   75 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEE------TTTTEEEEEESSHHHHHHHGGGTT-CEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEec------CCCCEEEEEeCCHHHHHHHHHhCC-cEe
Confidence            45799999999999999999999987            23334332      347899999999999999999999 999


Q ss_pred             cCeEEEEEecCCCC
Q psy13181         92 DGLQVRLDIADGKR  105 (137)
Q Consensus        92 ~g~~l~v~~a~~~~  105 (137)
                      .|+.|.|.++....
T Consensus        76 ~g~~i~v~~~~~~~   89 (172)
T 2g4b_A           76 QGQSLKIRRPHDYQ   89 (172)
T ss_dssp             TTEECEEECCSSCC
T ss_pred             cCceeeecCCcccC
Confidence            99999999877553

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=99.34  E-value=4.1e-12  Score=79.22  Aligned_cols=79  Identities=19%  Similarity=0.187  Sum_probs=67.5

Q ss_pred             CCceEEEcCC--CCCCC--------HHHHHhcCcCC-ceeEEEEeecCCC--CCeecEEEEEEcCHHHHHHHHH-hCCCe
Q psy13181         24 PPYTAFVGNL--PNGIT--------QGDVERFFPEQ-KLVSVRLVKDKET--DRFKGFCYVEFVDVENLRQALL-KDGRI   89 (137)
Q Consensus        24 ~~~~l~v~nl--p~~~~--------e~~l~~~f~~~-~i~~i~~~~~~~t--~~~~g~~fv~f~~~~~a~~al~-l~~~~   89 (137)
                      +++.|.|.|+  |.++.        +++|++.|++| .|..|.+++++.+  +..+|++||+|.+.++|.+|+. ||| .
T Consensus         4 ps~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~fV~f~~~~~A~~Ai~~lnG-~   82 (105)
T 3v4m_A            4 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG-R   82 (105)
T ss_dssp             CCSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEEEEEESSHHHHHHHHHHHTT-C
T ss_pred             CCeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEEEEEECCHHHHHHHHHHhCC-C
Confidence            5678899997  33443        36899999999 9999999888754  3578999999999999999999 999 9


Q ss_pred             eecCeEEEEEecCC
Q psy13181         90 TVDGLQVRLDIADG  103 (137)
Q Consensus        90 ~l~g~~l~v~~a~~  103 (137)
                      .++|+.|.|.++..
T Consensus        83 ~f~GR~i~v~~~~~   96 (105)
T 3v4m_A           83 KFANRVVVTKYCDP   96 (105)
T ss_dssp             EETTEECEEEEECH
T ss_pred             EeCCCEEEEEEeCH
Confidence            99999999999764

>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=99.34  E-value=6.9e-12  Score=79.79  Aligned_cols=79  Identities=18%  Similarity=0.211  Sum_probs=67.9

Q ss_pred             CCceEEEcCCC--CCC---CHHHHHhcCcCC-ceeEEEEeecCC----CCCeecEEEEEEcCHHHHHHHHH-hCCCeeec
Q psy13181         24 PPYTAFVGNLP--NGI---TQGDVERFFPEQ-KLVSVRLVKDKE----TDRFKGFCYVEFVDVENLRQALL-KDGRITVD   92 (137)
Q Consensus        24 ~~~~l~v~nlp--~~~---~e~~l~~~f~~~-~i~~i~~~~~~~----t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~   92 (137)
                      ++++|+|.|+-  .++   .+++|++.|++| .|..|.+++++.    ++..+|++||+|.+.++|.+|+. ||| ..++
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnG-r~f~   97 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNG-RWFA   97 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTT-CEET
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCC-CEEC
Confidence            56789999983  223   358999999999 999999998864    35678999999999999999999 999 9999


Q ss_pred             CeEEEEEecCC
Q psy13181         93 GLQVRLDIADG  103 (137)
Q Consensus        93 g~~l~v~~a~~  103 (137)
                      |+.|.|.++..
T Consensus        98 GR~i~v~~~~~  108 (118)
T 3ue2_A           98 GRKVVAEVYDQ  108 (118)
T ss_dssp             TEECEEEEECH
T ss_pred             CcEEEEEEcCh
Confidence            99999999764

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.29  E-value=1e-12  Score=81.82  Aligned_cols=70  Identities=13%  Similarity=0.340  Sum_probs=60.1

Q ss_pred             EcCCCCCCCHHHHHhcC------------cCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         30 VGNLPNGITQGDVERFF------------PEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        30 v~nlp~~~~e~~l~~~f------------~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      +.+|+..+++++|++.|            ++| .|..|.++++.. +.++|+|||+|.+.++|.+|+. ||| ..++|+.
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~-~~~~G~~fV~f~~~~~A~~A~~~lng-~~~~Gr~   97 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLG-DHLVGNVYVKFRREEDAEKAVIDLNN-RWFNGQP   97 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSS-SSSEEEEEEEESCHHHHHHHHHHHTT-CEETTEE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCC-CCccEEEEEEECCHHHHHHHHHHHCC-CEECCEE
Confidence            45566667777776665            999 999999998765 6889999999999999999999 999 9999999


Q ss_pred             EEEEec
Q psy13181         96 VRLDIA  101 (137)
Q Consensus        96 l~v~~a  101 (137)
                      |.|.++
T Consensus        98 i~v~~s  103 (104)
T 1jmt_A           98 IHAELS  103 (104)
T ss_dssp             CCEEEC
T ss_pred             EEEEEc
Confidence            999986

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.22  E-value=3.1e-10  Score=70.06  Aligned_cols=75  Identities=16%  Similarity=0.220  Sum_probs=61.2

Q ss_pred             CceEEEcCCC-------CCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         25 PYTAFVGNLP-------NGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        25 ~~~l~v~nlp-------~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ..+|.|.-..       ..+++++|+++|++| .|..|.++     +.++|||||+|.+.++|+.|+. +++   +.+++
T Consensus        10 ~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~-----~~~rGfaFVeF~~~~~A~~Ai~~~~~---~~g~~   81 (100)
T 2d9o_A           10 TPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLS-----SKKPGTAVVEFATVKAAELAVQNEVG---LVDNP   81 (100)
T ss_dssp             SCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEE-----SSSSSEEEEEESCHHHHHHHHHTCCB---CSSSB
T ss_pred             cceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEc-----cCCCCEEEEEECCHHHHHHHHHhcCC---CCCCe
Confidence            4566665433       568999999999999 99999887     3568899999999999999999 655   46899


Q ss_pred             EEEEecCCCCCC
Q psy13181         96 VRLDIADGKRND  107 (137)
Q Consensus        96 l~v~~a~~~~~~  107 (137)
                      |.|.++.++...
T Consensus        82 l~V~~a~~~~~~   93 (100)
T 2d9o_A           82 LKISWLEGQPQD   93 (100)
T ss_dssp             CEEECSSCCCCC
T ss_pred             EEEEEccCCCCC
Confidence            999999876543

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.20  E-value=4.4e-11  Score=88.71  Aligned_cols=77  Identities=16%  Similarity=0.271  Sum_probs=63.1

Q ss_pred             CCCCCCCceEEEcC--CCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeec--
Q psy13181         19 TLPTEPPYTAFVGN--LPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVD--   92 (137)
Q Consensus        19 ~~~~~~~~~l~v~n--lp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~--   92 (137)
                      .....++.+|||+|  |+..++|++|+++|++| .|..|.+..      .++||||+|.+.++|++|++ ||| ..+.  
T Consensus        12 ~~~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~------~kgfaFV~f~~~~~A~~Ai~~lnG-~~~~~~   84 (345)
T 3tht_A           12 ETVSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP------NKPYSFARYRTTEESKRAYVTLNG-KEVVDD   84 (345)
T ss_dssp             CCCSSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT------TCSEEEEEESSHHHHHHHHHHTTT-CEEECT
T ss_pred             eecCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC------CCCEEEEEECCHHHHHHHHHHhCC-Cccccc
Confidence            33456778999999  57899999999999999 998887653      36799999999999999999 999 7663  


Q ss_pred             -Ce--EEEEEecC
Q psy13181         93 -GL--QVRLDIAD  102 (137)
Q Consensus        93 -g~--~l~v~~a~  102 (137)
                       |+  .|.|.++.
T Consensus        85 ~g~~~~ly~~~~~   97 (345)
T 3tht_A           85 LGQKITLYLNFVE   97 (345)
T ss_dssp             TSCEEECEEEECS
T ss_pred             cCCceEEEEEEee
Confidence             33  57777764

>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=99.09  E-value=6.6e-10  Score=70.14  Aligned_cols=77  Identities=14%  Similarity=0.089  Sum_probs=62.8

Q ss_pred             CCCCceEEEcCCCCCC----------CHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCe
Q psy13181         22 TEPPYTAFVGNLPNGI----------TQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRI   89 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~----------~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~   89 (137)
                      ..+++.|.|.|+=..-          .+++|++.|++| .|..|.+.++.    .+|++||.|.+.++|.+|+. ||| .
T Consensus         4 p~ps~vv~L~Nm~~~~e~~d~~~~~el~edl~~~f~kfG~V~~v~i~~~~----~~G~~fV~f~~~e~A~~Ai~~lnG-~   78 (114)
T 3s6e_A            4 PLATQCFQLSNMFNPQTEEEVGWDTEIKDDVIEECNKHGGVIHIYVDKNS----AQGNVYVKCPSIAAAIAAVNALHG-R   78 (114)
T ss_dssp             CCCCSEEEEESSCCTTTCCSTTHHHHHHHHHHHHHTTTTCCSEEEECTTC----TTCCEEEECSSHHHHHHHHHHHTT-C
T ss_pred             CCCCcEEEEECCCChHHccChhHHHHHHHHHHHHHhccCCEEEEEEecCC----CcEEEEEEECCHHHHHHHHHHhCC-C
Confidence            3456788888873221          125789999999 99999886553    37899999999999999999 999 9


Q ss_pred             eecCeEEEEEecCC
Q psy13181         90 TVDGLQVRLDIADG  103 (137)
Q Consensus        90 ~l~g~~l~v~~a~~  103 (137)
                      .++|+.|.|.++..
T Consensus        79 ~f~GR~i~v~~~~~   92 (114)
T 3s6e_A           79 WFAGKMITAAYVPL   92 (114)
T ss_dssp             EETTEECEEEEECH
T ss_pred             EECCEEEEEEEEcH
Confidence            99999999999864

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.06  E-value=1.3e-09  Score=69.37  Aligned_cols=79  Identities=9%  Similarity=0.166  Sum_probs=68.0

Q ss_pred             CCCCCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcC-HHHHHHHHH-hC--CCeeec
Q psy13181         19 TLPTEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVD-VENLRQALL-KD--GRITVD   92 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~-~~~a~~al~-l~--~~~~l~   92 (137)
                      .........|+|+||+.. +++++|+++|++| .|.+|.+..+..      .|||.|.+ ..+|..++. ++  + +.|.
T Consensus        12 ~~~~~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~------tgfVrf~~~~~~A~~av~~ln~~~-~~i~   84 (121)
T 1owx_A           12 SLEEKIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAK------EGIILFKEKAKEALGKAKDANNGN-LQLR   84 (121)
T ss_dssp             CCSCCCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCS------EEEEEESSCHHHHHHHHHHTTTSC-BCTT
T ss_pred             cccccCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCC------EEEEEECCChHHHHHHHHHhhcCC-cEEe
Confidence            344567789999999999 9999999999999 999999988765      59999999 889999998 74  5 8999


Q ss_pred             CeEEEEEecCCC
Q psy13181         93 GLQVRLDIADGK  104 (137)
Q Consensus        93 g~~l~v~~a~~~  104 (137)
                      +..+.++....+
T Consensus        85 g~~~~~evL~Ge   96 (121)
T 1owx_A           85 NKEVTWEVLEGE   96 (121)
T ss_dssp             SSSEEEEECCHH
T ss_pred             CcEEEEEECCCH
Confidence            998998876643

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.98  E-value=2.6e-09  Score=64.30  Aligned_cols=72  Identities=17%  Similarity=0.265  Sum_probs=59.9

Q ss_pred             CCceEEEcCCC----CCCCH----HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCe
Q psy13181         24 PPYTAFVGNLP----NGITQ----GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGL   94 (137)
Q Consensus        24 ~~~~l~v~nlp----~~~~e----~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~   94 (137)
                      +..+|+|.-.+    .++..    .+|.+.|.+| .+..++++.++        +||+|.+.++|.+|+.|+| ..++|+
T Consensus         6 pd~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~d~--------~fVtF~d~~sAlaAi~mnG-~~v~Gr   76 (91)
T 2dnr_A            6 SGGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVEDK--------MWVTFLEGSSALNVLSLNG-KELLNR   76 (91)
T ss_dssp             SSCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECSSS--------EEEEESSHHHHHHGGGGTT-CEETTE
T ss_pred             CCCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEecCC--------EEEEECChHHHHHHHhcCC-eEeCCe
Confidence            45678887665    23333    5788889999 89999998764        8999999999999999999 999999


Q ss_pred             EEEEEecCCC
Q psy13181         95 QVRLDIADGK  104 (137)
Q Consensus        95 ~l~v~~a~~~  104 (137)
                      .|+|.++.+.
T Consensus        77 ~LkV~lkt~d   86 (91)
T 2dnr_A           77 TITIALKSPS   86 (91)
T ss_dssp             EEEEEECCCS
T ss_pred             EEEEEeCCCC
Confidence            9999998764

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.66  E-value=3.2e-08  Score=59.87  Aligned_cols=71  Identities=20%  Similarity=0.221  Sum_probs=58.5

Q ss_pred             CCCceEEEcCCCCC-----C-CH---HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeec
Q psy13181         23 EPPYTAFVGNLPNG-----I-TQ---GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVD   92 (137)
Q Consensus        23 ~~~~~l~v~nlp~~-----~-~e---~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~   92 (137)
                      ++..+|+|.-++..     + ++   .+|.+.|.+| .+..++++.++        +||+|.+.++|.+||.|++ ..++
T Consensus        13 PpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~d~--------~fVtF~d~~sAl~AI~ldG-~~v~   83 (95)
T 1ufw_A           13 PLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQGQ--------MLVTFADSHSALSVLDVDG-MKVK   83 (95)
T ss_dssp             CTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEETTE--------EEEECSCSHHHHHHHHGGG-SEET
T ss_pred             CCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEecCc--------EEEEEcChHHHHHHHhcCC-eeeC
Confidence            45578999877642     3 32   4678888888 88888888763        9999999999999999999 9999


Q ss_pred             CeEEEEEecC
Q psy13181         93 GLQVRLDIAD  102 (137)
Q Consensus        93 g~~l~v~~a~  102 (137)
                      |+.|+|.+..
T Consensus        84 Gr~L~V~~k~   93 (95)
T 1ufw_A           84 GRAVKISGPS   93 (95)
T ss_dssp             TEEEEEECCC
T ss_pred             CeEEEEeccC
Confidence            9999999754

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.59  E-value=1.6e-07  Score=65.30  Aligned_cols=65  Identities=18%  Similarity=0.201  Sum_probs=57.3

Q ss_pred             CCHHHHHhcCcCC-ceeEEEEeecCC----CCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         37 ITQGDVERFFPEQ-KLVSVRLVKDKE----TDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        37 ~~e~~l~~~f~~~-~i~~i~~~~~~~----t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      -.+++|...|++| .|..+.++.+..    ++..+|++||+|.+.++|.+|+. |+| ..++|+.|.+.++.
T Consensus       141 e~~~dl~~e~~~~G~v~~~~v~~~~~~~~~~~~~~G~~fv~f~~~~~a~~a~~~l~g-r~~~gr~i~~~~~~  211 (222)
T 3dxb_A          141 DLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNG-RWFAGRKVVAEVYD  211 (222)
T ss_dssp             THHHHHHHHHTTTSCEEEEEEEEEECCSSTTCCEEEEEEEEESSHHHHHHHHHHHTT-CBSSSSBCEEEECC
T ss_pred             HHHHHHHHHHHccCCeEEEEEecCCCCcccCcCceeEEEEEECCHHHHHHHHHHhcC-ceECCeEEEEEEcC
Confidence            3457899999999 999999886543    45889999999999999999999 999 99999999999975

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=98.29  E-value=5.1e-06  Score=51.44  Aligned_cols=71  Identities=18%  Similarity=0.225  Sum_probs=60.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC------ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~------~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ...++|-+.+||..++...|+.++.++      .+..|.+..|..      -|+|+|.+...|-+|.- |+| ..|.++.
T Consensus        19 ~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~pDH~------GAivef~d~~~AgKasLaL~G-~ef~gr~   91 (117)
T 2l9w_A           19 ELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVSDFN------GAIIIFRDSKFAAKMLMILNG-SQFQGKV   91 (117)
T ss_dssp             TTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEETTTT------EEEEECSCHHHHHHHHHHHSS-EEETTEE
T ss_pred             cCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEecCCC------ceEEEEccchhhHHHHhhcCC-eeecCeE
Confidence            346889999999999999999988765      477887876654      79999999988888876 999 9999999


Q ss_pred             EEEEe
Q psy13181         96 VRLDI  100 (137)
Q Consensus        96 l~v~~  100 (137)
                      |+|.-
T Consensus        92 Lr~gT   96 (117)
T 2l9w_A           92 IRSGT   96 (117)
T ss_dssp             EEEEC
T ss_pred             EEecC
Confidence            98863

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=97.80  E-value=0.00035  Score=42.70  Aligned_cols=73  Identities=15%  Similarity=0.173  Sum_probs=58.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcC----C--ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPE----Q--KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQV   96 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~----~--~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l   96 (137)
                      ....+|.|.|||+.++++.|.-+|+.    .  .+..+....        ..|+|+|.+.+.+++.|+... +.|++..|
T Consensus         6 ~~~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~~--------~~AvItF~d~~va~rVL~k~~-H~L~~~~L   76 (104)
T 2dhx_A            6 SGGVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRLG--------CGGVLTFREPADAERVLAQAD-HELHGAQL   76 (104)
T ss_dssp             CCCCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEET--------TEEEEEESSHHHHHHHHTCSC-CBSSSSBC
T ss_pred             cCccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEcC--------CcEEEEEcChHHHHHHhcCCc-ceecCeEE
Confidence            34579999999999999999999976    2  566655432        379999999999999988655 89999999


Q ss_pred             EEEecCCC
Q psy13181         97 RLDIADGK  104 (137)
Q Consensus        97 ~v~~a~~~  104 (137)
                      .|....++
T Consensus        77 sV~P~~~~   84 (104)
T 2dhx_A           77 SLRPAPPR   84 (104)
T ss_dssp             EEEECCCC
T ss_pred             EEEcCCCC
Confidence            99876544

>1uw4_A UPF3X; nonsense mediated mRNA decay protein, RNA-binding protein, N domain, MIF4G domain; 1.95A {Homo sapiens} SCOP: d.58.7.4

Probab=97.74  E-value=0.00036  Score=41.86  Aligned_cols=67  Identities=12%  Similarity=0.159  Sum_probs=53.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCC--eecEEEEEEcCHHHHHHHHH-hCCCeeecC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDR--FKGFCYVEFVDVENLRQALL-KDGRITVDG   93 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~--~~g~~fv~f~~~~~a~~al~-l~~~~~l~g   93 (137)
                      .+|.|++||+.++|+++.+.+... .+....++..+.+.+  ...-|+|.|.+.+++....+ ++| ..+.+
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d~~~fv~G~~s~~~~~~SRaYi~f~~~e~v~~f~~~~~g-~~F~D   72 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDG-YVFLD   72 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTT-CEEEC
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccceEEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHhCC-cEEEc
Confidence            478999999999999999999988 777777666544332  23568999999999999999 999 66543

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=97.64  E-value=0.00033  Score=42.45  Aligned_cols=77  Identities=13%  Similarity=0.145  Sum_probs=55.4

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCC--eecEEEEEEcCHHHHHHHHH-hCCCeeecC-----eE
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDR--FKGFCYVEFVDVENLRQALL-KDGRITVDG-----LQ   95 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~--~~g~~fv~f~~~~~a~~al~-l~~~~~l~g-----~~   95 (137)
                      .-+|.|+.||+.+||+++.+.+... .+.+..++....+.+  ...-|+|.|.+.+++....+ ++| ..+.+     .+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~~~~d~~~fv~G~~s~~~~~~SRAYI~F~~~edv~~F~~~f~g-~~F~D~kg~~~~   87 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPLPAHDYFEFFAADLSLYPHLYSRAYINFRNPDDILLFRDRFDG-YIFLDSKGLEYP   87 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCCSSEEECCCCCCCSSSCCSCCCCCEEEESCHHHHHHHHHHSTT-EEEECTTCCEEE
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCcCccceEEEeCCccCCCCCcceEEEEEeCCHHHHHHHHHHcCC-cEEEeCCCCEee
Confidence            4579999999999999999999887 655444433332222  12458999999999999999 999 66643     33


Q ss_pred             EEEEecC
Q psy13181         96 VRLDIAD  102 (137)
Q Consensus        96 l~v~~a~  102 (137)
                      ..|++|.
T Consensus        88 a~VE~AP   94 (97)
T 2l08_A           88 AVVEFAP   94 (97)
T ss_dssp             EEEEECC
T ss_pred             eEEEecC
Confidence            4455553

>1whv_A Poly(A)-specific ribonuclease; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, PARN, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2rok_A*

