Psyllid ID: psy7530

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60
Protein Sequence
MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG
Secondary Structure (PSIPRED)
ccccccccccEEEEEEEEEEcccccccHHHHHHHHHHHccHHHHHccccEEEEEEccccc
Secondary Structure Prediction (SSPRO)
ccEEEcccHHHHcccEEEEccccccccHHHHHHHHHHcccEEEEccccEEEEEccccccc
Coil and Loop (DISEMBL)
MAAFINISQMVTRTKKIfvgglsapttlEDVKNYFEqfgpvyytacdrfifgispvknfg
Flexible Loop (DISEMBL)
maafinisqmvtrtkKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG
Low Complexity Region (SEG)
MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG
Disordered region (IsUnstruct)
***FINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISP*****
Disordered Region (DISOPRED)
*******SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF*
Disordered Region (DISEMBL)
MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG
Disordered Region (DISPRO)
*AAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAAFINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG
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	60	2.2.26 [Sep-21-2011]
Q9VVE5	369	RNA-binding protein Musas	no	N/A	0.55	0.089	0.909	5e-11
Q61474	362	RNA-binding protein Musas	yes	N/A	0.55	0.091	0.818	6e-08
Q8K3P4	362	RNA-binding protein Musas	yes	N/A	0.55	0.091	0.818	6e-08
O43347	362	RNA-binding protein Musas	no	N/A	0.55	0.091	0.818	9e-08
Q920Q6	346	RNA-binding protein Musas	no	N/A	0.55	0.095	0.818	9e-08
Q96DH6	328	RNA-binding protein Musas	no	N/A	0.55	0.100	0.818	9e-08

>sp|Q9VVE5|MSIR6_DROME RNA-binding protein Musashi homolog Rbp6 OS=Drosophila melanogaster GN=Rbp6 PE=2 SV=3

 Score = 66.2 bits (160), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVK+YFEQFGP+
Sbjct: 112 KMVTRTKKIFVGGLSAPTTLEDVKSYFEQFGPI 144

RNA binding protein that regulates the expression of target mRNAs at the translation level. May play a role in the proliferation and maintenance of stem cells in the central nervous system.
Drosophila melanogaster (taxid: 7227)

>sp|Q61474|MSI1H_MOUSE RNA-binding protein Musashi homolog 1 OS=Mus musculus GN=Msi1 PE=1 SV=1

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct: 103 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 135

RNA binding protein that regulates the expression of target mRNAs at the translation level. Regulates expression of the NOTCH1 antagonist NUMB. Binds RNA containing the sequence 5'-GUUAGUUAGUUAGUU-3' and other sequences containing the pattern 5'-[GA]U(1-3)AGU-3'. May play a role in the proliferation and maintenance of stem cells in the central nervous system.

Mus musculus (taxid: 10090)

>sp|Q8K3P4|MSI1H_RAT RNA-binding protein Musashi homolog 1 OS=Rattus norvegicus GN=Msi1 PE=2 SV=1

 Score = 56.2 bits (134), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct: 103 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 135

RNA binding protein that regulates the expression of target mRNAs at the translation level. Regulates expression of the NOTCH1 antagonist NUMB. Binds RNA containing the sequence 5'-GUUAGUUAGUUAGUU-3' and other sequences containing the pattern 5'-[GA]U(1-3)AGU-3'. May play a role in the proliferation and maintenance of stem cells in the central nervous system.

Rattus norvegicus (taxid: 10116)

>sp|O43347|MSI1H_HUMAN RNA-binding protein Musashi homolog 1 OS=Homo sapiens GN=MSI1 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLS  TT+EDVK YFEQFG V
Sbjct: 103 KMVTRTKKIFVGGLSVNTTVEDVKQYFEQFGKV 135

RNA binding protein that regulates the expression of target mRNAs at the translation level. Regulates expression of the NOTCH1 antagonist NUMB. Binds RNA containing the sequence 5'-GUUAGUUAGUUAGUU-3' and other sequences containing the pattern 5'-[GA]U(1-3)AGU-3'. May play a role in the proliferation and maintenance of stem cells in the central nervous system.

Homo sapiens (taxid: 9606)

>sp|Q920Q6|MSI2H_MOUSE RNA-binding protein Musashi homolog 2 OS=Mus musculus GN=Msi2 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSA T +EDVK YFEQFG V
Sbjct: 104 KMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKV 136

RNA binding protein that regulates the expression of target mRNAs at the translation level. May play a role in the proliferation and maintenance of stem cells in the central nervous system.

Mus musculus (taxid: 10090)

>sp|Q96DH6|MSI2H_HUMAN RNA-binding protein Musashi homolog 2 OS=Homo sapiens GN=MSI2 PE=1 SV=1

 Score = 55.5 bits (132), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSA T +EDVK YFEQFG V
Sbjct: 104 KMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKV 136

RNA binding protein that regulates the expression of target mRNAs at the translation level. May play a role in the proliferation and maintenance of stem cells in the central nervous system.