Probab=97.63  E-value=0.00024  Score=43.02  Aligned_cols=55  Identities=16%  Similarity=0.281  Sum_probs=44.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K   85 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l   85 (137)
                      ...+.++| .+|.++...||.++|+.|.-..|.++-|  |     .|||.|.+++.|..++. +
T Consensus        14 ~r~HVf~l-~FP~ewKt~DI~~lFs~fggv~I~WidD--T-----sAlvvf~~~~~a~~al~~i   69 (100)
T 1whv_A           14 KRDHVLHV-TFPKEWKTSDLYQLFSAFGNIQISWIDD--T-----SAFVSLSQPEQVQIAVNTS   69 (100)
T ss_dssp             CCCSEEEE-ECCTTCCHHHHHHHHTTTCSCCCEEEET--T-----EEEEECSCHHHHHHHHHHH
T ss_pred             CCCeEEEE-eCChhhhhHHHHHHhhccCCEEEEEEcC--C-----eEEEEecCHHHHHHHHHhc
Confidence            45566777 9999999999999999994344556654  3     79999999999999988 6

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=97.37  E-value=0.00027  Score=42.91  Aligned_cols=55  Identities=16%  Similarity=0.292  Sum_probs=44.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD   86 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~   86 (137)
                      ..+.++| .+|.++...||.++|+.|+-..|.++-|  |     .|||.|.+++.|..++. +.
T Consensus         5 R~HV~~l-~FP~ewKt~Di~~lFs~fggv~I~WidD--T-----sAlvvf~~~~~a~~al~~i~   60 (101)
T 3ctr_A            5 SDHVLHV-TFPKEWKTSDLYQLFSAFGNIQISWIDD--T-----SAFVSLSQPEQVKIAVNTSK   60 (101)
T ss_dssp             EEEEEEE-ECCTTCCHHHHHHHTTTSEEEEEEEEET--T-----EEEEEEEEECHHHHHHHHHT
T ss_pred             CCeEEEE-eCChhhhhHHHHHHHhccCCEEEEEEcC--C-----eEEEEecCHHHHHHHHHhcc
Confidence            3455666 9999999999999999995556777755  3     79999999999998888 63

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=97.00  E-value=0.0021  Score=39.35  Aligned_cols=74  Identities=14%  Similarity=0.104  Sum_probs=57.3

Q ss_pred             CCceEEEcCCCCCC-CH----HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         24 PPYTAFVGNLPNGI-TQ----GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        24 ~~~~l~v~nlp~~~-~e----~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      -+.+|+|-||+.++ ..    +.++++|..+ .+....+++.      -.-..|.|.+.++|.+|-. ||+ ..+.|+.+
T Consensus         4 ~pntLiitnl~~~vF~~~~lk~~~e~Lf~~~~~~~tF~~lkS------FRRirv~F~~~~~A~~AR~~Lh~-~~f~g~~~   76 (104)
T 1wey_A            4 GSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS------FKRVRINFSNPLSAADARLRLHK-TEFLGKEM   76 (104)
T ss_dssp             CCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT------TTEEEEECSSTTHHHHHHHTSTT-SEETTEEC
T ss_pred             CCceEEEecCCHHHcCCHHHHHHHHHHHHhhCcCcceeecCc------ceEEEEEeCChHHHHHHHHHhcc-ceecCcee
Confidence            35689999998765 22    4667888888 6665555533      2257899999999999988 999 99999999


Q ss_pred             EEEecCCC
Q psy13181         97 RLDIADGK  104 (137)
Q Consensus        97 ~v~~a~~~  104 (137)
                      +|-++.+.
T Consensus        77 r~YFgq~~   84 (104)
T 1wey_A           77 KLYFAQTL   84 (104)
T ss_dssp             EEECCCCS
T ss_pred             EEEecCCC
Confidence            99998744

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=96.64  E-value=0.012  Score=36.81  Aligned_cols=72  Identities=13%  Similarity=0.102  Sum_probs=56.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecC-eEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG-LQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g-~~l~v~~  100 (137)
                      ....-|.|-++|+.. ...|...|++| .|.+....      ....+.+|.|.+..+|++||..|+ ..|++ ..|-|..
T Consensus        22 ~~~~wVtVFGFp~~~-~~~VL~~F~~~G~Iv~~~~~------~~~NWihI~Y~s~~~A~rAL~kNG-~ii~g~~mIGV~p   93 (119)
T 1wwh_A           22 LDDTWVTVFGFPQAS-ASYILLQFAQYGNILKHVMS------NTGNWMHIRYQSKLQARKALSKDG-RIFGESIMIGVKP   93 (119)
T ss_dssp             GGGGEEEEECCCGGG-HHHHHHHHHTTSCEEEEEEC------SSSSEEEEEESSHHHHHHHHTTTT-CEETTTEECEEEE
T ss_pred             CCCCEEEEECCCHHH-HHHHHHHHHhhCcEEEeccC------CCCCeEEEEeCCHHHHHHHHHhCC-eEecCCEEEEEEE
Confidence            345788899999986 45577788899 88877652      123499999999999999999999 88874 6677776


Q ss_pred             cC
Q psy13181        101 AD  102 (137)
Q Consensus       101 a~  102 (137)
                      ..
T Consensus        94 ~~   95 (119)
T 1wwh_A           94 CI   95 (119)
T ss_dssp             CC
T ss_pred             CC
Confidence            43

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=95.53  E-value=0.0042  Score=47.70  Aligned_cols=54  Identities=13%  Similarity=0.206  Sum_probs=40.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL   84 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~   84 (137)
                      .++|+|. .|..+++.+|.++|++| .|..+.+-.++.     -|+.|+|.+.+++.+++.
T Consensus        53 ~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~~~g-----~~~~vef~~~~~~~~~~~  107 (464)
T 3pq1_A           53 QRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYESFG-----LYAVVEFCQKESIGSLQN  107 (464)
T ss_dssp             HTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEECSSS-----EEEEEECC---CCHHHHS
T ss_pred             cceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEccCC-----eEEEEEeCCHHHHHHHHh
Confidence            4789997 79999999999999999 999987765543     499999999999887765

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=94.63  E-value=0.036  Score=35.25  Aligned_cols=77  Identities=13%  Similarity=0.216  Sum_probs=52.9

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeE-EEEee------------cCCCC-CeecEEEEEEcCHHHHHHHHHhCCCe
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVS-VRLVK------------DKETD-RFKGFCYVEFVDVENLRQALLKDGRI   89 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~-i~~~~------------~~~t~-~~~g~~fv~f~~~~~a~~al~l~~~~   89 (137)
                      ...|.|-++|+..+.. +.+.|++| .|.+ .....            .+... ....+..|.|++..+|.+||..+| .
T Consensus         7 e~~VtVFGFp~~~~~~-VI~~Fs~~G~IlE~~~~~~~~~~~~~~~~~~k~yP~f~g~NWikItYds~~~A~rAL~~NG-~   84 (132)
T 3p3d_A            7 ELAILVFGYPETMANQ-VIAYFQEFGTILEDFEVLRKPQAMTVGLQDRQFVPIFSGNSWTKITYDNPASAVDALLENG-A   84 (132)
T ss_dssp             -CEEEEECCCGGGHHH-HHHHHGGGSCBCSCCGGGCCC-----------CCCCCEETTEEEEEBSSHHHHHHHHTTTT-C
T ss_pred             ceEEEEEecCHHHHHH-HHHHHHhhceEeeeccccccccccccccccccccCccCCCcEEEEEcCCHHHHHHHHHhCC-e
Confidence            3567787887776655 66677888 6654 11110            00000 124688999999999999999999 9


Q ss_pred             eecCeEEEEEecCC
Q psy13181         90 TVDGLQVRLDIADG  103 (137)
Q Consensus        90 ~l~g~~l~v~~a~~  103 (137)
                      .|+|..|-|....+
T Consensus        85 ii~G~mIGV~Py~~   98 (132)
T 3p3d_A           85 VFNGVLLGVIPYTK   98 (132)
T ss_dssp             EETTEECEEEECCH
T ss_pred             EeCcEEEEEEECCH
Confidence            99999888887653

>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=94.14  E-value=0.068  Score=34.38  Aligned_cols=33  Identities=18%  Similarity=0.235  Sum_probs=26.5

Q ss_pred             EEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCC
Q psy13181         53 SVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDG   87 (137)
Q Consensus        53 ~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~   87 (137)
                      .+.++++..  +.+|++||+|.+.++|++|+. +++
T Consensus         2 ~~kl~ln~~--~~~G~~fV~f~~~~~A~~al~~~~~   35 (158)
T 2kn4_A            2 QYKLILNGK--TLKGETTTEAVDAATAEKVFKQYAN   35 (158)
T ss_dssp             EEEEEEECS--SCEEEEEEECSSHHHHHHHHHHHHH
T ss_pred             cEEEEecCc--cccchhHHHHHHHHhHHHHHHhhcc
Confidence            345666654  578999999999999999997 664

>2i2y_A Fusion protein consists of immunoglobin G- binding protein G and splicing factor,...; protein-RNA complex RRM alpha-beta sandwich BETA1-alpha1- BETA2-BETA3-alpha2-BETA4; NMR {Streptococcus SP} PDB: 2i38_A

Probab=92.53  E-value=0.049  Score=34.87  Aligned_cols=40  Identities=25%  Similarity=0.241  Sum_probs=35.5

Q ss_pred             CCeecEEEEEEcCHHHHHHHHH-h-CCCeeecCeEEEEEecCCC
Q psy13181         63 DRFKGFCYVEFVDVENLRQALL-K-DGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        63 ~~~~g~~fv~f~~~~~a~~al~-l-~~~~~l~g~~l~v~~a~~~  104 (137)
                      .+..|+++++|.+.++|++|+. + ++ ..++| .+.+.++..+
T Consensus        10 ~~l~G~~~ve~~~~~~A~~a~~~~~ng-~~~~G-~~~~~~a~~~   51 (150)
T 2i2y_A           10 KTLKGETTTEAVDAATAEKVFKQYAND-NGVDG-EWTYDDATKT   51 (150)
T ss_dssp             SSSCEEEEEECSSHHHHTTTHHHHHHH-HTCCC-EEEEETTTTE
T ss_pred             ccccccceeeecCHHHHHHHHHHHhcC-CCCCC-ceecccccCc
Confidence            4668899999999999999999 9 99 99999 9999987754

>3d45_A Poly(A)-specific ribonuclease PARN; CAP analogue, exonuclease, hydrolase, magnesium, metal nonsense-mediated mRNA decay, nucleus; HET: 7MG GDP; 3.00A {Mus musculus}

Probab=90.67  E-value=0.94  Score=35.13  Aligned_cols=55  Identities=16%  Similarity=0.267  Sum_probs=43.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD   86 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~   86 (137)
                      .+..++|+ +|..|...+|.+.|+.|.-.+|.++-+  |     .+||.|.+.+.+..++. +.
T Consensus       439 R~~vl~v~-f~~~~~~~~i~~~fs~fg~v~V~widd--t-----~a~V~~~~~~~a~~~l~~~~  494 (507)
T 3d45_A          439 RDHVLHVT-FPKEWKTSDLYQLFSAFGNIQISWIDD--T-----SAFVSLSQPEQVQIAVNTSK  494 (507)
T ss_dssp             GGGEEEEE-CCTTCCHHHHHHHGGGGCCCEEEECSS--S-----EEEEECSCHHHHHHHHHHHT
T ss_pred             cCcEEEEe-CCCCCCHHHHHHHHHhcCCEEEEEEcC--C-----eEEEEECCHHHHHHHHHHHH
Confidence            44566666 999999999999999884445656543  2     79999999999999988 64

---

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	137
d1wi8a_	104	d.58.7.1 (A:) Eukaryotic translation initiation fa	8e-14
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	1e-12
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	8e-11
d2cqpa1	86	d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mous	1e-10
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	2e-10
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	1e-09
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	1e-09
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	2e-09
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	8e-09
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	8e-09
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	1e-08
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	2e-08
d1x5sa1	90	d.58.7.1 (A:8-97) Cold-inducible RNA-binding prote	2e-08
d2cpxa1	102	d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41	3e-08
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	6e-08
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	6e-08
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	6e-08
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	8e-08
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	8e-08
d1fjeb1	91	d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesoc	8e-08
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	9e-08
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	1e-07
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	1e-07
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	1e-07
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	1e-07
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	1e-07
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	1e-07
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	1e-07
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	2e-07
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	2e-07
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	2e-07
d1x4ha1	98	d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (	3e-07
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	3e-07
d1nu4a_	91	d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo	5e-07
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	7e-07
d1weza_	102	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	1e-06
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	1e-06
d2ghpa3	86	d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splici	1e-06
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	1e-06
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	2e-06
d2cpya1	103	d.58.7.1 (A:536-638) RNA-binding protein 12 {Human	2e-06
d1p1ta_	104	d.58.7.1 (A:) Cleavage stimulation factor, 64 kda	3e-06
d2cqda1	103	d.58.7.1 (A:1-103) RNA-binding region containing p	4e-06
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	4e-06
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	7e-06
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	1e-05
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-05
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	1e-05
d1rk8a_	88	d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Dr	1e-05
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	1e-05
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	2e-05
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	2e-05
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	2e-05
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-05
d2cpza1	102	d.58.7.1 (A:383-484) CUG triplet repeat RNA-bindin	5e-05
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	8e-05
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	1e-04
d1wwha1	81	d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus mu	1e-04
d2ghpa2	75	d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicin	1e-04
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	2e-04
d1u6fa1	139	d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypa	2e-04
d1wg4a_	98	d.58.7.1 (A:) Splicing factor, arginine/serine-ric	2e-04
d1wexa_	104	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-04
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	5e-04
d2adca2	88	d.58.7.1 (A:444-531) Polypyrimidine tract-binding	6e-04
d1whya_	97	d.58.7.1 (A:) Putative RNA-binding protein 15B, Rb	0.001
d1x4ea1	72	d.58.7.1 (A:8-79) RNA-binding motif, single-strand	0.002
d2adba1	108	d.58.7.1 (A:177-284) Polypyrimidine tract-binding	0.002

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 60.9 bits (147), Expect = 8e-14
 Identities = 32/99 (32%), Positives = 53/99 (53%), Gaps = 2/99 (2%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVE 72
           G +   LP  PPYTAF+GNLP  +T+  ++ FF            +    +R KGF Y E
Sbjct: 4   GSSGSRLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAE 63

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           F D+++L  AL  +   ++   ++R+D+AD  ++ + G 
Sbjct: 64  FEDLDSLLSALSLNEE-SLGNKRIRVDVADQAQDKDSGP 101

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 57.7 bits (139), Expect = 1e-12
 Identities = 25/98 (25%), Positives = 46/98 (46%), Gaps = 2/98 (2%)

Query: 10  PERYGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGF 68
           P R   +  +       T F   L   I   D+E FF     V  VR++ D+ + R KG 
Sbjct: 3   PVREPVDNLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGI 62

Query: 69  CYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
            YVEF +++++  A+   G+  + G+ + +  +  ++N
Sbjct: 63  AYVEFCEIQSVPLAIGLTGQ-RLLGVPIIVQASQAEKN 99

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.7 bits (126), Expect = 8e-11
 Identities = 20/88 (22%), Positives = 41/88 (46%), Gaps = 3/88 (3%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
            +      V  LP   T+ D++ +F    +++ V++ KD +T   KGF +V F + E   
Sbjct: 5   VQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQV 64

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDN 108
           + +    R  +DG      + + K++ +
Sbjct: 65  KVM--SQRHMIDGRWCDCKLPNSKQSQD 90

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 52.0 bits (124), Expect = 1e-10
 Identities = 14/79 (17%), Positives = 29/79 (36%), Gaps = 1/79 (1%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPEQK-LVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
            P    V N+P  ++  ++  FF   + +     +K  E     G   V F   +    A
Sbjct: 8   GPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAA 67

Query: 83  LLKDGRITVDGLQVRLDIA 101
           ++      +   +V+L + 
Sbjct: 68  VIDLNDRPIGSRKVKLVLG 86

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]} Length = 114

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 52.3 bits (125), Expect = 2e-10
 Identities = 21/99 (21%), Positives = 38/99 (38%), Gaps = 2/99 (2%)

Query: 20  LPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENL 79
           LP E     ++ NLP  IT  ++   F   K   +R ++   T   +G  YV + D+ + 
Sbjct: 2   LPPEVNRILYIRNLPYKITAEEMYDIF--GKYGPIRQIRVGNTPETRGTAYVVYEDIFDA 59

Query: 80  RQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
           + A        V    + +   +  R   K     K+ +
Sbjct: 60  KNACDHLSGFNVCNRYLVVLYYNANRAFQKMDTKKKEEQ 98

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 94

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 49.6 bits (118), Expect = 1e-09
 Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 5/86 (5%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKE-TDRFKGFCYVEFVDVENLR 80
           +      V N+P    Q ++   F    +L +VRL K    T   +GF +V+F+  ++ +
Sbjct: 6   QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAK 65

Query: 81  QAL--LKDGRITVDGLQVRLDIADGK 104
           +A   L      + G ++ L+ AD +
Sbjct: 66  KAFNALCHSTH-LYGRRLVLEWADSE 90

>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 = 49.1 bits (117), Expect = 1e-09
 Identities = 21/79 (26%), Positives = 39/79 (49%), Gaps = 3/79 (3%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           +VG+L   +T+  +   F P   ++S+R+ +D  T R  G+ YV F    +  +AL    
Sbjct: 4   YVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMN 63

Query: 88  RITVDGLQVRLDIADGKRN 106
              + G  VR+  +  +R+
Sbjct: 64  FDVIKGKPVRIMWS--QRD 80

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 49.4 bits (117), Expect = 2e-09
 Identities = 17/84 (20%), Positives = 37/84 (44%), Gaps = 4/84 (4%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLV--SVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           F+GNL   I +  +   F    ++  + ++++D +T   KG+ ++ F   +    A+   
Sbjct: 2   FIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAM 61

Query: 87  GRITVDGLQVRLDIADGKRNDNKG 110
               +    + +  A  K  D+KG
Sbjct: 62  NGQYLCNRPITVSYAFKK--DSKG 83

>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 = 47.3 bits (112), Expect = 8e-09
 Identities = 20/80 (25%), Positives = 35/80 (43%), Gaps = 1/80 (1%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+G LPN +    V+        L +  LVKD  T   KG+ + E+VD+    QA+    
Sbjct: 5   FIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLN 64

Query: 88  RITVDGLQVRLDIADGKRND 107
            + +   ++ +  A     +
Sbjct: 65  GMQLGDKKLLVQRASVGAKN 84

>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 = 47.6 bits (113), Expect = 8e-09
 Identities = 19/80 (23%), Positives = 32/80 (40%), Gaps = 1/80 (1%)

Query: 27  TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T +VGNL    T+  +   F     +  + +  DK      GFC+VE+    +   A+  
Sbjct: 9   TLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRY 68

Query: 86  DGRITVDGLQVRLDIADGKR 105
                +D   +R D   G +
Sbjct: 69  INGTRLDDRIIRTDWDAGFK 88

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 84

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 47.0 bits (111), Expect = 1e-08
 Identities = 21/80 (26%), Positives = 31/80 (38%), Gaps = 2/80 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           E     F+G L    T   +   F     L    +++D  T R +GF +V +  VE +  
Sbjct: 4   EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 63

Query: 82  ALLKDGRITVDGLQVRLDIA 101
           A+       VDG  V    A
Sbjct: 64  AMNARPH-KVDGRVVEPKRA 82

>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 = 46.1 bits (109), Expect = 2e-08
 Identities = 15/74 (20%), Positives = 30/74 (40%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
            V NL  G++  D++  F E   +    V    + R  G   V F    +  +A+ +   
Sbjct: 4   LVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNG 63

Query: 89  ITVDGLQVRLDIAD 102
           + +DG  + + +  
Sbjct: 64  VPLDGRPMNIQLVT 77

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.7 bits (110), Expect = 2e-08
 Identities = 28/82 (34%), Positives = 49/82 (59%), Gaps = 2/82 (2%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSV-RLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG L     +  +E+ F +   +S   +VKD+ET R +GF +V F ++++ + A++   
Sbjct: 9   FVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMN 68

Query: 88  RITVDGLQVRLDIADGKRNDNK 109
             +VDG Q+R+D A  K +DN+
Sbjct: 69  GKSVDGRQIRVDQAG-KSSDNR 89

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 46.3 bits (109), Expect = 3e-08
 Identities = 18/86 (20%), Positives = 34/86 (39%), Gaps = 1/86 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEFVDVENL 79
           P EP    ++ NL   +T+ D+   F   +      +     T R +G  ++ F + E  
Sbjct: 14  PGEPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIA 73

Query: 80  RQALLKDGRITVDGLQVRLDIADGKR 105
            QAL       + G  + ++    K+
Sbjct: 74  WQALHLVNGYKLYGKILVIEFGKNKK 99

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 77

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 45.0 bits (106), Expect = 6e-08
 Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 2/74 (2%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+G L    TQ  +  +F    ++    +++D  T R +GF +V F+D   + + L +  
Sbjct: 4   FIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR 63

Query: 88  RITVDGLQVRLDIA 101
              +D   +   +A
Sbjct: 64  H-ELDSKTIDPKVA 76

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.0 bits (106), Expect = 6e-08
 Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 2/74 (2%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG L     +  +  +F    ++ S+ L  D +T++ +GFC++ F + E +++ + K  
Sbjct: 3   FVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY 62

Query: 88  RITVDGLQVRLDIA 101
              V   +  + +A
Sbjct: 63  H-NVGLSKCEIKVA 75

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]} Length = 80

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 6e-08
 Identities = 16/79 (20%), Positives = 37/79 (46%), Gaps = 6/79 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-DG 87
           ++GNL   +T  D+ + F ++K     L    +     G+ +V++ D     +A+    G
Sbjct: 5   YIGNLSPAVTADDLRQLFGDRK-----LPLAGQVLLKSGYAFVDYPDQNWAIRAIETLSG 59

Query: 88  RITVDGLQVRLDIADGKRN 106
           ++ + G  + +D +  K+ 
Sbjct: 60  KVELHGKIMEVDYSVSKKL 78

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.6 bits (105), Expect = 8e-08
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 29 FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
          F+G L    T+ D++ +F    ++V   L  D  T R +GF +V F + E++ + + +  
Sbjct: 3  FIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKE 62

Query: 88 RITVDGLQVR 97
             ++G  + 
Sbjct: 63 H-KLNGKVID 71

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 8e-08
 Identities = 17/83 (20%), Positives = 37/83 (44%), Gaps = 5/83 (6%)

Query: 29  FVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKE-TDRFKGFCYVEFVDVENLRQAL-- 83
           F+G +P    + ++     +  + ++ V +        + +GF +VE+        A   
Sbjct: 5   FIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRK 64

Query: 84  LKDGRITVDGLQVRLDIADGKRN 106
           L  GRI + G Q+ +D A+ + +
Sbjct: 65  LMPGRIQLWGHQIAVDWAEPEID 87

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 91

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 44.9 bits (105), Expect = 8e-08
 Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 1/82 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
             P+  F+GNL    +  +++    E    +   V D  T   + F YV+F   E+L +A
Sbjct: 11  TTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTGTNRKFGYVDFESAEDLEKA 70

Query: 83  LLKDGRITVDGLQVRLDIADGK 104
           L   G   V G +++L+   G+
Sbjct: 71  LELTGL-KVFGNEIKLEKPKGR 91

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

 Score = 45.0 bits (106), Expect = 9e-08
 Identities = 17/85 (20%), Positives = 30/85 (35%), Gaps = 4/85 (4%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
                T    NL   IT+ +++  F +       +    +  + KG  Y+EF    +  +
Sbjct: 13  VRAARTLLAKNLSFNITEDELKEVFEDAL----EIRLVSQDGKSKGIAYIEFKSEADAEK 68

Query: 82  ALLKDGRITVDGLQVRLDIADGKRN 106
            L +     +DG  V L     K  
Sbjct: 69  NLEEKQGAEIDGRSVSLYYTGEKGG 93

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 45.1 bits (106), Expect = 1e-07
 Identities = 18/83 (21%), Positives = 36/83 (43%), Gaps = 2/83 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           E     F+G L    T+  +  ++ +  KL    +++D  + R +GF +V F  +  +  
Sbjct: 18  EQFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDA 77

Query: 82  ALLKDGRITVDGLQVRLDIADGK 104
           A+      ++DG  V    A  +
Sbjct: 78  AMAARPH-SIDGRVVEPKRAVAR 99

>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 = 44.6 bits (105), Expect = 1e-07
 Identities = 17/81 (20%), Positives = 33/81 (40%), Gaps = 4/81 (4%)

Query: 29  FVGNLPNGITQGDVERFF----PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           F+ NL    T+  ++  F      +     +           GF +VE+   E  ++AL 
Sbjct: 2   FIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALK 61

Query: 85  KDGRITVDGLQVRLDIADGKR 105
           +    TVDG ++ + I++   
Sbjct: 62  QLQGHTVDGHKLEVRISERAT 82

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 1e-07
 Identities = 17/86 (19%), Positives = 34/86 (39%), Gaps = 1/86 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
             P    V N+P      D+ + F +   + + +         KGF +V F +  +  +A
Sbjct: 9   STPKRLHVSNIPFRFRDPDLRQMFGQFGKI-LDVEIIFNERGSKGFGFVTFENSADADRA 67

Query: 83  LLKDGRITVDGLQVRLDIADGKRNDN 108
             K     V+G ++ ++ A  +   N
Sbjct: 68  REKLHGTVVEGRKIEVNNATARVMTN 93

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 44.7 bits (105), Expect = 1e-07
 Identities = 20/91 (21%), Positives = 38/91 (41%), Gaps = 1/91 (1%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
           +      FV NL    ++ D+E+ F     L  +    D  T + KGF +V F+  E+  
Sbjct: 5   SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAV 64

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
           +A  +       G  + +  +  K+  ++ G
Sbjct: 65  KAYAEVDGQVFQGRMLHVLPSTIKKEASQSG 95

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.6 bits (105), Expect = 1e-07
 Identities = 19/87 (21%), Positives = 40/87 (45%), Gaps = 1/87 (1%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                T +VG L   +++  +   F     +V+  + KD+ T + +G+ +VEF+  E+  
Sbjct: 6   RNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDAD 65

Query: 81  QALLKDGRITVDGLQVRLDIADGKRND 107
            A+     I + G  +R++ A     +
Sbjct: 66  YAIKIMDMIKLYGKPIRVNKASAHNKN 92

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.7 bits (105), Expect = 1e-07
 Identities = 19/81 (23%), Positives = 37/81 (45%), Gaps = 1/81 (1%)

Query: 27  TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
             +VG L   +    +   F P   +  +++  D ET++ +GF +VEF   E+   A+  
Sbjct: 7   VLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDN 66

Query: 86  DGRITVDGLQVRLDIADGKRN 106
                + G  +R+++A   R 
Sbjct: 67  MNESELFGRTIRVNLAKPMRI 87

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]} Length = 95

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 1e-07
 Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 2/84 (2%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
                 +VGNLP  I   D+E  F   K  ++R +  K       F +VEF D  +   A
Sbjct: 12  NNDCRIYVGNLPPDIRTKDIEDVF--YKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDA 69

Query: 83  LLKDGRITVDGLQVRLDIADGKRN 106
           +        DG ++R++     R 
Sbjct: 70  VYGRDGYDYDGYRLRVEFPRSGRG 93

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 44.3 bits (104), Expect = 2e-07
 Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 1/85 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           +   T  V NL     + D++  F P   +  + L KDK T + KGF ++ F   E+  +
Sbjct: 6   DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAAR 65

Query: 82  ALLKDGRITVDGLQVRLDIADGKRN 106
           A+        D L + ++ A    N
Sbjct: 66  AIAGVSGFGYDHLILNVEWAKPSTN 90

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.9 bits (103), Expect = 2e-07
 Identities = 19/83 (22%), Positives = 36/83 (43%), Gaps = 6/83 (7%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
           FVG     +T+ ++  FF +       ++       F+ F +V F D +  +    +D  
Sbjct: 9   FVGRCTGDMTEDELREFFSQYG----DVMDVFIPKPFRAFAFVTFADDQIAQSLCGED-- 62

Query: 89  ITVDGLQVRLDIADGKRNDNKGG 111
           + + G+ V +  A+ K N N G 
Sbjct: 63  LIIKGISVHISNAEPKHNSNSGP 85

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 43.5 bits (102), Expect = 2e-07
 Identities = 13/82 (15%), Positives = 33/82 (40%), Gaps = 5/82 (6%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
             +V NL    ++  +E+ F        +    +   + + + +V F + E+  +A+   
Sbjct: 10  ILYVRNLMLSTSEEMIEKEFNNI-----KPGAVERVKKIRDYAFVHFSNREDAVEAMKAL 64

Query: 87  GRITVDGLQVRLDIADGKRNDN 108
               +DG  + + +A     D+
Sbjct: 65  NGKVLDGSPIEVTLAKPVDKDS 86

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 43.6 bits (102), Expect = 3e-07
 Identities = 22/94 (23%), Positives = 43/94 (45%), Gaps = 9/94 (9%)

Query: 20  LPTEPP--YTAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDV 76
           LP++     T F+ NL     +  +         L  VR+V   +T+  KG  + +F+  
Sbjct: 1   LPSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQ 60

Query: 77  ENLRQAL------LKDGRITVDGLQVRLDIADGK 104
           E  ++ L       + G + +DG Q+++D+A  +
Sbjct: 61  EAAQKCLAAASLEAEGGGLKLDGRQLKVDLAVTR 94

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 42.8 bits (100), Expect = 3e-07
 Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 2/74 (2%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG L    T  DV+ +F +  K+    L+ DK T+R +GF +V F   + + +      
Sbjct: 3   FVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHF 62

Query: 88  RITVDGLQVRLDIA 101
              ++   V    A
Sbjct: 63  H-EINNKMVECKKA 75

>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 = 42.7 bits (100), Expect = 5e-07
 Identities = 13/85 (15%), Positives = 33/85 (38%), Gaps = 2/85 (2%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPE--QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           P +T ++ NL   I + ++++       +   +  +    + + +G  +V F +V +   
Sbjct: 2   PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSRSLKMRGQAFVIFKEVSSATN 61

Query: 82  ALLKDGRITVDGLQVRLDIADGKRN 106
           AL            +R+  A    +
Sbjct: 62  ALRSMQGFPFYDKPMRIQYAKTDSD 86

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.5 bits (100), Expect = 7e-07
 Identities = 23/98 (23%), Positives = 42/98 (42%), Gaps = 8/98 (8%)

Query: 14  GRNQKTLPTEPPYTAFVGNL-PNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVE 72
           G + KT P       F+GNL    + + DVE  F +   +             KGF +V+
Sbjct: 4   GSSGKTDPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKI-------VGCSVHKGFAFVQ 56

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKG 110
           +V+  N R A+  +    + G  + +++A   + +  G
Sbjct: 57  YVNERNARAAVAGEDGRMIAGQVLDINLAAEPKVNRSG 94

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (99), Expect = 1e-06
 Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 2/98 (2%)

Query: 14  GRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEF 73
           G +  +  +   +   +  LP   T+ D+  FF     + V +    +  R  G   VEF
Sbjct: 4   GSSGSSFQSTTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGPDG-RVTGEADVEF 62

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKGG 111
              E+   A+ KD    +    V L +         G 
Sbjct: 63  ATHEDAVAAMAKDKA-NMQHRYVELFLNSTAGTSGSGP 99

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 79

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 1e-06
 Identities = 15/74 (20%), Positives = 38/74 (51%), Gaps = 2/74 (2%)

Query: 29  FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG +     +  +  +F +  K+  + ++ D+ + + +GF +V F D +++ + +++  
Sbjct: 6   FVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY 65

Query: 88  RITVDGLQVRLDIA 101
             TV+G    +  A
Sbjct: 66  -HTVNGHNCEVRKA 78

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 41.7 bits (97), Expect = 1e-06
 Identities = 12/79 (15%), Positives = 28/79 (35%), Gaps = 4/79 (5%)

Query: 29  FVGNLPNGITQGDVERFFPEQ---KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
            + NL   +   ++ R   E              KE        ++ F + ++  +AL  
Sbjct: 8   MIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQM 67

Query: 86  DGRITVDGLQVRLDIADGK 104
           +    +   ++ + +AD K
Sbjct: 68  NRS-LLGNREISVSLADKK 85

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 1e-06
 Identities = 19/76 (25%), Positives = 40/76 (52%), Gaps = 1/76 (1%)

Query: 23 EPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
          +P     V  L    T+ D+   F +   +  V +V D+++ R +GF +V F +V++ ++
Sbjct: 7  DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKE 66

Query: 82 ALLKDGRITVDGLQVR 97
          A  +   + +DG ++R
Sbjct: 67 AKERANGMELDGRRIR 82

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.6 bits (97), Expect = 2e-06
 Identities = 14/73 (19%), Positives = 33/73 (45%), Gaps = 1/73 (1%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           +V  LP  +TQ ++E+ F    ++++ R++ D+ T   +G  ++ F       +A+    
Sbjct: 10  YVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLN 69

Query: 88  RITVDGLQVRLDI 100
                G    + +
Sbjct: 70  GQKPSGATEPITV 82

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.8 bits (97), Expect = 2e-06
 Identities = 16/101 (15%), Positives = 37/101 (36%), Gaps = 2/101 (1%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEFVDVENL 79
                  A + N+P  IT+ DV +F     +  +   V      +  G   V+F + ++ 
Sbjct: 4   VNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDA 63

Query: 80  RQALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGG 120
           R++     +  ++G +  + +   +           Q + G
Sbjct: 64  RKSERLHRK-KLNGREAFVHVVTLEDMREIEKNPPAQGKSG 103

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 41.3 bits (96), Expect = 3e-06
 Identities = 28/97 (28%), Positives = 48/97 (49%), Gaps = 6/97 (6%)

Query: 27  TAFVGNLPNGITQGDV-ERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           + FVGN+P   T+  + + F     +VS RLV D+ET + KG+ + E+ D E    A+  
Sbjct: 10  SVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRN 69

Query: 86  DGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGS 122
                  G  +R+D A  ++N  +      ++ G G+
Sbjct: 70  LNGREFSGRALRVDNAASEKNKEE-----LKSLGTGA 101

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 103

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.9 bits (95), Expect = 4e-06
 Identities = 20/98 (20%), Positives = 42/98 (42%), Gaps = 9/98 (9%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           FVG LP   T   + ++F     +    ++ D++T + +G+ +V   D     +A  KD 
Sbjct: 14  FVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERA-CKDP 72

Query: 88  RITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSGGM 125
              +DG +  +++A             +  + G + G+
Sbjct: 73  NPIIDGRKANVNLAYLGAKP-------RSLQTGFAIGV 103

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (94), Expect = 4e-06
 Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 1/84 (1%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
             P T +VGNL   +T+  +      Q           E      +C+VEF +  +   A
Sbjct: 6   GQPRTLYVGNLSRDVTEVLI-LQLFSQIGPCKSCKMITEHTSNDPYCFVEFYEHRDAAAA 64

Query: 83  LLKDGRITVDGLQVRLDIADGKRN 106
           L       + G +V+++ A    +
Sbjct: 65  LAAMNGRKILGKEVKVNWATTPSS 88

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 90

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.7 bits (92), Expect = 7e-06
 Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 7/75 (9%)

Query: 29 FVGNLPNGITQGDVERFFPEQ------KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
          +VGN+P GIT+  +  FF  Q             V   + ++ K F ++EF  V+   QA
Sbjct: 5  YVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQA 64

Query: 83 LLKDGRITVDGLQVR 97
          +  DG I   G  ++
Sbjct: 65 MAFDG-IIFQGQSLK 78

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 89

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.2 bits (91), Expect = 1e-05
 Identities = 14/78 (17%), Positives = 33/78 (42%), Gaps = 3/78 (3%)

Query: 29  FVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           F+ NL   I    +   F     ++S ++V D+   +   + +V F   E   +A+ K  
Sbjct: 12  FIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENGSKG--YGFVHFETQEAAERAIEKMN 69

Query: 88  RITVDGLQVRLDIADGKR 105
            + ++  +V +     ++
Sbjct: 70  GMLLNDRKVFVGRFKSRK 87

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 39.2 bits (91), Expect = 1e-05
 Identities = 16/74 (21%), Positives = 36/74 (48%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
            V  LP  +T  ++   F     + + R+++D +T    G+ +V+F    + ++A+    
Sbjct: 6   IVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLN 65

Query: 88  RITVDGLQVRLDIA 101
            ITV   ++++  A
Sbjct: 66  GITVRNKRLKVSYA 79

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 39.2 bits (91), Expect = 1e-05
 Identities = 18/73 (24%), Positives = 35/73 (47%), Gaps = 1/73 (1%)

Query: 29  FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
           +V NLP  IT   ++  F +   +V   +++DK T R +G  +V +   E  ++A+    
Sbjct: 10  YVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALN 69

Query: 88  RITVDGLQVRLDI 100
            +  +G    L +
Sbjct: 70  NVIPEGGSQPLSV 82

>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 = 38.9 bits (90), Expect = 1e-05
 Identities = 14/80 (17%), Positives = 34/80 (42%), Gaps = 1/80 (1%)

Query: 26  YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
           +  FV ++     + +++  F +  ++ ++ L  D+ T   KG+  VE+   +    A  
Sbjct: 8   WILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKE 67

Query: 85  KDGRITVDGLQVRLDIADGK 104
                 + G  +++D    K
Sbjct: 68  ALNGAEIMGQTIQVDWCFVK 87

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.4 bits (93), Expect = 1e-05
 Identities = 16/62 (25%), Positives = 27/62 (43%), Gaps = 1/62 (1%)

Query: 23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
          E     F+G L    T   +   F +   L    +++D  T R +GF +V +  VE +  
Sbjct: 4  EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDA 63

Query: 82 AL 83
          A+
Sbjct: 64 AM 65

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.5 bits (89), Expect = 2e-05
 Identities = 17/74 (22%), Positives = 37/74 (50%), Gaps = 1/74 (1%)

Query: 29  FVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDG 87
            V  LP  +TQ +    F    ++ S +LV+DK T +  G+ +V ++D ++  +A+    
Sbjct: 6   IVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLN 65

Query: 88  RITVDGLQVRLDIA 101
            + +    +++  A
Sbjct: 66  GLRLQTKTIKVSYA 79

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]} Length = 101

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 2e-05
 Identities = 19/95 (20%), Positives = 34/95 (35%), Gaps = 9/95 (9%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFF---------PEQKLVSVRLVKDKETDRFKGFCYVEF 73
                 +V  L + +T  D+  FF                + +  DKET + KG   V +
Sbjct: 6   SDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSY 65

Query: 74  VDVENLRQALLKDGRITVDGLQVRLDIADGKRNDN 108
            D    + A+         G ++++ +A  K   N
Sbjct: 66  EDPPTAKAAVEWFDGKDFQGSKLKVSLARKKPPMN 100

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]} Length = 96

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 38.8 bits (90), Expect = 2e-05
 Identities = 16/81 (19%), Positives = 36/81 (44%), Gaps = 7/81 (8%)

Query: 27  TAFVGNLPNGITQGDVERFF-PEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLK 85
           T + G + +G+T   + + F P  +++ +R+         KG+ +V F   E+   A++ 
Sbjct: 20  TVYCGGIASGLTDQLMRQTFSPFGQIMEIRVF------PEKGYSFVRFSTHESAAHAIVS 73

Query: 86  DGRITVDGLQVRLDIADGKRN 106
               T++G  V+        +
Sbjct: 74  VNGTTIEGHVVKCYWGKESPD 94

>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 = 38.0 bits (88), Expect = 3e-05
 Identities = 17/78 (21%), Positives = 33/78 (42%), Gaps = 5/78 (6%)

Query: 29  FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
           FVGNLP  IT+ ++ + F +          +    + KGF ++          A ++   
Sbjct: 12  FVGNLPPDITEEEMRKLFEK-----YGKAGEVFIHKDKGFGFIRLETRTLAEIAKVELDN 66

Query: 89  ITVDGLQVRLDIADGKRN 106
           + + G Q+R+  A    +
Sbjct: 67  MPLRGKQLRVRFACHSAS 84

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 102

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 37.8 bits (87), Expect = 5e-05
 Identities = 17/87 (19%), Positives = 40/87 (45%), Gaps = 2/87 (2%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQA 82
                F+ +LP      D+ + F     +VS ++  DK+T+  K F +V + +  + + A
Sbjct: 17  EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAA 76

Query: 83  LLKDGRITVDGLQVRLDIADGKRNDNK 109
           +       +   ++++ +    +ND+K
Sbjct: 77  IQSMNGFQIGMKRLKVQLKR-SKNDSK 102

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.7 bits (84), Expect = 8e-05
 Identities = 11/78 (14%), Positives = 31/78 (39%), Gaps = 1/78 (1%)

Query: 26  YTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL 84
            T ++ N P   TQ ++     +   +     +     +  + F Y++    E+ R  + 
Sbjct: 2   CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVE 61

Query: 85  KDGRITVDGLQVRLDIAD 102
           K   + ++G  +   +++
Sbjct: 62  KLNGLKIEGYTLVTKVSN 79

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.6 bits (84), Expect = 1e-04
 Identities = 12/76 (15%), Positives = 30/76 (39%), Gaps = 1/76 (1%)

Query: 27  TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
           + ++   P   T  D++ +  ++  V    ++      FKG  +V F  +E+ ++ +   
Sbjct: 8   SVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP 67

Query: 87  GRITVDGLQVRLDIAD 102
           G        + +   D
Sbjct: 68  G-QKYKETDLLILFKD 82

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.5 bits (84), Expect = 1e-04
 Identities = 11/69 (15%), Positives = 24/69 (34%), Gaps = 6/69 (8%)

Query: 29 FVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGR 88
           V   P       + +F     ++   +           + ++ +      R+AL KDGR
Sbjct: 8  TVFGFPQASASYILLQFAQYGNILKHVMSNTG------NWMHIRYQSKLQARKALSKDGR 61

Query: 89 ITVDGLQVR 97
          I  + + + 
Sbjct: 62 IFGESIMIG 70

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 36.0 bits (82), Expect = 1e-04
 Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 2/73 (2%)

Query: 27 TAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKD 86
          T  V NLP    Q  V ++F     +    V      +   F  +EF   +    A+ K 
Sbjct: 2  TVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVA-DSLKKNFRFARIEFARYDGALAAITKT 60

Query: 87 GRITVDGLQVRLD 99
           +  V   ++ + 
Sbjct: 61 HK-VVGQNEIIVS 72

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.4 bits (84), Expect = 2e-04
 Identities = 11/58 (18%), Positives = 16/58 (27%), Gaps = 1/58 (1%)

Query: 49  QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGKRN 106
            K   +R +         G   V F D E     +         G Q+     DG  +
Sbjct: 41  SKFGQIRKLLLF-DRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDGTTD 97