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	60
357618776	121	hypothetical protein KGM_05192 [Danaus p	0.55	0.272	0.969	1e-10
322803072	162	hypothetical protein SINV_04183 [Solenop	0.533	0.197	0.968	3e-10
161084519	499	RNA-binding protein 6, isoform B [Drosop	0.55	0.066	0.909	4e-10
307200219	75	RNA-binding protein Musashi-like protein	0.55	0.44	0.969	4e-10
345494041	367	PREDICTED: RNA-binding protein Musashi h	0.55	0.089	0.939	4e-10
380014686	410	PREDICTED: RNA-binding protein Musashi h	0.55	0.080	0.939	4e-10
328783731	486	PREDICTED: RNA-binding protein Musashi h	0.55	0.067	0.939	4e-10
350398654	410	PREDICTED: RNA-binding protein Musashi h	0.55	0.080	0.939	4e-10
195375642	247	GJ12977 [Drosophila virilis] gi|19415376	0.533	0.129	0.937	4e-10
195175982	70	GL13180 [Drosophila persimilis] gi|19410	0.533	0.457	0.968	5e-10

>gi|357618776|gb|EHJ71628.1| hypothetical protein KGM_05192 [Danaus plexippus]

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 32/33 (96%), Positives = 32/33 (96%)

Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
          MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP Y
Sbjct: 1  MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPTY 33

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|322803072|gb|EFZ23160.1| hypothetical protein SINV_04183 [Solenopsis invicta]

 Score = 68.9 bits (167), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 31/32 (96%), Positives = 32/32 (100%)

Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP+
Sbjct: 38 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPI 69

Source: Solenopsis invicta

Species: Solenopsis invicta

Genus: Solenopsis

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|161084519|ref|NP_001097631.1| RNA-binding protein 6, isoform B [Drosophila melanogaster] gi|158028569|gb|ABW08559.1| RNA-binding protein 6, isoform B [Drosophila melanogaster]

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVK+YFEQFGP+
Sbjct: 112 KMVTRTKKIFVGGLSAPTTLEDVKSYFEQFGPI 144

Source: Drosophila melanogaster

Species: Drosophila melanogaster

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307200219|gb|EFN80513.1| RNA-binding protein Musashi-like protein 2 [Harpegnathos saltator]

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 32/33 (96%), Positives = 33/33 (100%)

Query: 9  QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV
Sbjct: 43 KMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 75

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345494041|ref|XP_001606007.2| PREDICTED: RNA-binding protein Musashi homolog Rbp6-like [Nasonia vitripennis]

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/33 (93%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP+
Sbjct: 105 KMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPI 137

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380014686|ref|XP_003691353.1| PREDICTED: RNA-binding protein Musashi homolog Rbp6-like [Apis florea]

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/33 (93%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP+
Sbjct: 105 KMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPI 137

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328783731|ref|XP_623522.3| PREDICTED: RNA-binding protein Musashi homolog Rbp6-like isoform 2 [Apis mellifera]

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/33 (93%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP+
Sbjct: 181 KMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPI 213

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350398654|ref|XP_003485263.1| PREDICTED: RNA-binding protein Musashi homolog Rbp6-like [Bombus impatiens]

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 31/33 (93%), Positives = 33/33 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP+
Sbjct: 105 KMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPI 137

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195375642|ref|XP_002046609.1| GJ12977 [Drosophila virilis] gi|194153767|gb|EDW68951.1| GJ12977 [Drosophila virilis]

 Score = 68.6 bits (166), Expect = 4e-10,   Method: Composition-based stats.
 Identities = 30/32 (93%), Positives = 32/32 (100%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP 40
           +MVTRTKKIFVGGLSAPTTLEDVK+YFEQFGP
Sbjct: 122 KMVTRTKKIFVGGLSAPTTLEDVKSYFEQFGP 153

Source: Drosophila virilis

Species: Drosophila virilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195175982|ref|XP_002028657.1| GL13180 [Drosophila persimilis] gi|194108435|gb|EDW30478.1| GL13180 [Drosophila persimilis]

 Score = 68.6 bits (166), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 31/32 (96%), Positives = 32/32 (100%)

Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          MVTRTKKIFVGGLSAPTTLEDVK+YFEQFGPV
Sbjct: 1  MVTRTKKIFVGGLSAPTTLEDVKSYFEQFGPV 32