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]} Length = 139

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

 Score = 36.8 bits (84), Expect = 2e-04
 Identities = 18/102 (17%), Positives = 43/102 (42%), Gaps = 5/102 (4%)

Query: 23  EPPYTAFVGNLPNGITQGDVERFFPE-QKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           +      V  +P  + +  + + F     + SV++V D+ET + +G+ +V+F    + +Q
Sbjct: 40  DVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQ 99

Query: 82  ALLKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRGGGSG 123
           A+       +   ++++ +A                 G G+G
Sbjct: 100 AIAGLNGFNILNKRLKVALAASGHQRPGIA----GAVGDGNG 137

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]} Length = 98

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 36.3 bits (83), Expect = 2e-04
 Identities = 13/90 (14%), Positives = 24/90 (26%), Gaps = 6/90 (6%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                +   V  LP   +  D++    E               +  G   VE++  E++ 
Sbjct: 11  TRRSDFRVLVSGLPPSGSWQDLKDHMREAG------DVCYADVQKDGMGMVEYLRKEDME 64

Query: 81  QALLKDGRITVDGLQVRLDIADGKRNDNKG 110
            AL K         +            + G
Sbjct: 65  YALRKLDDTKFRSHEGETSYIRVYPERSSG 94

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.5 bits (81), Expect = 4e-04
 Identities = 16/101 (15%), Positives = 34/101 (33%), Gaps = 9/101 (8%)

Query: 21  PTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLR 80
                    V  L   + + D+     +        +       FK    VEF ++++ +
Sbjct: 11  KVSVSPVVHVRGLCESVVEADLVEALEKF-----GTICYVMMMPFKRQALVEFENIDSAK 65

Query: 81  QAL--LKDGRITVDGLQVRLDIADGKRNDNKGGFNNKQNRG 119
           + +    D  + + G Q   + +  KR    G  N+  + G
Sbjct: 66  ECVTFAADVPVYIAGQQAFFNYSTSKRITRPG--NSGPSSG 104

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.2 bits (80), Expect = 5e-04
 Identities = 8/88 (9%), Positives = 23/88 (26%)

Query: 22  TEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQ 81
           +            + +      R   E    +       +  +      + F +  +   
Sbjct: 2   SSGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKSFKRVRINFSNPLSAAD 61

Query: 82  ALLKDGRITVDGLQVRLDIADGKRNDNK 109
           A L+  +    G +++L  A      + 
Sbjct: 62  ARLRLHKTEFLGKEMKLYFAQTLHIGSS 89

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 88

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.7 bits (79), Expect = 6e-04
 Identities = 14/79 (17%), Positives = 30/79 (37%), Gaps = 4/79 (5%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
           P  T  + N+P  +++ D++  F     V   +   K   + +    ++   VE   QAL
Sbjct: 9   PSATLHLSNIPPSVSEEDLKVLFSSNGGV---VKGFKFFQKDRKMALIQMGSVEEAVQAL 65

Query: 84  -LKDGRITVDGLQVRLDIA 101
                    +   +R+  +
Sbjct: 66  IDLHNHDLGENHHLRVSFS 84

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]} Length = 97

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.9 bits (77), Expect = 0.001
 Identities = 17/98 (17%), Positives = 34/98 (34%), Gaps = 11/98 (11%)

Query: 13  YGRNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVE 72
           YG+        P    +VG L    +   + R F          ++  +  +   F Y++
Sbjct: 11  YGKAN------PTTRLWVGGLGPNTSLAALAREFDRF-----GSIRTIDHVKGDSFAYIQ 59

Query: 73  FVDVENLRQALLKDGRITVDGLQVRLDIADGKRNDNKG 110
           +  ++  + A  K     + G   RL +   K   + G
Sbjct: 60  YESLDAAQAACAKMRGFPLGGPDRRLRVDFAKSGPSSG 97

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]} Length = 72

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.2 bits (75), Expect = 0.002
 Identities = 14/71 (19%), Positives = 30/71 (42%), Gaps = 3/71 (4%)

Query: 29 FVGNLPNGITQGDVERFFPEQKLV-SVRLVKDKETDRFKGFCYVEFVDVENLRQALLK-D 86
          ++  L  G T  D+ +       + S + + DK T++ KG+ +V+F      ++A+    
Sbjct: 2  YIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALK 61

Query: 87 GRITVDGLQVR 97
              V     +
Sbjct: 62 AS-GVQAQMAK 71

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 108

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 33.5 bits (76), Expect = 0.002
 Identities = 19/97 (19%), Positives = 38/97 (39%), Gaps = 7/97 (7%)

Query: 24  PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQAL 83
           P     V NL   +T   + + F +   V   +         +    +++ D  + + A 
Sbjct: 6   PVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFT---KNNQFQALLQYADPVSAQHAK 62

Query: 84  LK-DGR-ITVDGLQVRLDIADGKRNDNKGGFNNKQNR 118
           L  DG+ I      +R+D +     + K  +NN ++R
Sbjct: 63  LSLDGQNIYNACCTLRIDFSKLTSLNVK--YNNDKSR 97

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	137
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.86
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.86
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.86
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.85
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.85
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.85
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.85
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.85
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.85
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.84
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.84
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.83
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.83
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.83
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.83
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.82
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.82
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.82
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.82
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.81
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.81
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.81
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.81
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.81
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.81
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.81
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.81
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.81
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.8
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.8
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.8
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.8
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.8
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.8
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.79
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.79
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.79
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.78
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.78
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.78
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.77
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.77
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.77
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.77
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.76
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.76
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.75
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.75
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.75
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.74
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.73
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.72
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.72
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.72
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.72
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.72
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.72
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.72
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.72
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.71
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.71
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.71
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.7
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.69
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.69
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.69
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.69
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.69
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.68
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.68
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.68
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.67
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.67
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.67
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.65
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.63
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.57
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.5
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.49
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	99.35
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.32
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.32
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	99.3
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	99.24
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.13
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	97.71
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	96.81
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	96.48
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	96.19

>d1whwa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.86  E-value=3.2e-21  Score=118.24  Aligned_cols=84  Identities=25%  Similarity=0.319  Sum_probs=78.7

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+|||+.+++++|+++|.+| .|..|.++.++.++.+++||||+|.+.++|+.||. |++ ..|+|+.|+|.+
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g-~~~~gr~i~V~~   84 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDG-QVFQGRMLHVLP   84 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTT-EESSSCEEEEEE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            456789999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCCCC
Q psy13181        101 ADGKRND  107 (137)
Q Consensus       101 a~~~~~~  107 (137)
                      +.++...
T Consensus        85 a~~~~~~   91 (99)
T d1whwa_          85 STIKKEA   91 (99)
T ss_dssp             CCCCSTT
T ss_pred             CCCCCcc
Confidence            9977643

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=8.4e-21  Score=114.45  Aligned_cols=82  Identities=26%  Similarity=0.388  Sum_probs=77.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+|||+|||.++++++|+++|++| .|..+.++.++.++.++|||||+|.+.++|.+|++ |++ ..|+|+.|.|.+
T Consensus         6 ~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~l~g-~~~~g~~i~v~~   84 (90)
T d2cq0a1           6 DDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDKTTGQSKGFAFISFHRREDAARAIAGVSG-FGYDHLILNVEW   84 (90)
T ss_dssp             SSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHHTTT-CEETTEECEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccccccccccceeEEECCHHHHHHHHHHhCC-CEECCEEEEEEe
Confidence            345789999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      |+|++
T Consensus        85 akp~~   89 (90)
T d2cq0a1          85 AKPST   89 (90)
T ss_dssp             SSCCC
T ss_pred             eeCCC
Confidence            99875

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.86  E-value=5.2e-21  Score=116.04  Aligned_cols=86  Identities=23%  Similarity=0.409  Sum_probs=80.1

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ..+++|||+|||.++++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|..|+. |++ ..|+|+.|.|.+
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g-~~~~gr~i~V~~   83 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYING-TRLDDRIIRTDW   83 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTT-SEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEE
Confidence            456799999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCCCCCCC
Q psy13181        101 ADGKRNDNK  109 (137)
Q Consensus       101 a~~~~~~~~  109 (137)
                      +.+....++
T Consensus        84 a~~~~~grq   92 (93)
T d1h2vz_          84 DAGFKEGRQ   92 (93)
T ss_dssp             ESCCCTTCC
T ss_pred             cCCCCCCCC
Confidence            987665554

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.85  E-value=3e-21  Score=114.43  Aligned_cols=78  Identities=22%  Similarity=0.401  Sum_probs=74.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      .++|||+|||+++++++|+++|++| .|..+.+++++.++.+++||||+|.+.++|++|+. |++ ..|.++.|+|.+|+
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng-~~~~g~~l~v~~a~   80 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNG-ITVRNKRLKVSYAR   80 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCC-CEECCEEEEEEEcC
Confidence            4689999999999999999999999 99999999999999999999999999999999999 999 99999999999987


Q ss_pred             C
Q psy13181        103 G  103 (137)
Q Consensus       103 ~  103 (137)
                      |
T Consensus        81 p   81 (82)
T d1b7fa1          81 P   81 (82)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=6e-21  Score=117.62  Aligned_cols=83  Identities=19%  Similarity=0.345  Sum_probs=78.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      +..+|||+|||+++++++|+++|++| .+..+.++.++.++.++|+|||+|.+.++|+.||. |++ ..|.|+.|+|+++
T Consensus        17 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng-~~~~g~~i~V~~a   95 (102)
T d2cpza1          17 EGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNG-FQIGMKRLKVQLK   95 (102)
T ss_dssp             TTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTT-CEETTEECEEECC
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCC-CEECCEEEEEEEe
Confidence            45789999999999999999999999 99999999999999999999999999999999998 999 9999999999999


Q ss_pred             CCCCCC
Q psy13181        102 DGKRND  107 (137)
Q Consensus       102 ~~~~~~  107 (137)
                      .++...
T Consensus        96 ~~k~~~  101 (102)
T d2cpza1          96 RSKNDS  101 (102)
T ss_dssp             CCSCCC
T ss_pred             CCCCCC
Confidence            987654

>d1x5ua1 d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3.5e-21  Score=116.80  Aligned_cols=82  Identities=24%  Similarity=0.420  Sum_probs=77.9

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|++| .|..+.+++++.|+.++|||||+|.+.++|++|+. |++ ..|+|+.|+|.+|
T Consensus         8 ~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~~A   86 (93)
T d1x5ua1           8 QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDM-IKLYGKPIRVNKA   86 (93)
T ss_dssp             TTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSS-CBCSSCBCEEEET
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCC-CEECCEEEEEEEc
Confidence            35799999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .++.+
T Consensus        87 ~~~~~   91 (93)
T d1x5ua1          87 SAHNK   91 (93)
T ss_dssp             TTTSC
T ss_pred             CCCCC
Confidence            88764

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.85  E-value=1.2e-20  Score=122.21  Aligned_cols=82  Identities=20%  Similarity=0.391  Sum_probs=77.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||+++++++|+++|++| .|..|.++.++.|++++|||||+|.+.++|..||. ||+ ..|+|+.|+|.++
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng-~~~~gr~l~V~~a  119 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNG-FNILNKRLKVALA  119 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTT-EECSSCEEEEEES
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCC-CEECCEEEEEEEc
Confidence            34689999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .++..
T Consensus       120 ~~~~~  124 (139)
T d1u6fa1         120 ASGHQ  124 (139)
T ss_dssp             SCCCC
T ss_pred             CCCCC
Confidence            86654

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.85  E-value=4.9e-21  Score=115.06  Aligned_cols=81  Identities=19%  Similarity=0.279  Sum_probs=76.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.+++++.++++++||||+|.+.++|+.|+. ||+ ..|+|+.|.|++
T Consensus         5 ~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng-~~l~g~~l~V~~   83 (88)
T d1rk8a_           5 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNG-AEIMGQTIQVDW   83 (88)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            346899999999999999999999999 99999999999999999999999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      |.++
T Consensus        84 a~~k   87 (88)
T d1rk8a_          84 CFVK   87 (88)
T ss_dssp             SEEC
T ss_pred             ecCC
Confidence            9765

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.85  E-value=3.7e-21  Score=115.78  Aligned_cols=81  Identities=22%  Similarity=0.381  Sum_probs=77.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||+++++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|++|+. |++ ..|+|+.|.|.+|
T Consensus         4 ~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~-~~i~g~~l~v~~a   82 (89)
T d2cqba1           4 TKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNE-SELFGRTIRVNLA   82 (89)
T ss_dssp             CCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTT-EEETTEEEEEEEC
T ss_pred             CCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCC-CEECCEEEEEEEe
Confidence            45799999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .+++
T Consensus        83 ~p~~   86 (89)
T d2cqba1          83 KPMR   86 (89)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8764

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=1.2e-20  Score=111.80  Aligned_cols=77  Identities=23%  Similarity=0.450  Sum_probs=74.2

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      ++|||+|||.++++++|+++|++| .|..|.++++..++..++||||+|.+.++|+.|+. |++ ..|+|+.|.|.+|+|
T Consensus         3 t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g-~~~~g~~l~v~~AkP   81 (82)
T d1fxla1           3 TNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNG-LRLQTKTIKVSYARP   81 (82)
T ss_dssp             SEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CEETTEECEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEeeC
Confidence            579999999999999999999999 99999999999999999999999999999999999 999 999999999999976

>d2cqda1 d.58.7.1 (A:1-103) RNA-binding region containing protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding region containing protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.84  E-value=3.7e-20  Score=114.21  Aligned_cols=83  Identities=19%  Similarity=0.366  Sum_probs=75.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||+.+++++|+++|++| .|.+|.++.++.|+.+++||||+|.+.++|++||+ ++  ..|+|+.|.|.++
T Consensus         9 ~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~--~~l~Gr~l~V~~a   86 (103)
T d2cqda1           9 TFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPN--PIIDGRKANVNLA   86 (103)
T ss_dssp             SSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSS--CEETTEECEEEES
T ss_pred             CCcEEEEeCCCCcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCC--CcCCCEEEEEEEc
Confidence            44689999999999999999999999 99999999999999999999999999999999999 76  4689999999999


Q ss_pred             CCCCCCC
Q psy13181        102 DGKRNDN  108 (137)
Q Consensus       102 ~~~~~~~  108 (137)
                      ..+.+.+
T Consensus        87 ~~~~~pr   93 (103)
T d2cqda1          87 YLGAKPR   93 (103)
T ss_dssp             TTTCCCC
T ss_pred             CCCCCCC
Confidence            8665443

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=8.4e-21  Score=113.30  Aligned_cols=80  Identities=26%  Similarity=0.446  Sum_probs=76.0

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      .+|||+|||..+++++|+++|++| .|..+.+++++.|+.+++||||+|.+.++|..|+. |++ ..|.|++|.|.+|.+
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~-~~l~g~~l~V~~A~~   80 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNG-MQLGDKKLLVQRASV   80 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSS-CCCSSSCCEEEECCC
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEECCC
Confidence            579999999999999999999999 99999999999999999999999999999999999 999 999999999999986


Q ss_pred             CCC
Q psy13181        104 KRN  106 (137)
Q Consensus       104 ~~~  106 (137)
                      ..+
T Consensus        81 ~~~   83 (85)
T d2u2fa_          81 GAK   83 (85)
T ss_dssp             CCC
T ss_pred             CCC
Confidence            543

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.8e-20  Score=110.59  Aligned_cols=75  Identities=25%  Similarity=0.403  Sum_probs=72.8

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      +|||+|||+.+++++|+++|++| .|..|.+++++.+++++++|||+|.+.++|..|++ |++ ..|.|++|+|.+++
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g-~~~~gr~i~v~~a~   78 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNF-DVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTT-CEETTEECEEEECC
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCC-CEECCEEEEEEEeC
Confidence            69999999999999999999999 99999999999999999999999999999999999 999 99999999999985

>d1x4ba1 d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucleoproteins A2/B1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins A2/B1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=1.7e-20  Score=115.71  Aligned_cols=82  Identities=21%  Similarity=0.383  Sum_probs=77.5

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||+++++++|+++|.+| .|..+.+++++.++.++|||||+|.+.++|.+||.+++ ..|+|+.|.|.+|.+
T Consensus        20 ~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~~~~-~~l~G~~i~V~~a~~   98 (103)
T d1x4ba1          20 FRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAARP-HSIDGRVVEPKRAVA   98 (103)
T ss_dssp             HTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTSCS-EEETTEEEEEECCSS
T ss_pred             CCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHHhCC-CeECCEEEEEEECcc
Confidence            3789999999999999999999999 99999999999999999999999999999999999998 999999999999998


Q ss_pred             CCCC
Q psy13181        104 KRND  107 (137)
Q Consensus       104 ~~~~  107 (137)
                      +...
T Consensus        99 ke~~  102 (103)
T d1x4ba1          99 REES  102 (103)
T ss_dssp             CCCC
T ss_pred             cCCC
Confidence            7654

>d1l3ka1 d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.83  E-value=2.7e-20  Score=110.85  Aligned_cols=78  Identities=26%  Similarity=0.368  Sum_probs=74.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      ..++|||+|||..+++++|+++|++| .|..+.++.++.+++++|||||+|.+.+.+++|+.+++ ..|+|+.|+|+.|.
T Consensus         5 ~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~~~~-~~i~Gr~i~V~~A~   83 (84)
T d1l3ka1           5 QLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARP-HKVDGRVVEPKRAV   83 (84)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCS-CEETTEECEEEECC
T ss_pred             CCcEEEEECCCCCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHHhCC-CEECCEEEEEEeee
Confidence            34789999999999999999999999 99999999999999999999999999999999999888 89999999999875

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=4.7e-20  Score=109.48  Aligned_cols=75  Identities=27%  Similarity=0.480  Sum_probs=71.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      .+.++|||+|||..+++++|+++|++| .|..|.+++++.+++++++|||+|.+.++|..|+. |++ ..|+|++|+|
T Consensus         7 ~~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~gr~i~V   83 (83)
T d2cqca1           7 DPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANG-MELDGRRIRV   83 (83)
T ss_dssp             CGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTT-EEETTEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCC-CEECCEEeEC
Confidence            345789999999999999999999999 99999999999999999999999999999999999 999 9999999987

>d1wi8a_ d.58.7.1 (A:) Eukaryotic translation initiation factor 4B {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 4B
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.5e-19  Score=111.52  Aligned_cols=88  Identities=38%  Similarity=0.741  Sum_probs=75.5

Q ss_pred             CCCCCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecC-CCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEE
Q psy13181         19 TLPTEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDK-ETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVR   97 (137)
Q Consensus        19 ~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~-~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~   97 (137)
                      ..|..++++|||+|||+.+++++|+++|+.|.+..+.++.+. .++.++++|||+|.+.++|++|+.|++ ..|+++.|+
T Consensus         9 ~~p~~p~~~v~V~nLp~~~te~~l~~~f~~~g~~~~~~~~~~~~~g~~~g~afV~f~~~e~a~~~~~~~~-~~~~gr~l~   87 (104)
T d1wi8a_           9 RLPKSPPYTAFLGNLPYDVTEESIKEFFRGLNISAVRLPREPSNPERLKGFGYAEFEDLDSLLSALSLNE-ESLGNKRIR   87 (104)
T ss_dssp             CCCSSSCEEEEEESCCSSCCHHHHHHHTTTSCEEEEECCBCSSCTTSBCSCEEEEESSHHHHHHHHGGGT-CEETTEECE
T ss_pred             CCCCCCCCEEEEeCCCCcCCHHHHHHHHHHhccccceeeeeeccCCCcceeeeEEECCHHHHHHHHHcCC-CEECCEEEE
Confidence            344556799999999999999999999999976677666654 468889999999999999998877999 999999999


Q ss_pred             EEecCCCCCC
Q psy13181         98 LDIADGKRND  107 (137)
Q Consensus        98 v~~a~~~~~~  107 (137)
                      |.++.++...
T Consensus        88 V~~a~~~~~~   97 (104)
T d1wi8a_          88 VDVADQAQDK   97 (104)
T ss_dssp             EEECCCCCCC
T ss_pred             EEECCCCCCC
Confidence            9999876543

>d1x5sa1 d.58.7.1 (A:8-97) Cold-inducible RNA-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cold-inducible RNA-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.2e-20  Score=113.61  Aligned_cols=84  Identities=31%  Similarity=0.580  Sum_probs=78.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||+.+++++|+++|++| .|..+.++.+..++.++|+|||+|.+.++|+.|+. |++ ..|.|+.|.|.++
T Consensus         4 ~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~~~a~~Ai~~l~~-~~~~g~~l~V~~a   82 (90)
T d1x5sa1           4 DEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVKDRETQRSRGFGFVTFENIDDAKDAMMAMNG-KSVDGRQIRVDQA   82 (90)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECCCSSSCSCCSEEEEECSSHHHHHHHHHHHTT-CCTTSCCCEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccceeeccccccccccceEEEEECCHHHHHHHHHHcCC-CEECCEEEEEEEc
Confidence            45689999999999999999999999 99999999998999999999999999999999999 999 9999999999999


Q ss_pred             CCCCCCC
Q psy13181        102 DGKRNDN  108 (137)
Q Consensus       102 ~~~~~~~  108 (137)
                      .++...+
T Consensus        83 ~~~~~~r   89 (90)
T d1x5sa1          83 GKSSDNR   89 (90)
T ss_dssp             ECCCCCC
T ss_pred             CCCCCCC
Confidence            8776543

>d2cqga1 d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.82  E-value=1.3e-19  Score=109.21  Aligned_cols=82  Identities=23%  Similarity=0.381  Sum_probs=75.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +...+|||+|||+++++++|+++|++| .|..|.++.++.++.++|||||+|.+.++|.+||+ +. ..|+|+.|.|.++
T Consensus         6 ~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~-~~-~~l~Gr~i~v~~a   83 (90)
T d2cqga1           6 QKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS-QR-HMIDGRWCDCKLP   83 (90)
T ss_dssp             CCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH-SC-EEETTEEEEEECC
T ss_pred             cCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHh-cC-CccCCEEeEEEeC
Confidence            456789999999999999999999999 99999999999999999999999999999999998 34 5789999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      .+++.
T Consensus        84 ~~k~~   88 (90)
T d2cqga1          84 NSKQS   88 (90)
T ss_dssp             CTTCC
T ss_pred             CCCCC
Confidence            87653

>d1b7fa2 d.58.7.1 (A:205-289) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.81  E-value=9.4e-20  Score=108.63  Aligned_cols=77  Identities=23%  Similarity=0.453  Sum_probs=72.1

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRLD   99 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v~   99 (137)
                      ..++|||+|||..+++++|+++|++| .|..+.+++++.+++++|||||+|.+.++|..|++ ||+ ..+.+  ++|.|+
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~~~g~~~~l~V~   83 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNN-VIPEGGSQPLSVR   83 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CCCTTCSSCCEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCC-CEeCCCCeEEEEE
Confidence            44679999999999999999999999 99999999999999999999999999999999999 999 88876  889999


Q ss_pred             ec
Q psy13181        100 IA  101 (137)
Q Consensus       100 ~a  101 (137)
                      +|
T Consensus        84 ~A   85 (85)
T d1b7fa2          84 LA   85 (85)
T ss_dssp             EC
T ss_pred             EC
Confidence            86

>d2cq4a1 d.58.7.1 (A:132-232) RNA binding protein 23 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA binding protein 23
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=9.7e-21  Score=116.47  Aligned_cols=79  Identities=28%  Similarity=0.503  Sum_probs=75.1

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++|||+|||..+++++|+++|+.| .|..|.+++++.+++++|||||+|.+.+++.+|+.|++ ..|+|+.|.|.++.+
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~l~g-~~~~G~~l~V~~a~~   96 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIGLTG-QRLLGVPIIVQASQA   96 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHHHTT-EEETTEEEEEEEHHH
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHHHCC-CEECCEEEEEEECCC
Confidence            4789999999999999999999999 99999999999999999999999999999999999999 999999999999865


Q ss_pred             C
Q psy13181        104 K  104 (137)
Q Consensus       104 ~  104 (137)
                      +
T Consensus        97 ~   97 (101)
T d2cq4a1          97 E   97 (101)
T ss_dssp             H
T ss_pred             C
Confidence            4

>d2cpha1 d.58.7.1 (A:454-547) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=6.7e-20  Score=111.28  Aligned_cols=83  Identities=24%  Similarity=0.419  Sum_probs=75.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecC-CCCCeecEEEEEEcCHHHHHHHHH-h-CCCeeecCeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDK-ETDRFKGFCYVEFVDVENLRQALL-K-DGRITVDGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~-~t~~~~g~~fv~f~~~~~a~~al~-l-~~~~~l~g~~l~v   98 (137)
                      ....+|||+|||..+++++|+++|++| .|..|.+++++ .++.++|||||+|.+.++|..|+. | ++ ..|.|++|.|
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~-~~~~Gr~l~V   84 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHS-THLYGRRLVL   84 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTC-CBSSSCBCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCC-cEECCEEEEE
Confidence            456789999999999999999999999 99999998875 478999999999999999999999 8 88 9999999999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .+|.++..
T Consensus        85 ~~A~~~~~   92 (94)
T d2cpha1          85 EWADSEVT   92 (94)
T ss_dssp             EECCCCCC
T ss_pred             EEcCCCCC
Confidence            99987653

>d1p1ta_ d.58.7.1 (A:) Cleavage stimulation factor, 64 kda subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Cleavage stimulation factor, 64 kda subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.3e-20  Score=116.35  Aligned_cols=81  Identities=33%  Similarity=0.539  Sum_probs=76.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||.++++++|+++|++| .|..|.++.++.|++++|||||+|.+.++|..|+. |++ ..|.|+.|+|.++
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~-~~~~g~~i~V~~a   85 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNG-REFSGRALRVDNA   85 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSS-BSCSSSCBEEEET
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCC-CEECCEEEEEEEC
Confidence            34689999999999999999999999 99999999999999999999999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      .++.
T Consensus        86 ~~~~   89 (104)
T d1p1ta_          86 ASEK   89 (104)
T ss_dssp             TCTT
T ss_pred             CCCC
Confidence            8754

>d1l3ka2 d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.8e-19  Score=105.85  Aligned_cols=76  Identities=20%  Similarity=0.449  Sum_probs=72.4

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      .++|||+|||+++++++|+++|++| .+..+.++.++.++.++|+|||+|.+.+++.+|+.+++ ..|+|+.|.|+.|
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~~~~-~~l~Gr~i~V~~A   78 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY-HTVNGHNCEVRKA   78 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHCSC-CEETTEECEEEEC
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHHhCC-CEECCEEEEEEEC
Confidence            4689999999999999999999999 99999999999999999999999999999999999999 9999999999876

>d2cqia1 d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=1.7e-19  Score=108.65  Aligned_cols=81  Identities=23%  Similarity=0.474  Sum_probs=73.8

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||..+++++|+++|++| .|..|.++.++.++  +++|||+|.+.++|..|+. +++ ..|.|+.|+|.+
T Consensus         6 ~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~~~--~~~afV~f~~~~~A~~A~~~l~~-~~~~g~~i~v~~   82 (90)
T d2cqia1           6 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTSN--DPYCFVEFYEHRDAAAALAAMNG-RKILGKEVKVNW   82 (90)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCSS--CCEEEEEESSHHHHHHHHHHHTT-EEETTEEEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecccCcc--ceeeEEEECCHHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            445799999999999999999999999 99999999887654  6799999999999999999 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      |.++..
T Consensus        83 a~~~~~   88 (90)
T d2cqia1          83 ATTPSS   88 (90)
T ss_dssp             CCCTTC
T ss_pred             cCCCCC
Confidence            987654

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=6.1e-20  Score=108.96  Aligned_cols=78  Identities=19%  Similarity=0.355  Sum_probs=72.1

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEE-EEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCC
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSV-RLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i-~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~  104 (137)
                      |||+|||.++++++|+++|++| .+..+ .+++++.+++++|||||+|.+.++|+.|++ |++ ..|+|++|+|.++.++
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g-~~~~gr~l~v~~a~~k   79 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNG-QYLCNRPITVSYAFKK   79 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTT-CEETTEECEEEESCCC
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCC-cEECCEEEEEEEecCC
Confidence            7999999999999999999999 77654 788899999999999999999999999999 999 9999999999999876


Q ss_pred             CC
Q psy13181        105 RN  106 (137)
Q Consensus       105 ~~  106 (137)
                      ..
T Consensus        80 ~~   81 (83)
T d1x5ta1          80 DS   81 (83)
T ss_dssp             CC
T ss_pred             Cc
Confidence            53

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.81  E-value=4.6e-20  Score=109.01  Aligned_cols=77  Identities=14%  Similarity=0.328  Sum_probs=66.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      .+|||+|||+++++++|+++|++| .+..+.++.+..+++++++|||+|.+.++|.+|+. ||+ ..++|++|.|++++|
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~e~A~~Ai~~l~g-~~~~g~~i~V~~a~P   80 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNG-LKIEGYTLVTKVSNP   80 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------CCEEEEECSSHHHHHHHHHHHTT-CEETTEECEEEECCC
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeecccccccccceeEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEccC
Confidence            589999999999999999999999 88888888888889999999999999999999999 999 999999999999976

>d1uawa_ d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.81  E-value=1.8e-20  Score=109.90  Aligned_cols=75  Identities=23%  Similarity=0.420  Sum_probs=71.8

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      .+|||+|||+++++++|+++|++| .|.++.+++++.|++++|+|||+|.+.+++++||.+++ ..|+|+.|.|+.|
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~~~~-~~i~Gr~i~V~~A   76 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKVA   76 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEEC
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHHcCC-CEECCeEEEEEEC
Confidence            479999999999999999999999 99999999999999999999999999999999999998 9999999999876

>d1hd0a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein d0 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein d0
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5.1e-20  Score=107.38  Aligned_cols=74  Identities=24%  Similarity=0.413  Sum_probs=70.2

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +|||+|||+++++++|+++|++| .|..+.++.++.+++++|||||+|.+.+++++||.+++ ..|+|+.|.|+.|
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~~~~-~~l~Gr~i~V~rA   75 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMDQKE-HKLNGKVIDPKRA   75 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHHTCC-CCBTTBCCEECCC
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHhcCC-CEECCCEEEeeEC
Confidence            58999999999999999999999 99999999999999999999999999999999999888 8899999998754

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=1.3e-19  Score=108.01  Aligned_cols=76  Identities=21%  Similarity=0.431  Sum_probs=71.3

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEEEe
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRLDI  100 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v~~  100 (137)
                      .++|||+|||+.+++++|+++|++| .|..+.++.++.++.+++||||+|.+.++|..|+. ||+ ..+.|  ++|.|.+
T Consensus         6 ~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng-~~~~G~~~~i~V~~   84 (85)
T d1fxla2           6 DANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNG-QKPSGATEPITVKF   84 (85)
T ss_dssp             TCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTT-CCCTTCSSCCEEEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCC-CEeCCCCEEEEEEe
Confidence            4689999999999999999999999 99999999999999999999999999999999999 999 89987  6688887


Q ss_pred             c
Q psy13181        101 A  101 (137)
Q Consensus       101 a  101 (137)
                      |
T Consensus        85 A   85 (85)
T d1fxla2          85 A   85 (85)
T ss_dssp             C
T ss_pred             C
Confidence            5

>d1x4ha1 d.58.7.1 (A:8-105) RNA-binding protein 28 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 28
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=2.4e-19  Score=109.34  Aligned_cols=83  Identities=24%  Similarity=0.410  Sum_probs=75.9

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hC------CCeeecCe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KD------GRITVDGL   94 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~------~~~~l~g~   94 (137)
                      ...++|||+|||+.+++++|+++|++| .+..+.++.++.++.++|||||+|.+.++|.+|+. ++      + ..|+|+
T Consensus         6 ~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~F~~~~~a~~ai~~l~~~~~~~g-~~~~gr   84 (98)
T d1x4ha1           6 TEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGG-LKLDGR   84 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCC-EESSSC
T ss_pred             CCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeeccccccccccceEEEEEcCHHHHHHHHHHcccccccCC-cEECCE
Confidence            345789999999999999999999999 99999999999889999999999999999999998 76      5 788999


Q ss_pred             EEEEEecCCCCC
Q psy13181         95 QVRLDIADGKRN  106 (137)
Q Consensus        95 ~l~v~~a~~~~~  106 (137)
                      .|+|.++.++.+
T Consensus        85 ~l~v~~a~~k~~   96 (98)
T d1x4ha1          85 QLKVDLAVTRDE   96 (98)
T ss_dssp             EEEEECCCCCCC
T ss_pred             EEEEEECCCCCc
Confidence            999999987654

>d2cq3a1 d.58.7.1 (A:110-202) RNA-binding protein 9 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 9
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.80  E-value=5.4e-19  Score=106.99  Aligned_cols=82  Identities=22%  Similarity=0.404  Sum_probs=74.4

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      .....+|||+|||+.+++++|+++|++| .|..|.++.++.+  ++++|||+|.+.++|..|+. |++ ..|+|+.|+|.
T Consensus         8 ~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~--~kg~afV~f~~~~~a~~Ai~~l~~-~~~~g~~l~V~   84 (93)
T d2cq3a1           8 KSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG--SKGFGFVTFENSADADRAREKLHG-TVVEGRKIEVN   84 (93)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT--TCCEEEEEESCHHHHHHHHHHHTT-CEETTEECEEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccC--CcceeEEEECCHHHHHHHHHHcCC-CEECCEEEEEE
Confidence            3456789999999999999999999999 9999999988653  58899999999999999999 999 99999999999


Q ss_pred             ecCCCCC
Q psy13181        100 IADGKRN  106 (137)
Q Consensus       100 ~a~~~~~  106 (137)
                      +|.++..
T Consensus        85 ~A~~r~~   91 (93)
T d2cq3a1          85 NATARVM   91 (93)
T ss_dssp             ECCSSCC
T ss_pred             ecCcCCC
Confidence            9987653

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=2.7e-19  Score=106.57  Aligned_cols=77  Identities=27%  Similarity=0.416  Sum_probs=70.7

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCC---CeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETD---RFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~---~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      |||+|||.++++++|+++|++| .|..+.++.++.++   .++|||||+|.+.++|.+|+. |++ ..|+|+.|.|.++.
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~-~~~~g~~i~V~~a~   79 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQG-HTVDGHKLEVRISE   79 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTT-CEETTEECEEECSS
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEECC
Confidence            7999999999999999999999 99999999887665   468999999999999999999 999 99999999999986


Q ss_pred             CCC
Q psy13181        103 GKR  105 (137)
Q Consensus       103 ~~~  105 (137)
                      ...
T Consensus        80 ~~~   82 (85)
T d2cpfa1          80 RAT   82 (85)
T ss_dssp             CSS
T ss_pred             CCC
Confidence            544

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.80  E-value=1.4e-19  Score=106.17  Aligned_cols=75  Identities=23%  Similarity=0.410  Sum_probs=71.0

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      +|||+|||+++++++|+++|++| .|..+.+..++ +++++|+|||+|.+.++|..|+. ||+ ..|+|++|+|+++.+
T Consensus         2 rl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~-~g~~~g~afV~f~~~~~A~~Ai~~l~g-~~l~g~~l~V~~a~S   78 (78)
T d1no8a_           2 KLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR-SGRSLGTADVHFERKADALKAMKQYNG-VPLDGRPMNIQLVTS   78 (78)
T ss_dssp             EEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSS-CCCSCCEEEEEESCHHHHHHHHHHHTT-CEETTEECEEEEECC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEee-ccccceeEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEeeC
Confidence            69999999999999999999999 99999999886 68899999999999999999999 999 999999999999863

>d1cvja2 d.58.7.1 (A:91-179) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.8e-19  Score=107.45  Aligned_cols=79  Identities=20%  Similarity=0.339  Sum_probs=72.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ..+|||+|||.++++++|+++|++| .|..+.++.++.  .+++||||+|.+.++|++|+. |++ ..|+|+.|.|.++.
T Consensus         8 ~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~--~~kg~afV~f~~~~~A~~Ai~~l~g-~~~~g~~i~V~~a~   84 (89)
T d1cvja2           8 VGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDEN--GSKGYGFVHFETQEAAERAIEKMNG-MLLNDRKVFVGRFK   84 (89)
T ss_dssp             TTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTT--BCCSCEEEEESCHHHHHHHTTSSSE-EEETTEEEEEEECC
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecC--CCcceeEEEECCHHHHHHHHHHcCC-CEECCEEEEEEECC
Confidence            4579999999999999999999999 999999998864  367899999999999999999 999 99999999999998


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      +++.
T Consensus        85 ~~~~   88 (89)
T d1cvja2          85 SRKE   88 (89)
T ss_dssp             CTTT
T ss_pred             CCCC
Confidence            7754

>d1x0fa1 d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein D0 (AUF1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=2.8e-20  Score=108.47  Aligned_cols=74  Identities=23%  Similarity=0.480  Sum_probs=70.1

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +|||+|||+++++++|+++|++| .|..|.++.++.|++++|||||+|.+.+++++||++++ ..|+|+.|.|+.|
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~d~~t~~~rG~~FV~f~~~~~a~~al~~~~-~~i~g~~i~vk~A   75 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMDNKTNKRRGFCFITFKEEEPVKKIMEKKY-HNVGLSKCEIKVA   75 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCCCTTTCCTTCCEEEEESSSHHHHHHTTCSS-CCBTTBCCEEECC
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccccccccccccEEEEEECCHHHHHHHHhhCC-CEECCEEeEEEEC
Confidence            59999999999999999999999 99999999999999999999999999999999999777 8899999999875

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.79  E-value=6.4e-19  Score=108.01  Aligned_cols=84  Identities=24%  Similarity=0.349  Sum_probs=75.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ce--------eEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KL--------VSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i--------~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      .....+|||+|||..+++++|+++|++| .|        ..+.+..++.++..+++|||+|.+.++|.+|++ |++ ..|
T Consensus         5 ~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~d~~~~~~~g~afV~f~~~~~a~~Ai~~l~g-~~~   83 (101)
T d2cpea1           5 DSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLDKETGKPKGDATVSYEDPPTAKAAVEWFDG-KDF   83 (101)
T ss_dssp             CCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBCTTTCSBCSEEEEEBSSHHHHHHHHHHHTT-CEE
T ss_pred             CCCCCEEEEECCCCcCCHHHHHHHHHHCceEEEeeecccceeEEeeccccccccceeeEEecCHHHHHHHHHHhCC-CEE
Confidence            4456899999999999999999999988 55        356677888889999999999999999999999 999 999


Q ss_pred             cCeEEEEEecCCCCC
Q psy13181         92 DGLQVRLDIADGKRN  106 (137)
Q Consensus        92 ~g~~l~v~~a~~~~~  106 (137)
                      +|+.|+|.+++++..
T Consensus        84 ~gr~i~V~~a~~~~p   98 (101)
T d2cpea1          84 QGSKLKVSLARKKPP   98 (101)
T ss_dssp             TTEECEEECSSCCCC
T ss_pred             CCEEEEEEEcCCCCC
Confidence            999999999987654

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.78  E-value=1.9e-19  Score=104.73  Aligned_cols=74  Identities=27%  Similarity=0.372  Sum_probs=70.6

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      +|||+|||.++++++|+++|++| .+..+.++.++.++.++++|||+|.+.+++++|+++++ ..|+|++|+|+.|
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~~~~-~~l~gr~i~V~~A   75 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCEIHF-HEINNKMVECKKA   75 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHHCSS-CCBTTBCCEEEEC
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHhcCC-CEECCeEEEEEEC
Confidence            58999999999999999999999 99999999999899999999999999999999999999 9999999999875

>d2ghpa3 d.58.7.1 (A:206-291) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.78  E-value=4.7e-19  Score=105.80  Aligned_cols=81  Identities=14%  Similarity=0.199  Sum_probs=70.1

Q ss_pred             CCceEEEcCCCCCCC-HHHHHhcCcCC-ceeEEEEeec-CCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNGIT-QGDVERFFPEQ-KLVSVRLVKD-KETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~-e~~l~~~f~~~-~i~~i~~~~~-~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      ..++|||+|||.+++ +++|+++|++| .|..|.++.+ ..++.++|+|||+|.+.++|++|+++|+ ..|+|+.|.|.+
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~afV~f~~~~~a~~Al~~n~-~~~~gr~l~V~~   81 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCAFMVFENKDSAERALQMNR-SLLGNREISVSL   81 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEEEEEESSHHHHHHHGGGTT-EEETTEEEEEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceeeeEEECCHHHHHHHHhcCC-CEECCEEEEEEE
Confidence            357999999999876 56699999999 9999988664 5678999999999999999999999999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +.+++
T Consensus        82 a~~kP   86 (86)
T d2ghpa3          82 ADKKP   86 (86)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            98764

>d1weza_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.78  E-value=1.9e-18  Score=106.17  Aligned_cols=85  Identities=21%  Similarity=0.252  Sum_probs=74.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      .....+|||+|||+++++++|+++|..+.+..+.++.+. ++..+++|||+|.+.++|++|+++++ ..|+++.|+|.++
T Consensus        12 ~~~~~~v~v~nLp~~~te~dl~~~F~~~~~~~v~~~~~~-~g~~~G~afVeF~~~~~a~~Al~~~~-~~i~gR~I~V~~s   89 (102)
T d1weza_          12 STTGHCVHMRGLPYRATENDIYNFFSPLNPMRVHIEIGP-DGRVTGEADVEFATHEDAVAAMAKDK-ANMQHRYVELFLN   89 (102)
T ss_dssp             CSSSCEEEEESCCTTCCHHHHHHSSCSCCCSEEEEEESS-SSCEEEEEEEECSSSHHHHHHHTTSS-CCSSSSCCEEEEE
T ss_pred             CCCCCEEEEeCCCCcCCHHHHHHHHhccCcceeeeEEec-CCcceEEEEEEECCHHHHHHHHHcCC-CEECCEEEEEEEc
Confidence            455679999999999999999999999965677777775 47899999999999999999988999 9999999999998


Q ss_pred             CCCCCCC
Q psy13181        102 DGKRNDN  108 (137)
Q Consensus       102 ~~~~~~~  108 (137)
                      .+++..+
T Consensus        90 ~~~~~~~   96 (102)
T d1weza_          90 STAGTSG   96 (102)
T ss_dssp             CCCCCCC
T ss_pred             CCCCCCC
Confidence            8765443

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.77  E-value=1.8e-18  Score=105.21  Aligned_cols=82  Identities=24%  Similarity=0.393  Sum_probs=71.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ....++|||+|||.++++++|+++|.+| .+..+.     .++.+++||||+|.+.++|++|+. ||+ ..|+|++|+|.
T Consensus        13 ~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~-----~~~~~~~~afV~f~~~~~A~~A~~~l~~-~~~~gr~i~V~   86 (96)
T d1fjca_          13 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLVS-----QDGKSKGIAYIEFKSEADAEKNLEEKQG-AEIDGRSVSLY   86 (96)
T ss_dssp             TTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEE-----ETTEEEEEEEEEESSHHHHHHHHHHTTE-EEETTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcccceeee-----ecCccccEEEEEeCCHHHHHHHHHHcCC-CEECCEEEEEE
Confidence            3456899999999999999999999998 665443     257789999999999999999999 999 99999999999