Source: Drosophila persimilis

Species: Drosophila persimilis

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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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	60
FB|FBgn0260943	369	Rbp6 "RNA-binding protein 6" [	0.55	0.089	0.909	3.7e-11
UNIPROTKB|B4DM51	267	MSI2 "RNA-binding protein Musa	0.6	0.134	0.777	1.5e-09
UNIPROTKB|J3KTC1	141	MSI2 "RNA-binding protein Musa	0.55	0.234	0.818	3.6e-09
UNIPROTKB|H0YHB7	233	MSI1 "RNA-binding protein Musa	0.55	0.141	0.818	4.1e-09
UNIPROTKB|F1NSZ7	262	MSI1 "Uncharacterized protein"	0.55	0.125	0.818	6.6e-09
UNIPROTKB|F1N9H6	273	MSI1 "Uncharacterized protein"	0.55	0.120	0.818	7.5e-09
UNIPROTKB|F1LRH1	329	Msi1 "RNA-binding protein Musa	0.55	0.100	0.818	9.6e-09
MGI|MGI:107376	362	Msi1 "musashi RNA-binding prot	0.55	0.091	0.818	1.2e-08
RGD|628778	362	Msi1 "musashi RNA-binding prot	0.55	0.091	0.818	1.2e-08
UNIPROTKB|Q8K3P4	362	Msi1 "RNA-binding protein Musa	0.55	0.091	0.818	1.2e-08

FB|FBgn0260943 Rbp6 "RNA-binding protein 6" [Drosophila melanogaster (taxid:7227)]

 Score = 160 (61.4 bits), Expect = 3.7e-11, P = 3.7e-11
 Identities = 30/33 (90%), Positives = 33/33 (100%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLSAPTTLEDVK+YFEQFGP+
Sbjct:   112 KMVTRTKKIFVGGLSAPTTLEDVKSYFEQFGPI 144

GO:0003729 "mRNA binding" evidence=NAS

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|B4DM51 MSI2 "RNA-binding protein Musashi homolog 2" [Homo sapiens (taxid:9606)]

 Score = 142 (55.0 bits), Expect = 1.5e-09, P = 1.5e-09
 Identities = 28/36 (77%), Positives = 31/36 (86%)

Query:     6 NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             N+ +MVTRTKKIFVGGLSA T +EDVK YFEQFG V
Sbjct:    40 NLMRMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKV 75

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|J3KTC1 MSI2 "RNA-binding protein Musashi homolog 2" [Homo sapiens (taxid:9606)]

 Score = 135 (52.6 bits), Expect = 3.6e-09, P = 3.6e-09
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLSA T +EDVK YFEQFG V
Sbjct:   100 KMVTRTKKIFVGGLSANTVVEDVKQYFEQFGKV 132

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|H0YHB7 MSI1 "RNA-binding protein Musashi homolog 1" [Homo sapiens (taxid:9606)]

 Score = 136 (52.9 bits), Expect = 4.1e-09, P = 4.1e-09
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK YFEQFG V
Sbjct:    35 KMVTRTKKIFVGGLSVNTTVEDVKQYFEQFGKV 67

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1NSZ7 MSI1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 136 (52.9 bits), Expect = 6.6e-09, P = 6.6e-09
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK YFEQFG V
Sbjct:    14 KMVTRTKKIFVGGLSVNTTVEDVKQYFEQFGKV 46

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1N9H6 MSI1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 136 (52.9 bits), Expect = 7.5e-09, P = 7.5e-09
 Identities = 27/33 (81%), Positives = 29/33 (87%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK YFEQFG V
Sbjct:    14 KMVTRTKKIFVGGLSVNTTVEDVKQYFEQFGKV 46

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0008266 "poly(U) RNA binding" evidence=IEA

UNIPROTKB|F1LRH1 Msi1 "RNA-binding protein Musashi homolog 1" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 9.6e-09, P = 9.6e-09
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct:    70 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 102

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005737 "cytoplasm" evidence=IEA

GO:0005844 "polysome" evidence=IEA

GO:0008266 "poly(U) RNA binding" evidence=IEA

MGI|MGI:107376 Msi1 "musashi RNA-binding protein 1" [Mus musculus (taxid:10090)]

 Score = 137 (53.3 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct:   103 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 135

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0003727 "single-stranded RNA binding" evidence=IDA

GO:0005634 "nucleus" evidence=IDA

GO:0005737 "cytoplasm" evidence=IDA

GO:0005844 "polysome" evidence=IDA

GO:0008266 "poly(U) RNA binding" evidence=IDA

GO:0009725 "response to hormone stimulus" evidence=ISO

RGD|628778 Msi1 "musashi RNA-binding protein 1" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct:   103 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 135

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003723 "RNA binding" evidence=NAS

GO:0003727 "single-stranded RNA binding" evidence=ISO

GO:0005634 "nucleus" evidence=IEA;ISO

GO:0005737 "cytoplasm" evidence=IEA;ISO

GO:0005844 "polysome" evidence=IEA;ISO

GO:0008266 "poly(U) RNA binding" evidence=IEA;ISO

GO:0009725 "response to hormone stimulus" evidence=IMP

GO:0030855 "epithelial cell differentiation" evidence=IEP

UNIPROTKB|Q8K3P4 Msi1 "RNA-binding protein Musashi homolog 1" [Rattus norvegicus (taxid:10116)]