Q ss_pred             ecCCCCCCCC
Q psy13181        100 IADGKRNDNK  109 (137)
Q Consensus       100 ~a~~~~~~~~  109 (137)
                      ++.++...++
T Consensus        87 ~a~~k~~~rG   96 (96)
T d1fjca_          87 YTGEKGGTRG   96 (96)
T ss_dssp             ECSSSCCCCC
T ss_pred             EeCCCCCCCC
Confidence            9998776543

>d1wg5a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein H' {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein H'
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=3.9e-18  Score=105.13  Aligned_cols=85  Identities=16%  Similarity=0.145  Sum_probs=74.8

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      .....+|||+|||+++++++|+++|..+ .+..+.++.+..++..+|+|||+|.+.++|++|+++++ ..|+++.|.|..
T Consensus        12 ~~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~~~~~~~~kG~afV~F~~~e~a~~a~~~~~-~~i~gR~i~V~~   90 (104)
T d1wg5a_          12 TANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDFQGRSTGEAFVQFASQEIAEKALKKHK-ERIGHRYIEIFK   90 (104)
T ss_dssp             CSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCSSSCBCSEEEEEESSHHHHHHHHTTTT-CCSSSSCCEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEEeCCCCCcceEEEEEeCCHHHHHHHHhhCC-CEEcceEEEEEE
Confidence            4455689999999999999999999999 67666666677788999999999999999999999999 999999999999


Q ss_pred             cCCCCCC
Q psy13181        101 ADGKRND  107 (137)
Q Consensus       101 a~~~~~~  107 (137)
                      +.+++..
T Consensus        91 ~~~~~~~   97 (104)
T d1wg5a_          91 SSRAEVR   97 (104)
T ss_dssp             ECTTTSC
T ss_pred             CCHHHhc
Confidence            9877543

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2e-19  Score=110.58  Aligned_cols=83  Identities=22%  Similarity=0.338  Sum_probs=76.2

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      .+.++|||+|||..+++++|+++|++| .+..+.++.+..++++++||||+|.+.++|..|+. |++ ..|.|+.|.|.+
T Consensus        16 ~ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~~~g~~~g~~fV~f~~~~~A~~Ai~~l~g-~~~~g~~l~V~~   94 (102)
T d2cpxa1          16 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRMMTGRMRGQAFITFPNKEIAWQALHLVNG-YKLYGKILVIEF   94 (102)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEEECSSSCSEEEEECSSHHHHHHHHHHSTT-CBCSSCBCEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeecccccccccccceEEeccHHHHHHHHHHhCC-CEECCEEEEEEe
Confidence            456899999999999999999999999 88888777777788999999999999999999999 999 999999999999


Q ss_pred             cCCCCC
Q psy13181        101 ADGKRN  106 (137)
Q Consensus       101 a~~~~~  106 (137)
                      ++++..
T Consensus        95 ak~k~~  100 (102)
T d2cpxa1          95 GKNKKQ  100 (102)
T ss_dssp             CCCCSC
T ss_pred             CCCccc
Confidence            998754

>d1x4aa1 d.58.7.1 (A:9-103) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=2.2e-18  Score=104.61  Aligned_cols=78  Identities=27%  Similarity=0.485  Sum_probs=69.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+|||+.+++++|+++|++| .|..+.+..+   ...+++|||+|.+.++|+.|+. ||+ ..|.+++|+|++
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~~---~~~~g~afV~f~~~e~a~~Ai~~l~g-~~~~g~~l~V~~   87 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKNR---RGGPPFAFVEFEDPRDAEDAVYGRDG-YDYDGYRLRVEF   87 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECCS---SSSSCCEEEEESCHHHHHHHHHHHTT-CEETTEECEEEC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEeccc---ccccceEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEe
Confidence            455689999999999999999999999 8888877544   3467899999999999999999 999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      +++.
T Consensus        88 a~~~   91 (95)
T d1x4aa1          88 PRSG   91 (95)
T ss_dssp             CCCC
T ss_pred             ccCC
Confidence            8754

>d1fjeb1 d.58.7.1 (B:1-91) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=99.76  E-value=1.2e-19  Score=109.60  Aligned_cols=81  Identities=26%  Similarity=0.466  Sum_probs=72.5

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      +...++|||+|||+.+++++|+++|++| .|..+.++.+ .+++++|||||+|.+.+++++||+|++ ..|+|+.|+|.+
T Consensus        10 ~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~-~~g~~kg~afv~F~~~e~a~~Al~~~g-~~~~g~~i~V~~   87 (91)
T d1fjeb1          10 STTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDV-RTGTNRKFGYVDFESAEDLEKALELTG-LKVFGNEIKLEK   87 (91)
T ss_dssp             CSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEE-EEETTTTEEEEEESSHHHHHHHHHGGG-EEETTEEEEEEC
T ss_pred             CCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeec-CCCCccEEeEEeeCCHHHHHHHHhcCC-cEECCEEEEEEe
Confidence            3456799999999999999999999999 7777766544 468899999999999999999999999 999999999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      |+++
T Consensus        88 ak~k   91 (91)
T d1fjeb1          88 PKGR   91 (91)
T ss_dssp             CCCS
T ss_pred             cCCC
Confidence            9864

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.76  E-value=3.1e-18  Score=107.13  Aligned_cols=80  Identities=20%  Similarity=0.291  Sum_probs=71.9

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRL   98 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v   98 (137)
                      |+...++|||+|||..+++++|.++|++| .|..|.+..+   +.++|+|||+|.+.++|..|+. |++ ..|.|+.|.|
T Consensus         3 pp~~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~~---~~~kG~afV~f~~~~~A~~Ai~~l~g-~~~~gr~l~V   78 (114)
T d2f9da1           3 PPEVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT---PETRGTAYVVYEDIFDAKNACDHLSG-FNVCNRYLVV   78 (114)
T ss_dssp             CTTCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEECS---TTTTTEEEEEESSHHHHHHHHHHHTT-CEETTEECEE
T ss_pred             ccCCCCEEEEECCCCCCCHHHHHHHHhhcCCeEeeccccc---CCcCCeEEEEECCHHHHHHHHHHhCC-CEECCEEEEE
Confidence            44566899999999999999999999999 9999988754   4568999999999999999999 999 9999999999


Q ss_pred             EecCCC
Q psy13181         99 DIADGK  104 (137)
Q Consensus        99 ~~a~~~  104 (137)
                      .++.+.
T Consensus        79 ~~a~~~   84 (114)
T d2f9da1          79 LYYNAN   84 (114)
T ss_dssp             EECCHH
T ss_pred             EEcCCC
Confidence            998653

>d1zh5a2 d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=5.9e-18  Score=100.71  Aligned_cols=76  Identities=14%  Similarity=0.372  Sum_probs=70.7

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      .++|||+|||.++++++|+++|+.| .+..|.+..+. ++.++|+|||+|.+.++|.+||++++ ..+.|+.|.|.++.
T Consensus         6 ~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~-~~~~kG~afV~f~~~e~a~~al~~~~-~~~~g~~l~v~~~~   82 (85)
T d1zh5a2           6 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTL-HKAFKGSIFVVFDSIESAKKFVETPG-QKYKETDLLILFKD   82 (85)
T ss_dssp             TTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECT-TCCEEEEEEEEESCHHHHHHHHTCCC-CEETTEECEEEEGG
T ss_pred             cCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeec-cCCcceEEEEEEcCHHHHHHHHHHCC-CEECCEEEEEEEcC
Confidence            4689999999999999999999999 99999988775 68999999999999999999999999 99999999999864

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.75  E-value=2.9e-18  Score=102.17  Aligned_cols=78  Identities=18%  Similarity=0.224  Sum_probs=67.5

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      +...+|||+|||..++++||+++|+.+ .+....++.+..++.++|+|||+|.+.++|.+|+. ||+ ..|++++|+|.+
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~~~~~~~~~g~~~G~afV~f~~~e~a~~Ai~~l~~-~~l~gr~i~v~l   85 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLND-RPIGSRKVKLVL   85 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTT-CEETTEECEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeEEEEEeCCCCCcceEEEEEEcCcHHHHHHHHHcCC-CEECCEEEEEEE
Confidence            345789999999999999999999999 66543333444578999999999999999999999 999 999999999987


Q ss_pred             c
Q psy13181        101 A  101 (137)
Q Consensus       101 a  101 (137)
                      +
T Consensus        86 ~   86 (86)
T d2cqpa1          86 G   86 (86)
T ss_dssp             S
T ss_pred             C
Confidence            5

>d1x5oa1 d.58.7.1 (A:8-108) RNA-binding motif, single-stranded-interacting protein 1, RBMS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 1, RBMS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=4.9e-18  Score=104.17  Aligned_cols=80  Identities=14%  Similarity=0.294  Sum_probs=71.9

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLD   99 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~   99 (137)
                      ...+++|||+|||.++++++|+++|++| .|..+.+..+. ++.+++||||+|.+.++|.+|++ ||| ..|.|+++.|.
T Consensus        15 ~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~-~~~~~g~afV~f~~~~~A~~Ai~~lng-~~i~gr~~~v~   92 (101)
T d1x5oa1          15 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS-SGTSRGVGFARMESTEKCEAVIGHFNG-KFIKTPPGVSA   92 (101)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS-SSCEEEEEEEEESCHHHHHHHHHHHBT-CCCCCCTTSCC
T ss_pred             cCCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeeccc-ccccccceeEEeCCHHHHHHHHHHhCC-CEECCcCCccC
Confidence            3456799999999999999999999999 99988888775 68899999999999999999999 999 99999998887


Q ss_pred             ecCC
Q psy13181        100 IADG  103 (137)
Q Consensus       100 ~a~~  103 (137)
                      ++.|
T Consensus        93 ~~~P   96 (101)
T d1x5oa1          93 PTEP   96 (101)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            7654

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.74  E-value=2.4e-17  Score=100.52  Aligned_cols=78  Identities=29%  Similarity=0.523  Sum_probs=67.7

Q ss_pred             CCCCCCceEEEcCCC-CCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEE
Q psy13181         20 LPTEPPYTAFVGNLP-NGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQV   96 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp-~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l   96 (137)
                      .+.....+|||+||| ..+++++|+++|++| .|..|.+.        ++||||+|.+.++|++|+. |++ ..|.|+.|
T Consensus        10 ~~~~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~--------rg~aFV~f~~~~~A~~Ai~~lng-~~~~g~~l   80 (98)
T d1wf2a_          10 DPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVH--------KGFAFVQYVNERNARAAVAGEDG-RMIAGQVL   80 (98)
T ss_dssp             CCSSCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEE--------TEEEEEEESSHHHHHHHHHTTTT-CEETTEEC
T ss_pred             CCCCCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEe--------CCeEEEEECCHHHHHHHHHHcCC-CEECCEEE
Confidence            344556789999997 568889999999999 99998873        5799999999999999999 999 99999999


Q ss_pred             EEEecCCCCC
Q psy13181         97 RLDIADGKRN  106 (137)
Q Consensus        97 ~v~~a~~~~~  106 (137)
                      +|+++.++..
T Consensus        81 ~V~~a~~~~~   90 (98)
T d1wf2a_          81 DINLAAEPKV   90 (98)
T ss_dssp             EEEETTSCCC
T ss_pred             EEEECCCCCC
Confidence            9999976543

>d1wg4a_ d.58.7.1 (A:) Splicing factor, arginine/serine-rich 9 (SFRS9) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 9 (SFRS9)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.73  E-value=1.7e-17  Score=101.25  Aligned_cols=80  Identities=16%  Similarity=0.207  Sum_probs=70.4

Q ss_pred             CCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         20 LPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        20 ~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      ......++|||+|||+.+++++|+++|++| .|..+.+.+       .++|||+|.+.++|++||+ ||+ ..|+++.|+
T Consensus        10 ~~~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~-------~g~afV~f~~~~~a~~Ai~~lng-~~~~g~~i~   81 (98)
T d1wg4a_          10 PTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK-------DGMGMVEYLRKEDMEYALRKLDD-TKFRSHEGE   81 (98)
T ss_dssp             CCCSCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET-------TTEEEEEESSHHHHHHHHHHHSS-EEEECTTSC
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc-------cceEEEEECCHHHHHHHHHHhCC-CEeCCeEEE
Confidence            334566789999999999999999999999 999988753       3699999999999999999 999 999999999


Q ss_pred             EEecCCCCCC
Q psy13181         98 LDIADGKRND  107 (137)
Q Consensus        98 v~~a~~~~~~  107 (137)
                      |.++..++..
T Consensus        82 v~~~~~~~~~   91 (98)
T d1wg4a_          82 TSYIRVYPER   91 (98)
T ss_dssp             EEEEEEECCC
T ss_pred             EEEEecCCCC
Confidence            9998766543

>d2b0ga1 d.58.7.1 (A:1-83) Splicesomal U1A protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=99.72  E-value=1.9e-17  Score=98.06  Aligned_cols=75  Identities=21%  Similarity=0.344  Sum_probs=66.7

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee-cCeEEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV-DGLQVRL   98 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l-~g~~l~v   98 (137)
                      .++.++|||+|||..+++++|.++|++| .+..+.++.++     +++|||+|.+.++|.+|+. |++ ..| +++.|+|
T Consensus         5 ~pP~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~~~-----~g~afV~f~~~~~A~~A~~~l~g-~~~~~~~~i~v   78 (83)
T d2b0ga1           5 QPPNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVPNR-----HDIAFVEFTTELQSNAAKEALQG-FKITPTHAMKI   78 (83)
T ss_dssp             CSCCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECTTT-----CSCEEEEESSHHHHHHHHHHHTT-CBSSTTCBCEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeeccc-----ceeEEEecCCHHHHHHHHHHhCC-cEeCCCcEEEE
Confidence            3456799999999999999999999999 99999887543     5699999999999999999 999 877 5689999


Q ss_pred             EecC
Q psy13181         99 DIAD  102 (137)
Q Consensus        99 ~~a~  102 (137)
                      .+|+
T Consensus        79 ~~ak   82 (83)
T d2b0ga1          79 TFAK   82 (83)
T ss_dssp             EECC
T ss_pred             EEec
Confidence            9986

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=2.5e-17  Score=98.71  Aligned_cols=75  Identities=19%  Similarity=0.321  Sum_probs=67.5

Q ss_pred             CCceEEEcCCCCCCCHHHH---HhcCcCC-ceeEEEEeecCCCCCe---ecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         24 PPYTAFVGNLPNGITQGDV---ERFFPEQ-KLVSVRLVKDKETDRF---KGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l---~~~f~~~-~i~~i~~~~~~~t~~~---~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ...+|||+|||+.+++++|   .++|++| .|..|.+++++.++..   .++|||+|.+.++|.+|++ ||+ ..|+|+.
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~~~~~~~~~~~g~aFV~f~~~~~A~~Ai~~lng-~~~~gr~   85 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNSTSYAGSQGPSASAYVTYIRSEDALRAIQCVNN-VVVDGRT   85 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECCSSCCSSSCCCEEEEEEESSHHHHHHHHHHHTT-EEETTEE
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeeccCcCCCCCcceEEEEecccchhHHHHHHHhCC-CEECCEE
Confidence            3467999999999999999   7789999 9999999998776544   4899999999999999999 999 9999999


Q ss_pred             EEEE
Q psy13181         96 VRLD   99 (137)
Q Consensus        96 l~v~   99 (137)
                      |+|+
T Consensus        86 lkvS   89 (89)
T d2cpia1          86 LKAS   89 (89)
T ss_dssp             EEEE
T ss_pred             EEEC
Confidence            9985

>d1wf0a_ d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: TAR DNA-binding protein 43, TDP-43
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.1e-17  Score=100.05  Aligned_cols=79  Identities=23%  Similarity=0.463  Sum_probs=68.0

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ....+|||+|||+.+++++|+++|++| .|..|.+.     ...++||||+|.+.+.|++|+. ++ ..|+|+.|.|.++
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~-----~~~~gfafV~f~~~~~a~~a~~-~~-~~i~g~~l~v~~a   75 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIP-----KPFRAFAFVTFADDQIAQSLCG-ED-LIIKGISVHISNA   75 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECC-----SSCCSCCEEECSCHHHHHHTTT-CE-EEETTEEEEEECC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEe-----eccCceEEEEECCHHHHHHHHh-CC-CEECCEEeEEEeC
Confidence            356799999999999999999999999 88888664     3456799999999999999886 67 8899999999999


Q ss_pred             CCCCCCC
Q psy13181        102 DGKRNDN  108 (137)
Q Consensus       102 ~~~~~~~  108 (137)
                      .++....
T Consensus        76 ~~k~~~~   82 (88)
T d1wf0a_          76 EPKHNSN   82 (88)
T ss_dssp             CCCCCCC
T ss_pred             CCCCCCC
Confidence            8766443

>d1x4ga1 d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolysin TIAR
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=1.6e-17  Score=100.93  Aligned_cols=75  Identities=21%  Similarity=0.464  Sum_probs=69.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|++| .|..|.++.+      ++||||+|.+.++|.+|+. |++ ..|.|+.|+|.++
T Consensus        17 ~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~~------kg~afV~f~~~~~A~~Ai~~l~~-~~i~g~~l~v~~a   89 (96)
T d1x4ga1          17 KNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFPE------KGYSFVRFSTHESAAHAIVSVNG-TTIEGHVVKCYWG   89 (96)
T ss_dssp             SCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHTT-CEETTEECEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEec------ceEEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEc
Confidence            34689999999999999999999999 9999999865      4699999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      ++++
T Consensus        90 k~~p   93 (96)
T d1x4ga1          90 KESP   93 (96)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            8654

>d1wela1 d.58.7.1 (A:412-523) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=9.3e-18  Score=104.72  Aligned_cols=89  Identities=17%  Similarity=0.259  Sum_probs=74.9

Q ss_pred             CCCCCCCCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecC
Q psy13181         15 RNQKTLPTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDG   93 (137)
Q Consensus        15 ~~~~~~~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g   93 (137)
                      +.....+....++|||+|||+.+++++|+++|+.+ .+..+.++.+..++..+|+|||+|.+.++|++|+.+|+ ..|++
T Consensus         8 ~~~~~~~~~~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~~~~~~~~~g~~~G~afVeF~~~e~a~~al~~~~-~~i~g   86 (112)
T d1wela1           8 RSRSRSPHEAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALCRHK-QYMGN   86 (112)
T ss_dssp             CCCCSSCCCCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHTSCS-BCSTT
T ss_pred             CCCCCCCCCCCeEEEEecCCCcCcHHHHhhHHhhccccccceeeecCcccceeeEEEEEECCHHHHHHHHHcCC-CcCCC
Confidence            33444555667899999999999999999999999 66555455556679999999999999999999999999 99999


Q ss_pred             eEEEEEecCCC
Q psy13181         94 LQVRLDIADGK  104 (137)
Q Consensus        94 ~~l~v~~a~~~  104 (137)
                      +.|.|..+..+
T Consensus        87 R~i~V~~~~~~   97 (112)
T d1wela1          87 RFIQVHPITKK   97 (112)
T ss_dssp             SCBEEEEECHH
T ss_pred             EEEEEEEcChH
Confidence            99999987643

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=5.4e-17  Score=96.59  Aligned_cols=76  Identities=18%  Similarity=0.307  Sum_probs=67.2

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|++| .+..+.+.      +++++|||+|.+.++|..|+. ||+ ..|.|+.|.|.++
T Consensus         7 ~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~------~~rg~afV~f~~~~~A~~Ai~~l~~-~~i~g~~i~V~~a   79 (86)
T d2cpda1           7 SVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVK------KIRDYAFVHFSNREDAVEAMKALNG-KVLDGSPIEVTLA   79 (86)
T ss_dssp             CCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEE------ECSSEEEEEESSHHHHHHHHHHHSS-EEETTEEEEEECC
T ss_pred             CCCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEc------cccEEEEEEeCCHHHHHHHHHHcCC-CEECCEEEEEEec
Confidence            45789999999999999999999999 66666553      346799999999999999999 999 9999999999999


Q ss_pred             CCCCC
Q psy13181        102 DGKRN  106 (137)
Q Consensus       102 ~~~~~  106 (137)
                      +|+.+
T Consensus        80 kP~~~   84 (86)
T d2cpda1          80 KPVDK   84 (86)
T ss_dssp             CCCCC
T ss_pred             cCCCC
Confidence            87754

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.72  E-value=2.4e-17  Score=98.21  Aligned_cols=75  Identities=29%  Similarity=0.429  Sum_probs=68.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ...+|||+|||.++++++|+++|++| .|.+|.+..+      ++||||+|.+.++|.+|+. ||+ ..|+|+.|+|++|
T Consensus         7 ~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~~------k~~afV~f~~~~~A~~A~~~l~g-~~i~g~~l~V~~A   79 (86)
T d2cpja1           7 QRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKD------KGFGFIRLETRTLAEIAKVELDN-MPLRGKQLRVRFA   79 (86)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEETT------TTEEEEECSSSHHHHHHHHHHTT-CCBTTBCCEEEES
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeecc------cceEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEC
Confidence            34679999999999999999999999 9999988755      4599999999999999999 999 9999999999999


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      ....
T Consensus        80 ~~~~   83 (86)
T d2cpja1          80 CHSA   83 (86)
T ss_dssp             SCCS
T ss_pred             CCcC
Confidence            8654

>d1x4ea1 d.58.7.1 (A:8-79) RNA-binding motif, single-stranded-interacting protein 2, RBMS2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding motif, single-stranded-interacting protein 2, RBMS2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.72  E-value=6.1e-18  Score=97.53  Aligned_cols=69  Identities=23%  Similarity=0.411  Sum_probs=65.3

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      |||+|||.++++++|+++|++| .+..+.+..++.++.++++|||+|.+.++|++|+. ||+ ..|+|+.|+
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng-~~~~Gr~~k   71 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILDKTTNKCKGYGFVDFDSPSAAQKAVTALKA-SGVQAQMAK   71 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEECCSSSCSCCSEEEEEESCHHHHHHHHHHHHH-HTCCEESCC
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhccccccccccccccccccceeEEEECCHHHHHHHHHHhCC-CEECCEECc
Confidence            7999999999999999999999 99999999999999999999999999999999999 999 999887653

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=3.3e-17  Score=97.98  Aligned_cols=76  Identities=17%  Similarity=0.225  Sum_probs=65.0

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecC
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~  102 (137)
                      ...+|||+|||+++++++|+++|++|.+..+.+      ...+++|||+|.+.++|++|+. ||+ ..|.|++|.|++++
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G~~~~~~------~~~kg~afV~f~~~~~A~~Ai~~ln~-~~~~G~~l~V~~a~   76 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYDLKYCYV------DRNKRTAFVTLLNGEQAQNAIQMFHQ-YSFRGKDLIVQLQP   76 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSCCCCEEE------EGGGTEEEECCSCHHHHHHHHHHHTT-EEETTEEEEEEECC
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcCceeeee------eccCCceEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEcC
Confidence            356899999999999999999999994333333      2456799999999999999999 999 99999999999997


Q ss_pred             CCCC
Q psy13181        103 GKRN  106 (137)
Q Consensus       103 ~~~~  106 (137)
                      .+..
T Consensus        77 ~~~~   80 (88)
T d1wg1a_          77 TDAL   80 (88)
T ss_dssp             CCCC
T ss_pred             CCCC
Confidence            6553

>d2ghpa2 d.58.7.1 (A:41-115) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.71  E-value=3.5e-17  Score=95.09  Aligned_cols=73  Identities=21%  Similarity=0.312  Sum_probs=66.9

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ++|||+|||+++++++|+++|++| .|..+.++.++...  .++|||+|.+.++|.+||.+++ ..|+|++|.|..+
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~--~~~afV~F~~~~~a~~Al~~~~-~~i~g~~i~V~~~   74 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKKN--FRFARIEFARYDGALAAITKTH-KVVGQNEIIVSHL   74 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTSS--SEEEEEEESSHHHHHHHHTTTT-CEETTEECEEEEC
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeecccc--ceEEEEEEcchHHhHHHHHhcC-cEECCEEEEEEEC
Confidence            479999999999999999999999 99999999887643  4699999999999999999999 8999999999865

>d2cpya1 d.58.7.1 (A:536-638) RNA-binding protein 12 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.71  E-value=2.6e-17  Score=101.16  Aligned_cols=81  Identities=17%  Similarity=0.171  Sum_probs=70.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEec
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIA  101 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a  101 (137)
                      ....+|||+|||+++++++|+++|..+ .+..+.++....++.++|+|||+|.+.++|++||.+++ ..|+|+.|.|..+
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g~~~G~afV~F~s~~~a~~Al~~n~-~~i~gr~i~V~~~   84 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNGQGLGQALVQFKNEDDARKSERLHR-KKLNGREAFVHVV   84 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTSSCSSCEEEECSSHHHHHHHGGGCS-EEETTEEEEEEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCCCcCccEEEEECCHHHHHHHHhcCC-CeECCcEEEEEEC
Confidence            345789999999999999999999999 66654444555578999999999999999999999999 9999999999987


Q ss_pred             CCC
Q psy13181        102 DGK  104 (137)
Q Consensus       102 ~~~  104 (137)
                      ..+
T Consensus        85 ~~~   87 (103)
T d2cpya1          85 TLE   87 (103)
T ss_dssp             CHH
T ss_pred             CHH
Confidence            643

>d2adca2 d.58.7.1 (A:444-531) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=3.6e-17  Score=97.76  Aligned_cols=76  Identities=17%  Similarity=0.319  Sum_probs=66.3

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee-cCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV-DGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l-~g~~l~v~~  100 (137)
                      +.++|||+|||.++++++|+++|++| .+..+.+...    +.+++|||+|.+.++|.+|+. |++ ..| +|+.|+|.+
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~~~----~~~~~afV~f~~~~~A~~A~~~l~~-~~i~~g~~l~v~~   83 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ----KDRKMALIQMGSVEEAVQALIDLHN-HDLGENHHLRVSF   83 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS----SSTTCEEEEESSHHHHHHHHHHHTT-CBSSSSCBCEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEeee----cccceeEEEECCHHHHHHHHHhccC-CEecCCCEEEEEe
Confidence            46799999999999999999999999 8877766543    346799999999999999999 999 877 589999999


Q ss_pred             cCCC
Q psy13181        101 ADGK  104 (137)
Q Consensus       101 a~~~  104 (137)
                      ++++
T Consensus        84 sk~~   87 (88)
T d2adca2          84 SKST   87 (88)
T ss_dssp             CSSC
T ss_pred             CCCC
Confidence            8753

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=1.6e-17  Score=97.65  Aligned_cols=74  Identities=19%  Similarity=0.426  Sum_probs=64.8

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~  104 (137)
                      +|||+|||.++++++|+++|++| .+..+.+..      .++||||+|.+.++|.+|++ |++...+.|++|.|.++.++
T Consensus         3 ~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~------~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a~~k   76 (80)
T d2cqha1           3 KLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL------KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSVSK   76 (80)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE------ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECCCC
T ss_pred             EEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec------ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEcCCc
Confidence            69999999999999999999999 766555543      35799999999999999999 99845799999999999987


Q ss_pred             CC
Q psy13181        105 RN  106 (137)
Q Consensus       105 ~~  106 (137)
                      ..
T Consensus        77 ~~   78 (80)
T d2cqha1          77 KL   78 (80)
T ss_dssp             CC
T ss_pred             Cc
Confidence            64

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=6.8e-17  Score=100.08  Aligned_cols=75  Identities=19%  Similarity=0.278  Sum_probs=67.8

Q ss_pred             CceEEEcCCCC-CCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         25 PYTAFVGNLPN-GITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        25 ~~~l~v~nlp~-~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..+|||+|||+ .+++++|+++|++| .|..|.+++++     +|+|||+|.+.++|.+|+. |++ ..|.|+.|+|.++
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~-----kg~afV~f~~~~~A~~ai~~lng-~~l~g~~l~v~~s   75 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK-----KENALVQMADGNQAQLAMSHLNG-HKLHGKPIRITLS   75 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT-----SCCEEEEESCHHHHHHHHHHHTT-CBCSSSBCEEECC
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc-----cceEEEEECCHHHHHHHHHHhCC-CEECCEEEEEEEC
Confidence            46899999965 59999999999999 99999998764     5799999999999999999 999 9999999999998


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      +.+.
T Consensus        76 ~~~~   79 (109)
T d2adca1          76 KHQN   79 (109)
T ss_dssp             SCCC
T ss_pred             CCCC
Confidence            7554

>d2cq1a1 d.58.7.1 (A:51-138) Polypyrimidine tract-binding protein 2, PTBP2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein 2, PTBP2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=3.2e-16  Score=93.54  Aligned_cols=78  Identities=14%  Similarity=0.187  Sum_probs=68.7

Q ss_pred             CCCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h--CCCeeecCeEE
Q psy13181         21 PTEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K--DGRITVDGLQV   96 (137)
Q Consensus        21 ~~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l--~~~~~l~g~~l   96 (137)
                      ..++.++|||+|||..+++++|.++|++| .|..+.+..+      +++|||+|.+.++|.+|+. +  ++ ..+.|++|
T Consensus         4 ~~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~~------~~~afV~f~~~e~A~~a~~~~~~~~-~~~~g~~l   76 (88)
T d2cq1a1           4 DGAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLKG------KNQAFLELATEEAAITMVNYYSAVT-PHLRNQPI   76 (88)
T ss_dssp             CSSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSC-CEETTEEC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHhccccccccccccc------ceEEEEEeCCHHHHHHHHHHHccCC-CccCCCEE
Confidence            34567899999999999999999999999 9999988754      3599999999999999998 5  56 89999999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      +|.+++.++
T Consensus        77 ~v~~sk~~~   85 (88)
T d2cq1a1          77 YIQYSNHKE   85 (88)
T ss_dssp             EEEECSCSS
T ss_pred             EEEECCCCC
Confidence            999998654

>d2disa1 d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hypothetical protein FLJ20273
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=3.1e-17  Score=99.58  Aligned_cols=82  Identities=17%  Similarity=0.259  Sum_probs=71.6

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-c-eeEEEEeecC-CCCCeecEEEEEEcCHHHHHHHHH-hCCC-eeecCeEEEEEe
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-K-LVSVRLVKDK-ETDRFKGFCYVEFVDVENLRQALL-KDGR-ITVDGLQVRLDI  100 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~-i~~i~~~~~~-~t~~~~g~~fv~f~~~~~a~~al~-l~~~-~~l~g~~l~v~~  100 (137)
                      ++|||+|||..+++++|+++|++| . +..+.++.+. .++.++|||||+|.+.++|..|+. |++. ..+.++.|.|.+
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~   81 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDW   81 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEE
Confidence            579999999999999999999999 4 8889888874 468899999999999999999999 8641 567899999999


Q ss_pred             cCCCCCC
Q psy13181        101 ADGKRND  107 (137)
Q Consensus       101 a~~~~~~  107 (137)
                      |.++...
T Consensus        82 A~p~~~~   88 (96)
T d2disa1          82 AEPEIDV   88 (96)
T ss_dssp             SCSSCST
T ss_pred             cCCCCCC
Confidence            9876643

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=1.3e-16  Score=92.60  Aligned_cols=71  Identities=14%  Similarity=0.292  Sum_probs=62.8

Q ss_pred             EEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCCC
Q psy13181         28 AFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGKR  105 (137)
Q Consensus        28 l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~~  105 (137)
                      |||+|||+++++++|+++|++|++..+.+.      +.+++|||+|.+.++|.+|+. ||+ ..+.|++|.|+++..+.
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g~~~~~~~------~~~g~afv~f~~~~~A~~Ai~~ln~-~~~~g~~l~V~~a~~d~   72 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYELKYCFVD------KYKGTAFVTLLNGEQAEAAINTFHQ-SRLRERELSVQLQPTDA   72 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSCEEEEEEE------TTTTEEEEEESSHHHHHHHHHHHTT-EESSSCEEEEEECCSTT
T ss_pred             CEEeCCCCcCCHHHHHHHHhcccccceeec------ccceeEEEEECCHHHHHHHHHHhCC-ccCCCCEEEEEEeCCCC
Confidence            799999999999999999999965555442      456799999999999999999 999 99999999999997654

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=3.6e-17  Score=98.38  Aligned_cols=79  Identities=19%  Similarity=0.421  Sum_probs=68.5

Q ss_pred             CCceEEEcCCCCCCCHHHHHh----cCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEE
Q psy13181         24 PPYTAFVGNLPNGITQGDVER----FFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVR   97 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~----~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~   97 (137)
                      +.++|||+|||+.+++++|++    +|++| .|..|.+..   ++.++++|||+|.+.++|..|+. +|+ ..++|+.|.
T Consensus         2 P~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~---~~~~~g~afV~F~~~~~A~~A~~~~~~-~~~~g~~l~   77 (91)
T d1nu4a_           2 PNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR---SLKMRGQAFVIFKEVSSATNALRSMQG-FPFYDKPMR   77 (91)
T ss_dssp             CCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH---HHHHTTCEEEEESSHHHHHHHHHHHTT-CEETTEECE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEee---eccCCCceEEEECCHHHHHHHHHHhCC-CEECCEEEE
Confidence            357999999999999999865    46888 888887643   45678999999999999999999 999 999999999


Q ss_pred             EEecCCCCC
Q psy13181         98 LDIADGKRN  106 (137)
Q Consensus        98 v~~a~~~~~  106 (137)
                      |.+|++++.
T Consensus        78 v~~ak~~~~   86 (91)
T d1nu4a_          78 IQYAKTDSD   86 (91)
T ss_dssp             EEECSSCCT
T ss_pred             EEEeCCCch
Confidence            999987653

>d2bz2a1 d.58.7.1 (A:35-113) Negative elongation factor E, NELF-E {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Negative elongation factor E, NELF-E
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.68  E-value=9.4e-17  Score=94.11  Aligned_cols=74  Identities=18%  Similarity=0.300  Sum_probs=66.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ...++|||+||+  +++++|+++|++| .|..+.+.++      +++|||+|.+.++|..|+. |++ ..|+|+.|+|.+
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~~------~~~afV~f~~~~~A~~Ai~~lng-~~~~g~~l~V~~   73 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDPP------RNCAFVTYEKMESADQAVAELNG-TQVESVQLKVNI   73 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEETT------TTEEEEECSSHHHHHHHHHHHTT-CBCSSCBCEEEE
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeeccC------CCEEEEEEcccHHHHHHHHHhCC-CEECCEEEEEEE
Confidence            345799999986  8999999999999 9999988644      4599999999999999999 999 999999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      +++++
T Consensus        74 a~~~P   78 (79)
T d2bz2a1          74 ARKQP   78 (79)
T ss_dssp             CCSSC
T ss_pred             ecCCC
Confidence            98664

>d1wexa_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprotein L-like {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoprotein L-like
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.68  E-value=6.1e-16  Score=95.09  Aligned_cols=81  Identities=15%  Similarity=0.206  Sum_probs=70.2

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h--CCCeeecCeEEE
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K--DGRITVDGLQVR   97 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l--~~~~~l~g~~l~   97 (137)
                      ..+..+|||+|||..++|++|..+|++| .|..+.+.++      +++|||+|.+.++|..|+. +  ++ +.+.+++|+
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~~------k~~AfV~f~~~e~A~~ai~~~~~~~-~~~~g~~l~   84 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMPF------KRQALVEFENIDSAKECVTFAADVP-VYIAGQQAF   84 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEETT------TTEEEEEESSHHHHHHHHHHHHHSC-CBSSSSBCE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEec------ceeEEEEeCCHHHHHHHHHHHcCCC-cEEeeEEEE
Confidence            3467899999999999999999999999 9999988754      4599999999999999998 6  45 788999999


Q ss_pred             EEecCCCCCCCC
Q psy13181         98 LDIADGKRNDNK  109 (137)
Q Consensus        98 v~~a~~~~~~~~  109 (137)
                      |.+++.++..+.
T Consensus        85 v~~s~~~~~~~~   96 (104)
T d1wexa_          85 FNYSTSKRITRP   96 (104)
T ss_dssp             EEECSSSSCCCS
T ss_pred             EEEcCCCccCCC
Confidence            999987665444

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=7.3e-17  Score=100.20  Aligned_cols=75  Identities=20%  Similarity=0.156  Sum_probs=67.4

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|||+|||..+++++|+++|++| .|..|.+..      .+++|||+|.+.++|.+|+. ||+ ..|.|+.|.|+++
T Consensus         9 ~~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~------~kg~afV~f~~~~~A~~A~~~lng-~~~~gr~l~v~~a   81 (111)
T d1whxa_           9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE------GGITAIVEFLEPLEARKAFRHLAY-SKFHHVPLYLEWA   81 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS------SSSCEEEEESCHHHHHHHHHHHTT-CBSSSSBCEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec------cCceEEEEEcCHHHHHHHHHHHcC-CccCCCeEEEEEC
Confidence            34789999999999999999999999 999987742      46799999999999999999 999 9999999999998


Q ss_pred             CCCC
Q psy13181        102 DGKR  105 (137)
Q Consensus       102 ~~~~  105 (137)
                      ....
T Consensus        82 ~~~~   85 (111)
T d1whxa_          82 PIGV   85 (111)
T ss_dssp             ETTT
T ss_pred             CCCc
Confidence            6543

>d3begb1 d.58.7.1 (B:121-207) Splicing factor, arginine/serine-rich 1, SFRS1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor, arginine/serine-rich 1, SFRS1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=1.5e-17  Score=99.37  Aligned_cols=71  Identities=21%  Similarity=0.226  Sum_probs=64.6

Q ss_pred             eEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCCC
Q psy13181         27 TAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        27 ~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~~  104 (137)
                      +|||+|||+.+++++|+++|++| .|..+.+..+       |+|||+|.+.++|++||. |++ ..|.|+.|+|.++..+
T Consensus         2 rvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~-------g~afV~f~~~~~a~~Ai~~l~g-~~~~g~~i~v~~~~~~   73 (87)
T d3begb1           2 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD-------GTGVVEFVRKEDMTYAVRKLDN-TKFRSHEGETAYIRVK   73 (87)
T ss_dssp             CEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT-------SEEEEEESSHHHHHHHHHHHTT-CBCCCTTSCCCBCEEE
T ss_pred             eEEEECCCCcCCHHHHHHHHhhhccccccccccc-------ceeeEEeCCHHHHHHHHHHhCC-CEECCcEeEEeEEecC
Confidence            69999999999999999999999 9999987643       699999999999999999 999 9999999998887654


Q ss_pred             C
Q psy13181        105 R  105 (137)
Q Consensus       105 ~  105 (137)
                      .
T Consensus        74 ~   74 (87)
T d3begb1          74 V   74 (87)
T ss_dssp             E
T ss_pred             c
Confidence            4

>d1whya_ d.58.7.1 (A:) Putative RNA-binding protein 15B, Rbm15b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Putative RNA-binding protein 15B, Rbm15b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.67  E-value=1.9e-16  Score=96.28  Aligned_cols=76  Identities=21%  Similarity=0.419  Sum_probs=67.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecC--eEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDG--LQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g--~~l~v   98 (137)
                      .+.++|||+|||+++++++|+++|++| .|..+.+.++      +++|||+|.+.++|..|++ |++ ..|.+  ++|+|
T Consensus        15 ~Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~~------~~~afV~f~~~~~A~~A~~~l~~-~~i~g~~~~l~v   87 (97)
T d1whya_          15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVKG------DSFAYIQYESLDAAQAACAKMRG-FPLGGPDRRLRV   87 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECSS------SCCEEEEESSHHHHHHHHHHHTT-CBCSSSSCBCEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeecc------ccEEEeccCCHHHHHHHHHHhCC-CEeCCCceEEEE
Confidence            345799999999999999999999999 9999988754      4599999999999999999 999 88876  58999


Q ss_pred             EecCCCC
Q psy13181         99 DIADGKR  105 (137)
Q Consensus        99 ~~a~~~~  105 (137)
                      .++++.+
T Consensus        88 ~~ak~~~   94 (97)
T d1whya_          88 DFAKSGP   94 (97)
T ss_dssp             EECCCCC
T ss_pred             EeCCCCC
Confidence            9988654

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=9.1e-16  Score=102.56  Aligned_cols=83  Identities=19%  Similarity=0.404  Sum_probs=77.3

Q ss_pred             CCCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEe
Q psy13181         22 TEPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDI  100 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~  100 (137)
                      ....++|||+|||..+++++|+++|+.| .+..+.++.++.++.++|+|||+|.+.++|.+|+++++ ..|+|+.|.|.+
T Consensus        94 ~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~~~~-~~~~G~~i~V~~  172 (183)
T d1u1qa_          94 HLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQKY-HTVNGHNCEVRK  172 (183)
T ss_dssp             TCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHTSSC-EEETTEEEEEEE
T ss_pred             ccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecccccCccceeEEEEECCHHHHHHHHHhCC-CeECCEEEEEEe
Confidence            4456899999999999999999999999 99999999999999999999999999999999999888 899999999999


Q ss_pred             cCCCC
Q psy13181        101 ADGKR  105 (137)
Q Consensus       101 a~~~~  105 (137)
                      |.+++
T Consensus       173 A~~k~  177 (183)
T d1u1qa_         173 ALSKQ  177 (183)
T ss_dssp             CCCHH
T ss_pred             cCCcc
Confidence            98764

>d2adba1 d.58.7.1 (A:177-284) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=7.2e-16  Score=95.35  Aligned_cols=79  Identities=16%  Similarity=0.212  Sum_probs=69.3

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee--cCeEEEE
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV--DGLQVRL   98 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l--~g~~l~v   98 (137)
                      .+..+|||+|||..+++++|+++|++| .|..|.++.++    .+++|||+|.+.++|+.|+. |++ ..|  .+.+|.|
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~~~----~~g~aFV~f~~~e~A~~Ai~~ln~-~~l~~~~~~l~v   79 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFTKN----NQFQALLQYADPVSAQHAKLSLDG-QNIYNACCTLRI   79 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEEET----TEEEEEEEESCHHHHHHHHHHHHS-CCSSTTCCCCEE
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEeeC----CCCeEEEEECCHHHHHHHHHHHCC-CEeccCCcEEEE
Confidence            455789999999999999999999999 99999888764    37899999999999999999 999 777  5788999


Q ss_pred             EecCCCCC
Q psy13181         99 DIADGKRN  106 (137)
Q Consensus        99 ~~a~~~~~  106 (137)
                      .+++++..
T Consensus        80 ~~s~~~~~   87 (108)
T d2adba1          80 DFSKLTSL   87 (108)
T ss_dssp             EECSSCSC
T ss_pred             EecCCccc
Confidence            99876543