 Score = 137 (53.3 bits), Expect = 1.2e-08, P = 1.2e-08
 Identities = 27/33 (81%), Positives = 30/33 (90%)

Query:     9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +MVTRTKKIFVGGLS  TT+EDVK+YFEQFG V
Sbjct:   103 KMVTRTKKIFVGGLSVNTTVEDVKHYFEQFGKV 135

GO:0000166 "nucleotide binding" evidence=IEA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q61474	MSI1H_MOUSE	No assigned EC number	0.8181	0.55	0.0911	yes	N/A
Q8K3P4	MSI1H_RAT	No assigned EC number	0.8181	0.55	0.0911	yes	N/A
Q9VVE5	MSIR6_DROME	No assigned EC number	0.9090	0.55	0.0894	no	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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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	60
cd12323	74	cd12323, RRM2_MSI, RNA recognition motif 2 in RNA-	2e-11
cd12573	79	cd12573, RRM2_MSI2, RNA recognition motif 2 in RNA	2e-10
cd12572	74	cd12572, RRM2_MSI1, RNA recognition motif 2 in RNA	5e-08
cd12343	66	cd12343, RRM1_2_CoAA_like, RNA recognition motif 1	5e-07
cd12327	80	cd12327, RRM2_DAZAP1, RNA recognition motif 2 in D	2e-06
cd12578	78	cd12578, RRM1_hnRNPA_like, RNA recognition motif 1	3e-06
cd12384	76	cd12384, RRM_RBM24_RBM38_like, RNA recognition mot	3e-06
cd12329	75	cd12329, RRM2_hnRNPD_like, RNA recognition motif 2	3e-06
cd12328	73	cd12328, RRM2_hnRNPA_like, RNA recognition motif 2	5e-06
cd12606	67	cd12606, RRM1_RBM4, RNA recognition motif 1 in ver	8e-06
cd12325	72	cd12325, RRM1_hnRNPA_hnRNPD_like, RNA recognition	8e-06
cd12574	82	cd12574, RRM1_DAZAP1, RNA recognition motif 1 in D	2e-05
cd12330	75	cd12330, RRM2_Hrp1p, RNA recognition motif 2 in ye	2e-05
smart00360	73	smart00360, RRM, RNA recognition motif	2e-05
cd12346	72	cd12346, RRM3_NGR1_NAM8_like, RNA recognition moti	4e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	5e-05
cd12575	74	cd12575, RRM1_hnRNPD_like, RNA recognition motif 1	5e-05
cd12762	81	cd12762, RRM1_hnRNPA2B1, RNA recognition motif 1 i	8e-05
cd12326	79	cd12326, RRM1_hnRNPA0, RNA recognition motif 1 fou	1e-04
cd12757	75	cd12757, RRM1_hnRNPAB, RNA recognition motif 1 in	1e-04
cd12322	71	cd12322, RRM2_TDP43, RNA recognition motif 2 in TA	1e-04
cd12584	80	cd12584, RRM2_hnRNPAB, RNA recognition motif 2 in	2e-04
cd12412	80	cd12412, RRM_DAZL_BOULE, RNA recognition motif in	2e-04
cd12609	68	cd12609, RRM2_CoAA, RNA recognition motif 2 in ver	3e-04
cd12399	78	cd12399, RRM_HP0827_like, RNA recognition motif in	4e-04
cd12756	74	cd12756, RRM1_hnRNPD, RNA recognition motif 1 in h	4e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	6e-04
cd12415	82	cd12415, RRM3_RBM28_like, RNA recognition motif 3	6e-04
cd12761	81	cd12761, RRM1_hnRNPA1, RNA recognition motif 1 in	7e-04
cd12577	76	cd12577, RRM1_Hrp1p, RNA recognition motif 1 in ye	8e-04
cd12759	77	cd12759, RRM1_MSI1, RNA recognition motif 1 in RNA	0.001
cd12580	77	cd12580, RRM2_hnRNPA1, RNA recognition motif 2 in	0.001
cd12585	75	cd12585, RRM2_hnRPDL, RNA recognition motif 2 in h	0.001
cd12361	77	cd12361, RRM1_2_CELF1-6_like, RNA recognition moti	0.001
cd12576	75	cd12576, RRM1_MSI, RNA recognition motif 1 in RNA-	0.002
cd12583	75	cd12583, RRM2_hnRNPD, RNA recognition motif 2 in h	0.003
cd12632	87	cd12632, RRM1_CELF3_4_5_6, RNA recognition motif 1	0.003
cd12382	80	cd12382, RRM_RBMX_like, RNA recognition motif in h	0.003
cd12236	91	cd12236, RRM_snRNP70, RNA recognition motif in U1	0.003

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

 Score = 52.8 bits (127), Expect = 2e-11
 Identities = 20/26 (76%), Positives = 21/26 (80%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLSA TT +DVK YF QFG V
Sbjct: 1  KIFVGGLSANTTEDDVKKYFSQFGKV 26

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|241017 cd12573, RRM2_MSI2, RNA recognition motif 2 in RNA-binding protein Musashi homolog 2 (Musashi-2) and similar proteins

 Score = 50.8 bits (121), Expect = 2e-10
 Identities = 25/30 (83%), Positives = 26/30 (86%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          TRTKKIFVGGLSA T +EDVK YFEQFG V
Sbjct: 1  TRTKKIFVGGLSANTVVEDVKQYFEQFGKV 30

This subgroup corresponds to the RRM2 of Musashi-2 (also termed Msi2) which 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. Musashi-2 contains 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 = 79

>gnl|CDD|241016 cd12572, RRM2_MSI1, RNA recognition motif 2 in RNA-binding protein Musashi homolog 1 (Musashi-1) and similar proteins

 Score = 44.2 bits (104), Expect = 5e-08
 Identities = 21/26 (80%), Positives = 22/26 (84%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLS  TT+EDVK YFEQFG V
Sbjct: 1  KIFVGGLSVNTTVEDVKQYFEQFGKV 26

This subgroup corresponds to the RRM2 of Musashi-1. The mammalian MSI1 gene encoding Musashi-1 (also termed Msi1) is 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. Musashi-1 is evolutionarily conserved from invertebrates to vertebrates. It is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1) and 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. It represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-1 contains 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|240789 cd12343, RRM1_2_CoAA_like, RNA recognition motif 1 and 2 in RRM-containing coactivator activator/modulator (CoAA) and similar proteins

 Score = 41.1 bits (97), Expect = 5e-07
 Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 9/45 (20%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
          K+FVG L   TT E+++  FE++G V  T CD        VKN+G
Sbjct: 1  KLFVGNLPDATTSEELRALFEKYGTV--TECDV-------VKNYG 36

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

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

 Score = 40.4 bits (95), Expect = 2e-06
 Identities = 18/29 (62%), Positives = 20/29 (68%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          RTKKIFVGGL    T  D++ YF QFG V
Sbjct: 1  RTKKIFVGGLPPNVTETDLRKYFSQFGTV 29

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

>gnl|CDD|241022 cd12578, RRM1_hnRNPA_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A subfamily

 Score = 39.7 bits (93), Expect = 3e-06
 Identities = 14/26 (53%), Positives = 20/26 (76%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+F+GGLS  TT + +KNYF Q+G +
Sbjct: 1  KLFIGGLSYETTDDSLKNYFSQWGEI 26

This subfamily corresponds to the RRM1 in 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 = 78

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

 Score = 39.5 bits (93), Expect = 3e-06
 Identities = 14/27 (51%), Positives = 18/27 (66%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           KIFVGGL   TT + ++ YF QFG +
Sbjct: 1  TKIFVGGLPYHTTDDSLRKYFSQFGEI 27

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

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

 Score = 39.7 bits (93), Expect = 3e-06
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLS  TT E ++ YF +FG +
Sbjct: 1  KIFVGGLSPETTEEKIREYFGKFGNI 26

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

 Score = 38.8 bits (91), Expect = 5e-06
 Identities = 14/26 (53%), Positives = 18/26 (69%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FVGGL    T ED++ YF Q+G V
Sbjct: 1  KLFVGGLKEDVTEEDLREYFSQYGNV 26

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|241050 cd12606, RRM1_RBM4, RNA recognition motif 1 in vertebrate RNA-binding protein 4 (RBM4)

 Score = 38.3 bits (89), Expect = 8e-06
 Identities = 16/45 (35%), Positives = 25/45 (55%), Gaps = 9/45 (20%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
          K+FVG L    T +++++ FEQ+G V    CD        +KN+G
Sbjct: 2  KLFVGNLPPEATEQEIRSLFEQYGKV--LECD-------IIKNYG 37

This subgroup corresponds to the RRM1 of RBM4, a ubiquitously expressed splicing factor that has two isoforms, RBM4A (also known as Lark homolog) and RBM4B (also known as RBM30), which are very similar in structure and sequence. RBM4 may function as a translational regulator of stress-associated mRNAs and also plays a role in micro-RNA-mediated gene regulation. RBM4 contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), a CCHC-type zinc finger, and three alanine-rich regions within their C-terminal regions. The C-terminal region may be crucial for nuclear localization and protein-protein interaction. The RRMs, in combination with the C-terminal region, are responsible for the splicing function of RBM4. . Length = 67

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

 Score = 38.3 bits (90), Expect = 8e-06
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +F+GGLS  TT E ++ YF ++G V
Sbjct: 1  LFIGGLSWDTTEESLREYFSKYGEV 25