>d1x4da1 d.58.7.1 (A:8-96) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=3.8e-15  Score=89.04  Aligned_cols=77  Identities=12%  Similarity=0.149  Sum_probs=67.6

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-h--CCCeeecCeEE
Q psy13181         22 TEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-K--DGRITVDGLQV   96 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l--~~~~~l~g~~l   96 (137)
                      ...+++|||+|||.. ++++||.++|++| .|..|.++.++      ++|||+|.+.++|..|+. +  ++ ..+.|++|
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~~k------~~afV~f~~~~~A~~A~~~l~~~~-~~~~gr~l   77 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILNKI------NEAFIEMATTEDAQAAVDYYTTTP-ALVFGKPV   77 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECSSS------SCEEEEESSHHHHHHHHHHHHHSC-CEETTEEC
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeeccc------eEEEEEEcchhhHHHHHHHHhhCC-CccCCceE
Confidence            456689999999986 7899999999999 99999997654      489999999999999998 6  56 89999999


Q ss_pred             EEEecCCCC
Q psy13181         97 RLDIADGKR  105 (137)
Q Consensus        97 ~v~~a~~~~  105 (137)
                      +|.+++...
T Consensus        78 ~V~~s~~~~   86 (89)
T d1x4da1          78 RVHLSQKYK   86 (89)
T ss_dssp             EEEEECCCT
T ss_pred             EEEECCCcc
Confidence            999998654

>d1x4fa1 d.58.7.1 (A:8-106) Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Matrin 3
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=4.3e-15  Score=90.45  Aligned_cols=78  Identities=18%  Similarity=0.267  Sum_probs=67.7

Q ss_pred             CCCCceEEEcCCCCC-CCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH---hCCCeeecCeEE
Q psy13181         22 TEPPYTAFVGNLPNG-ITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL---KDGRITVDGLQV   96 (137)
Q Consensus        22 ~~~~~~l~v~nlp~~-~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~---l~~~~~l~g~~l   96 (137)
                      ....++|||+|||.+ +++++|.++|++| .|..+.++.+      +++|||+|.+.++|..|+.   +++ ..+.|+.|
T Consensus        15 ~~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~~------k~~afV~f~~~~~A~~Ai~~~~~~~-~~~~gr~l   87 (99)
T d1x4fa1          15 QELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMRM------KSQAFIEMETREDAMAMVDHCLKKA-LWFQGRCV   87 (99)
T ss_dssp             SCCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEETT------TTEEEEECSSHHHHHHHHHHHHHSC-CCSSSSCC
T ss_pred             CCCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEeec------CCcEEEEecchHHHHHHHHHHhcCC-ceECCEEE
Confidence            345689999999985 8999999999999 9999988755      3599999999999999986   577 89999999


Q ss_pred             EEEecCCCCC
Q psy13181         97 RLDIADGKRN  106 (137)
Q Consensus        97 ~v~~a~~~~~  106 (137)
                      +|.+++.+++
T Consensus        88 ~V~~s~~~~~   97 (99)
T d1x4fa1          88 KVDLSEKYKK   97 (99)
T ss_dssp             EEEEECSCSS
T ss_pred             EEEEcCCccc
Confidence            9999976543

>d1u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=2.1e-17  Score=99.19  Aligned_cols=76  Identities=30%  Similarity=0.516  Sum_probs=63.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEE-----eecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEE
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRL-----VKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLD   99 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~-----~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~   99 (137)
                      ++|||+|||..++|++|+++|+++ .+..+.+     +.+..++.+++||||+|.+.++|++|+.|++ ..|.|+.|+|+
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~~~~~~~~~~~~~~kg~afV~f~~~e~a~~a~~l~g-~~~~Gr~l~V~   80 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQDKNFAFLEFRSVDETTQAMAFDG-IIFQGQSLKIR   80 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCSSSCSEEECCEETTTTEEEEEESSCTTTTTGGGGSS-CCSSSSCCCCB
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEeccceeeecccCCCceEEEEEeCCHHHHHHHHhhCC-cEECCEEEEEC
Confidence            689999999999999999999887 5443332     3345567788999999999999999988999 99999999997


Q ss_pred             ecC
Q psy13181        100 IAD  102 (137)
Q Consensus       100 ~a~  102 (137)
                      .++
T Consensus        81 r~k   83 (90)
T d1u2fa_          81 RPH   83 (90)
T ss_dssp             CTT
T ss_pred             CCC
Confidence            544

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.50  E-value=5.4e-14  Score=86.22  Aligned_cols=77  Identities=13%  Similarity=0.092  Sum_probs=66.1

Q ss_pred             CCCceEEEcCCCCCC-CH----HHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeE
Q psy13181         23 EPPYTAFVGNLPNGI-TQ----GDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQ   95 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~-~e----~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~   95 (137)
                      ....+|||+||+..+ ++    ++|+++|++| .|..+.+++.      +++|||+|.+.++|.+|+. ||+ ..|+|+.
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k~------~~~afV~f~~~~~A~~Ai~~lng-~~~~g~~   75 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFKS------FKRVRINFSNPLSAADARLRLHK-TEFLGKE   75 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEETT------TTEEEEECSSTTHHHHHHHTSTT-SEETTEE
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEecC------CCEEEEEECCHHHHHHHHHHhcc-cccCCCE
Confidence            345789999999876 33    5688999999 9999988743      4599999999999999999 999 9999999


Q ss_pred             EEEEecCCCCC
Q psy13181         96 VRLDIADGKRN  106 (137)
Q Consensus        96 l~v~~a~~~~~  106 (137)
                      |+|.+++++..
T Consensus        76 l~v~~a~~~~~   86 (104)
T d1weya_          76 MKLYFAQTLHI   86 (104)
T ss_dssp             CEEECCCCSSC
T ss_pred             eEEeecccCCC
Confidence            99999986654

>d1u1qa_ d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear ribonucleoprotein A1 (RNP A1, UP1)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=1.3e-13  Score=91.83  Aligned_cols=79  Identities=25%  Similarity=0.388  Sum_probs=72.6

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecCCC
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIADGK  104 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~~~  104 (137)
                      ++|||+|||+.+++++|+++|++| .|..+.++.+..++.++++|||+|.+.+++.+|+.+++ ..+..+.+.+....+.
T Consensus         7 r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~~~~~~~~~g~afv~f~~~~~a~~a~~~~~-~~~~~~~~~~~~~~~~   85 (183)
T d1u1qa_           7 RKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNARP-HKVDGRVVEPKRAVSR   85 (183)
T ss_dssp             HEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHTCS-CEETTEECEEEECCCT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeeecccCCCccCceecccCCHHHHHHHHHhcC-Ccccccchhhhhhhhc
Confidence            799999999999999999999999 99999999999999999999999999999999999766 7888888888877655


Q ss_pred             C
Q psy13181        105 R  105 (137)
Q Consensus       105 ~  105 (137)
                      .
T Consensus        86 ~   86 (183)
T d1u1qa_          86 E   86 (183)
T ss_dssp             T
T ss_pred             c
Confidence            4

>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=99.35  E-value=4.1e-14  Score=86.77  Aligned_cols=74  Identities=11%  Similarity=0.179  Sum_probs=67.7

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEec
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIA  101 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a  101 (137)
                      ..++|.+++..++|++|+++|++| .|..|.++.+. ++.++|++||+|.+.++|.+|+. |++ ..++|+.|.|+++
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~-~~~~~G~~fV~f~~~~~A~~Ai~~lng-~~~~gr~i~v~~s  103 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNL-GDHLVGNVYVKFRREEDAEKAVIDLNN-RWFNGQPIHAELS  103 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSS-SSSSEEEEEEEESCHHHHHHHHHHHTT-CEETTEECCEEEC
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCC-CCCEeeEEEEEEechhHHHHHHHHHCC-CEECCEEEEEEEC
Confidence            457788888889999999999999 99999998764 68999999999999999999999 999 9999999999985

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=2e-12  Score=80.17  Aligned_cols=72  Identities=10%  Similarity=0.103  Sum_probs=58.8

Q ss_pred             CCceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCH-HHHHHHHH-hCCCeeecCeEEEEEe
Q psy13181         24 PPYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDV-ENLRQALL-KDGRITVDGLQVRLDI  100 (137)
Q Consensus        24 ~~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~-~~a~~al~-l~~~~~l~g~~l~v~~  100 (137)
                      ....+||+|||..+|+++|+++|++| .|..|.++.+      ++||||.|.+. ++|..|+. +++ ..+.++.+.|.+
T Consensus        10 g~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~~------kg~gfV~F~~~~~~A~~a~~~~~~-~~l~~~~~~v~~   82 (113)
T d1owxa_          10 GCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG------AKEGIILFKEKAKEALGKAKDANN-GNLQLRNKEVTW   82 (113)
T ss_dssp             CCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTT------CSEEEEEESSCHHHHHHHHHHTTT-SCBCTTSSSEEE
T ss_pred             CCeEEEECCCCCCCCHHHHHHHHHhcCChheEEEecC------CceEEEEecCcHHHHHHHHHHhcC-CceecCceEEEE
Confidence            35677999999999999999999999 9999999754      56999999885 67888888 988 766655555555


Q ss_pred             cC
Q psy13181        101 AD  102 (137)
Q Consensus       101 a~  102 (137)
                      +.
T Consensus        83 ~~   84 (113)
T d1owxa_          83 EV   84 (113)
T ss_dssp             EE
T ss_pred             ee
Confidence            43

>d2cq2a1 d.58.7.1 (A:25-125) Alkylation repair AlkB homolog 8, ALKBH8 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Alkylation repair AlkB homolog 8, ALKBH8
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.32  E-value=1.2e-12  Score=79.60  Aligned_cols=63  Identities=14%  Similarity=0.294  Sum_probs=54.6

Q ss_pred             CCCCceEEEc--CCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeee
Q psy13181         22 TEPPYTAFVG--NLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITV   91 (137)
Q Consensus        22 ~~~~~~l~v~--nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l   91 (137)
                      ..+..+++|.  +||..+++++|+++|++| .|..|.+..+      +++|||+|.+.++|.+|+. ||| ..|
T Consensus        15 ~~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~~------k~~aFV~f~~~e~A~~A~~~lng-~~i   81 (101)
T d2cq2a1          15 SYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPPN------KPYSFARYRTTEESKRAYVTLNG-KEV   81 (101)
T ss_dssp             SSCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCTT------CSCEEEEESSHHHHHHHHHHTTT-CEE
T ss_pred             CCCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeeccC------ccEEEEEECCHHHHHHHHHHhCC-CCC
Confidence            3456788885  599999999999999999 9999887654      4599999999999999999 999 665

>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=99.30  E-value=6.3e-12  Score=76.11  Aligned_cols=80  Identities=19%  Similarity=0.243  Sum_probs=66.4

Q ss_pred             CCCCceEEEcCC--CCCCC---------HHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCC
Q psy13181         22 TEPPYTAFVGNL--PNGIT---------QGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGR   88 (137)
Q Consensus        22 ~~~~~~l~v~nl--p~~~~---------e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~   88 (137)
                      ....++|+|.||  |.++.         +++|+..|++| .|..|.+..+    ..+|++||.|.+.++|.+|+. ||+ 
T Consensus         5 ~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~~----~~~G~~fV~f~~~e~A~~A~~~lng-   79 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFDR----HPDGVASVSFRDPEEADYCIQTLDG-   79 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEETT----CTTCEEEEECSCHHHHHHHHHHSTT-
T ss_pred             CCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccCC----CCccEEEEEECCHHHHHHHHHHhCC-
Confidence            456789999998  54321         26788999999 8999887654    346899999999999999999 999 


Q ss_pred             eeecCeEEEEEecCCCCC
Q psy13181         89 ITVDGLQVRLDIADGKRN  106 (137)
Q Consensus        89 ~~l~g~~l~v~~a~~~~~  106 (137)
                      ..++|++|.|.++.++..
T Consensus        80 ~~~~gr~i~v~~~~g~~~   97 (99)
T d2dita1          80 RWFGGRQITAQAWDGTTD   97 (99)
T ss_dssp             CEETTEECEEEECCSCCC
T ss_pred             cEECCEEEEEEEeCCcCC
Confidence            999999999999887653

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.24  E-value=1.1e-11  Score=72.38  Aligned_cols=71  Identities=13%  Similarity=0.086  Sum_probs=59.3

Q ss_pred             CceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCe-EEEEEecC
Q psy13181         25 PYTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGL-QVRLDIAD  102 (137)
Q Consensus        25 ~~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~-~l~v~~a~  102 (137)
                      ...|+|.++|++++++.| ..|++| .|.++.+..      .++|+||.|.+.++|++||.+|| ..|+|+ .|.|..+.
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~------~~~~~fV~f~~~~~A~~Al~~nG-~~~~g~~~vgV~~~~   75 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSN------TGNWMHIRYQSKLQARKALSKDG-RIFGESIMIGVKPCI   75 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECS------SSSEEEEEESSHHHHHHHHTTTT-CEETTTEECEEEECC
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecC------CCCEEEEEEcccHHHHHHHhcCC-CeECCcEEEEEEeCC
Confidence            357999999999987655 579999 999987743      35799999999999999999999 999997 46788765


Q ss_pred             C
Q psy13181        103 G  103 (137)
Q Consensus       103 ~  103 (137)
                      .
T Consensus        76 ~   76 (81)
T d1wwha1          76 D   76 (81)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=99.13  E-value=3.3e-11  Score=73.44  Aligned_cols=79  Identities=19%  Similarity=0.187  Sum_probs=65.4

Q ss_pred             CCceEEEcCC--CCCCC--------HHHHHhcCcCC-ceeEEEEeecCCCC--CeecEEEEEEcCHHHHHHHHH-hCCCe
Q psy13181         24 PPYTAFVGNL--PNGIT--------QGDVERFFPEQ-KLVSVRLVKDKETD--RFKGFCYVEFVDVENLRQALL-KDGRI   89 (137)
Q Consensus        24 ~~~~l~v~nl--p~~~~--------e~~l~~~f~~~-~i~~i~~~~~~~t~--~~~g~~fv~f~~~~~a~~al~-l~~~~   89 (137)
                      +++.|.|.||  |.++.        .+||+..|++| .|..|.+.++..+.  ...|++||.|.+.++|.+|+. |+| .
T Consensus         3 Ps~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~~~~~~~~~g~vfV~f~~~e~A~~A~~~l~G-r   81 (104)
T d1o0pa_           3 PTEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKIFVEFTSVFDCQKAMQGLTG-R   81 (104)
T ss_dssp             CCSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCTTSSSCTTCCEEEEEESCHHHHHHHHHHHSS-C
T ss_pred             CCcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecCCCCccCCceEEEEEECCHHHHHHHHHHHCC-C
Confidence            4678999998  44432        25788899999 99999988765543  335899999999999999999 999 9


Q ss_pred             eecCeEEEEEecCC
Q psy13181         90 TVDGLQVRLDIADG  103 (137)
Q Consensus        90 ~l~g~~l~v~~a~~  103 (137)
                      .++|+.|.|.+...
T Consensus        82 ~f~gR~v~v~f~~~   95 (104)
T d1o0pa_          82 KFANRVVVTKYCDP   95 (104)
T ss_dssp             CSSSSCCEEEEECH
T ss_pred             EECCeEEEEEEcCH
Confidence            99999999999764

>d1uw4a_ d.58.7.4 (A:) RNA processing protein UPF3x, RRM domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Smg-4/UPF3
domain: RNA processing protein UPF3x, RRM domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.71  E-value=0.00015  Score=42.03  Aligned_cols=76  Identities=12%  Similarity=0.138  Sum_probs=58.1

Q ss_pred             ceEEEcCCCCCCCHHHHHhcCcCC-ceeEEEEeecCCCCCe--ecEEEEEEcCHHHHHHHHH-hCCCeeecC-----eEE
Q psy13181         26 YTAFVGNLPNGITQGDVERFFPEQ-KLVSVRLVKDKETDRF--KGFCYVEFVDVENLRQALL-KDGRITVDG-----LQV   96 (137)
Q Consensus        26 ~~l~v~nlp~~~~e~~l~~~f~~~-~i~~i~~~~~~~t~~~--~g~~fv~f~~~~~a~~al~-l~~~~~l~g-----~~l   96 (137)
                      ++|.|+.||+..+|+++.+.+... .+........+.+.+.  ..-|+|.|.+.+++....+ .++ ..+.+     .+-
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~~f~~Gk~s~~~~~~SRAYi~F~~~~~v~~F~~~f~g-~~F~D~~g~~~~a   80 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYFEFFSNDTSLYPHMYARAYINFKNQEDIILFRDRFDG-YVFLDNKGQEYPA   80 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEEEEEESCCSSTTCCCEEEEEEESSSHHHHHHHHHHTT-CEEECTTCCEEEC
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEEEEeCCCcCCCCCcceEEEEEeCCHHHHHHHHHHcCC-cEEEcCCCCEeee
Confidence            579999999999999999999887 7777777665544332  3568999999999999999 999 66543     334


Q ss_pred             EEEecC
Q psy13181         97 RLDIAD  102 (137)
Q Consensus        97 ~v~~a~  102 (137)
                      .|++|.
T Consensus        81 ~VE~AP   86 (91)
T d1uw4a_          81 IVEFAP   86 (91)
T ss_dssp             EEEECS
T ss_pred             EEEEcC
Confidence            555553

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.81  E-value=0.00096  Score=38.31  Aligned_cols=53  Identities=23%  Similarity=0.316  Sum_probs=43.8

Q ss_pred             HHHhcCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHHhCCCeeecCeEEEEEecC
Q psy13181         41 DVERFFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALLKDGRITVDGLQVRLDIAD  102 (137)
Q Consensus        41 ~l~~~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~l~~~~~l~g~~l~v~~a~  102 (137)
                      +|.+.|..| .+.-++++.+        .-.|+|.+-++|.+|+.+++ .++.|+.|+|....
T Consensus        40 ~Llq~l~~~GeViLvRFv~d--------~mwVTF~dG~SAL~al~l~g-~~v~G~~l~It~~~   93 (95)
T d1ufwa_          40 ELMQTLGSYGTIVLVRINQG--------QMLVTFADSHSALSVLDVDG-MKVKGRAVKISGPS   93 (95)
T ss_dssp             HHHHHHHHHSCCSEEEEETT--------EEEEECSCSHHHHHHHHGGG-SEETTEEEEEECCC
T ss_pred             HHHHHHhhCCeEEEEEEeCC--------eEEEEECCcHHHHHHhccCC-eEEcceEEEEecCC
Confidence            556666677 7777777754        57899999999999999999 99999999998643

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.48  E-value=0.0081  Score=32.67  Aligned_cols=63  Identities=14%  Similarity=0.257  Sum_probs=47.2

Q ss_pred             CCHHHHHh----cCcCC-ceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH-hCCCeeecCeEEEEEecCC
Q psy13181         37 ITQGDVER----FFPEQ-KLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL-KDGRITVDGLQVRLDIADG  103 (137)
Q Consensus        37 ~~e~~l~~----~f~~~-~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~-l~~~~~l~g~~l~v~~a~~  103 (137)
                      .++.+|++    .|.++ .+..+.+..... +  .-.|-|...+.++|..++. ||- ..|+.++|.|.++..
T Consensus         4 L~~kelqq~L~~~f~~h~~V~sv~l~~~~d-g--~~~A~V~v~~~q~A~~~v~~LhR-~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1           4 LSRKELQQLLQEAFARHGKVKSVELSPHTD-Y--QLKAVVQMENLQDAIGAVNSLHR-YKIGSKKILVSLATG   72 (73)
T ss_dssp             SCHHHHHHHHHHHHHHHSCEEEEEECSCCS-T--TCCEEEEESSHHHHHHHHHHHTT-EEETTEEEEEEECCC
T ss_pred             CCHHHHHHHHHHHHHhheeEEEEEEEeccC-C--cEEEEEEcCCHHHHHHHHHHHHH-HhcCCeEEEEEEecC
Confidence            44555544    45666 787776654321 2  2368999999999999999 999 999999999999763

>d1whva_ d.58.7.1 (A:) Poly(A)-specific ribonuclease PARN {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-specific ribonuclease PARN
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.19  E-value=0.0093  Score=34.55  Aligned_cols=55  Identities=15%  Similarity=0.233  Sum_probs=43.4

Q ss_pred             CCCceEEEcCCCCCCCHHHHHhcCcCCceeEEEEeecCCCCCeecEEEEEEcCHHHHHHHHH
Q psy13181         23 EPPYTAFVGNLPNGITQGDVERFFPEQKLVSVRLVKDKETDRFKGFCYVEFVDVENLRQALL   84 (137)
Q Consensus        23 ~~~~~l~v~nlp~~~~e~~l~~~f~~~~i~~i~~~~~~~t~~~~g~~fv~f~~~~~a~~al~   84 (137)
                      +...-||.-.+|..|...||.++|++|+-..|.++-+  |     .|||...+.++++.++.
T Consensus        13 p~RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~VswIdd--T-----Sa~V~L~~~e~~~~v~~   67 (100)
T d1whva_          13 PKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQISWIDD--T-----SAFVSLSQPEQVQIAVN   67 (100)
T ss_dssp             CCCCSEEEEECCTTCCHHHHHHHHTTTCSCCCEEEET--T-----EEEEECSCHHHHHHHHH
T ss_pred             CCcceeEEEeCCcccchhHHHHHhcCCCceEEEEecC--c-----eEEEEecCHHHHHHHHH
Confidence            3344588888999999999999999994444555533  2     79999999999988876