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

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

 Score = 37.9 bits (88), Expect = 2e-05
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FVGGLS  TT E ++ YF Q+G V
Sbjct: 1  KLFVGGLSWETTQETLRRYFSQYGEV 26

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

>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 = 37.3 bits (87), Expect = 2e-05
 Identities = 16/26 (61%), Positives = 17/26 (65%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGL    T E+ K YF QFG V
Sbjct: 1  KIFVGGLPPDVTEEEFKEYFSQFGKV 26

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|214636 smart00360, RRM, RNA recognition motif

 Score = 37.2 bits (87), Expect = 2e-05
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +FVG L   TT E+++  F +FG V
Sbjct: 1  TLFVGNLPPDTTEEELRELFSKFGKV 26

Length = 73

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

 Score = 36.5 bits (85), Expect = 4e-05
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYYT 44
          +FVGGL    T +++++ F  FG + Y 
Sbjct: 4  VFVGGLDPAVTEDELRSLFGPFGEIVYV 31

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

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

 Score = 36.5 bits (85), Expect = 5e-05
 Identities = 11/25 (44%), Positives = 16/25 (64%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +FVG L   TT ED++  F +FG +
Sbjct: 1  LFVGNLPPDTTEEDLRELFSKFGEI 25

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|241019 cd12575, RRM1_hnRNPD_like, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins

 Score = 36.4 bits (84), Expect = 5e-05
 Identities = 15/25 (60%), Positives = 19/25 (76%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +FVGGLS  TT +D+K YF +FG V
Sbjct: 1  MFVGGLSWDTTKKDLKEYFSKFGEV 25

This subfamily corresponds to the RRM1 in hnRNP D0, hnRNP A/B, hnRNP DL and similar proteins. hnRNP D0 is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP A/B is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP DL (or hnRNP D-like) is a dual functional protein that possesses DNA- and RNA-binding properties. It has been implicated in mRNA biogenesis at the transcriptional and post-transcriptional levels. All members in this 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 = 74

>gnl|CDD|241206 cd12762, RRM1_hnRNPA2B1, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A2/B1 (hnRNP A2/B1) and similar proteins

 Score = 36.2 bits (83), Expect = 8e-05
 Identities = 14/25 (56%), Positives = 21/25 (84%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
          +K+F+GGLS  TT E ++NY+EQ+G
Sbjct: 3  RKLFIGGLSFETTEESLRNYYEQWG 27

This subgroup corresponds to the RRM1 of hnRNP A2/B1 which 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 A2/B1 also functions as a splicing factor that regulates alternative splicing of the tumor suppressors, such as BIN1, WWOX, the antiapoptotic proteins c-FLIP and caspase-9B, the insulin receptor (IR), and the RON proto-oncogene among others. Moreover, the overexpression of hnRNP A2/B1 has been described in many cancers. It functions as a nuclear matrix protein involving in RNA synthesis and the regulation of cellular migration through alternatively splicing pre-mRNA. It may play a role in tumor cell differentiation. hnRNP A2/B1 contains 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 = 81

>gnl|CDD|240772 cd12326, RRM1_hnRNPA0, RNA recognition motif 1 found in heterogeneous nuclear ribonucleoprotein A0 (hnRNP A0) and similar proteins

 Score = 35.5 bits (82), Expect = 1e-04
 Identities = 9/29 (31%), Positives = 19/29 (65%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  K+FVGGL+  T+   ++ +F ++G +
Sbjct: 1  QLCKLFVGGLNLKTSDSGLRRHFTRYGKL 29

This subfamily corresponds to the RRM1 of hnRNP A0 which 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 A0 contains 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 = 79

>gnl|CDD|241201 cd12757, RRM1_hnRNPAB, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) and similar proteins

 Score = 35.7 bits (82), Expect = 1e-04
 Identities = 15/26 (57%), Positives = 21/26 (80%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FVGGLS  T+ +D+K+YF +FG V
Sbjct: 1  KMFVGGLSWDTSKKDLKDYFTKFGEV 26

This subgroup corresponds to the RRM1 of hnRNP A/B, also termed APOBEC1-binding protein 1 (ABBP-1), which is an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP A/B contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long C-terminal glycine-rich domain that contains a potential ATP/GTP binding loop. . Length = 75

>gnl|CDD|240768 cd12322, RRM2_TDP43, RNA recognition motif 2 in TAR DNA-binding protein 43 (TDP-43) and similar proteins

 Score = 35.3 bits (82), Expect = 1e-04
 Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 4/36 (11%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFI 50
          +K+FVG L+   T ED++ YF QFG V     D +I
Sbjct: 1  RKVFVGRLTEDMTEEDLRQYFSQFGEV----TDVYI 32

This subfamily corresponds to the RRM2 of TDP-43 (also termed TARDBP), a ubiquitously expressed pathogenic protein whose normal function and abnormal aggregation are directly linked to the genetic disease cystic fibrosis, and two neurodegenerative disorders: frontotemporal lobar degeneration (FTLD) and amyotrophic lateral sclerosis (ALS). TDP-43 binds both DNA and RNA, and has been implicated in transcriptional repression, pre-mRNA splicing and translational regulation. TDP-43 is a dimeric protein with two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a C-terminal glycine-rich domain. The RRMs are responsible for DNA and RNA binding; they bind to TAR DNA and RNA sequences with UG-repeats. The glycine-rich domain can interact with the hnRNP family proteins to form the hnRNP-rich complex involved in splicing inhibition. It is also essential for the cystic fibrosis transmembrane conductance regulator (CFTR) exon 9-skipping activity. . Length = 71

>gnl|CDD|241028 cd12584, RRM2_hnRNPAB, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A/B (hnRNP A/B) and similar proteins

 Score = 35.3 bits (81), Expect = 2e-04
 Identities = 14/27 (51%), Positives = 19/27 (70%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KKIFVGGL+   T E ++ YF +FG +
Sbjct: 5  KKIFVGGLNPEATEEKIREYFGEFGEI 31

This subgroup corresponds to the RRM2 of hnRNP A/B, also termed APOBEC1-binding protein 1 (ABBP-1), an RNA unwinding protein with a high affinity for G- followed by U-rich regions. hnRNP A/B has also been identified as an APOBEC1-binding protein that interacts with apolipoprotein B (apoB) mRNA transcripts around the editing site and thus plays an important role in apoB mRNA editing. hnRNP A/B contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long C-terminal glycine-rich domain that contains a potential ATP/GTP binding loop. . Length = 80

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

 Score = 35.3 bits (82), Expect = 2e-04
 Identities = 12/26 (46%), Positives = 20/26 (76%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +IFVGG+   TT E+++++F +FG V
Sbjct: 4  RIFVGGIPPDTTEEELRDFFSRFGSV 29

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

>gnl|CDD|241053 cd12609, RRM2_CoAA, RNA recognition motif 2 in vertebrate RRM-containing coactivator activator/modulator (CoAA)

 Score = 34.5 bits (79), Expect = 3e-04
 Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 2/32 (6%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD 47
          KIFVG +SA  T ++++  FE+FG V    CD
Sbjct: 2  KIFVGNVSATCTSDELRGLFEEFGRV--VECD 31

This subgroup corresponds to the RRM2 of CoAA, also termed RNA-binding protein 14 (RBM14), or paraspeckle protein 2 (PSP2), or synaptotagmin-interacting protein (SYT-interacting protein), a heterogeneous nuclear ribonucleoprotein (hnRNP)-like protein identified as a nuclear receptor coactivator. It mediates transcriptional coactivation and RNA splicing effects in a promoter-preferential manner and is enhanced by thyroid hormone receptor-binding protein (TRBP). CoAA contains two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), and a TRBP-interacting domain. It stimulates transcription through its interactions with coactivators, such as TRBP and CREB-binding protein CBP/p300, via the TRBP-interacting domain and interaction with an RNA-containing complex, such as DNA-dependent protein kinase-poly(ADP-ribose) polymerase complexes, via the RRMs. . Length = 68

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

 Score = 34.1 bits (79), Expect = 4e-04
 Identities = 12/27 (44%), Positives = 16/27 (59%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
           ++VG L    T ED+K+ F QFG V 
Sbjct: 1  NLYVGNLPYNVTEEDLKDLFGQFGEVT 27

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|241200 cd12756, RRM1_hnRNPD, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

 Score = 34.2 bits (78), Expect = 4e-04
 Identities = 14/25 (56%), Positives = 20/25 (80%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +F+GGLS  TT +D+K+YF +FG V
Sbjct: 1  MFIGGLSWDTTKKDLKDYFSKFGEV 25

This subgroup corresponds to the RRM1 of hnRNP D0, also termed AU-rich element RNA-binding protein 1, which is a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP D0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), in the middle and an RGG box rich in glycine and arginine residues in the C-terminal part. Each of RRMs can bind solely to the UUAG sequence specifically. . Length = 74

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

 Score = 33.7 bits (78), Expect = 6e-04
 Identities = 13/25 (52%), Positives = 18/25 (72%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +FVG L   TT ED+K+ F +FGP+
Sbjct: 1  LFVGNLPPDTTEEDLKDLFSKFGPI 25

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

 Score = 33.7 bits (78), Expect = 6e-04
 Identities = 11/29 (37%), Positives = 16/29 (55%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
          + +F+  L    T E++K  F QFG V Y
Sbjct: 1  RTVFIRNLPFDATEEELKELFSQFGEVKY 29

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|241205 cd12761, RRM1_hnRNPA1, RNA recognition motif 1 in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins

 Score = 33.9 bits (77), Expect = 7e-04
 Identities = 13/25 (52%), Positives = 21/25 (84%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFG 39
          +K+F+GGLS  TT E ++++FEQ+G
Sbjct: 3  RKLFIGGLSFETTDESLRSHFEQWG 27

This subgroup corresponds to the RRM1 of hnRNP A1, also termed helix-destabilizing protein, or single-strand RNA-binding protein, or hnRNP core protein A1, and is an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A1 has been characterized as a splicing silencer, often acting in opposition to an activating hnRNP H. It silences exons when bound to exonic elements in the alternatively spliced transcripts of c-src, HIV, GRIN1, and beta-tropomyosin. hnRNP A1 can shuttle between the nucleus and the cytoplasm. Thus, it may be involved in transport of cellular RNAs, including the packaging of pre-mRNA into hnRNP particles and transport of poly A+ mRNA from the nucleus to the cytoplasm. The cytoplasmic hnRNP A1 has high affinity with AU-rich elements, whereas the nuclear hnRNP A1 has high affinity with a polypyrimidine stretch bordered by AG at the 3' ends of introns. hnRNP A1 is also involved in the replication of an RNA virus, such as mouse hepatitis virus (MHV), through an interaction with the transcription-regulatory region of viral RNA. hnRNP A1, together with the scaffold protein septin 6, serves as host protein to form a complex with NS5b and viral RNA, and further plays important roles in the replication of Hepatitis C virus (HCV). hnRNP A1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The RRMs of hnRNP A1 play an important role in silencing the exon and the glycine-rich domain is responsible for protein-protein interactions. . Length = 81

>gnl|CDD|241021 cd12577, RRM1_Hrp1p, RNA recognition motif 1 in yeast nuclear polyadenylated RNA-binding protein 4 (Hrp1p or Nab4p) and similar proteins

 Score = 33.3 bits (76), Expect = 8e-04
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +F+GGL+  TT + ++ YF QFG V
Sbjct: 1  MFIGGLNWETTDDSLREYFGQFGEV 25

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 = 76

>gnl|CDD|241203 cd12759, RRM1_MSI1, RNA recognition motif 1 in RNA-binding protein Musashi homolog 1 (Musashi-1) and similar proteins

 Score = 33.4 bits (76), Expect = 0.001
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+F+GGLS  TT E ++ YF QFG V
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEV 27

This subgroup corresponds to the RRM1 of Musashi-1. The mammalian MSI1 gene encoding Musashi-1 (also termed Msi1) is 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. Musashi-1 is evolutionarily conserved from invertebrates to vertebrates. It is a homolog of Drosophila Musashi and Xenopus laevis nervous system-specific RNP protein-1 (Nrp-1). Musashi-1 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, it represses translation by interacting with the poly(A)-binding protein and competes for binding of the eukaryotic initiation factor-4G (eIF-4G). Musashi-1 contains 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 = 77

>gnl|CDD|241024 cd12580, RRM2_hnRNPA1, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) and similar proteins

 Score = 33.4 bits (76), Expect = 0.001
 Identities = 13/27 (48%), Positives = 19/27 (70%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KKIFVGG+   T    +++YFEQ+G +
Sbjct: 1  KKIFVGGIKEDTEEHHLRDYFEQYGKI 27

This subgroup corresponds to the RRM2 of hnRNP A1, also termed helix-destabilizing protein, or single-strand RNA-binding protein, or hnRNP core protein A1, an abundant eukaryotic nuclear RNA-binding protein that may modulate splice site selection in pre-mRNA splicing. hnRNP A1 has been characterized as a splicing silencer, often acting in opposition to an activating hnRNP H. It silences exons when bound to exonic elements in the alternatively spliced transcripts of c-src, HIV, GRIN1, and beta-tropomyosin. hnRNP A1 can shuttle between the nucleus and the cytoplasm. Thus, it may be involved in transport of cellular RNAs, including the packaging of pre-mRNA into hnRNP particles and transport of poly A+ mRNA from the nucleus to the cytoplasm. The cytoplasmic hnRNP A1 has high affinity with AU-rich elements, whereas the nuclear hnRNP A1 has high affinity with a polypyrimidine stretch bordered by AG at the 3' ends of introns. hnRNP A1 is also involved in the replication of an RNA virus, such as mouse hepatitis virus (MHV), through an interaction with the transcription-regulatory region of viral RNA. Moreover, hnRNP A1, together with the scaffold protein septin 6, serves as host proteins to form a complex with NS5b and viral RNA, and further play important roles in the replication of Hepatitis C virus (HCV). hnRNP A1 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a long glycine-rich region at the C-terminus. The RRMs of hnRNP A1 play an important role in silencing the exon and the glycine-rich domain is responsible for protein-protein interactions. . Length = 77

>gnl|CDD|241029 cd12585, RRM2_hnRPDL, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D-like (hnRNP DL) and similar proteins

 Score = 33.1 bits (75), Expect = 0.001
 Identities = 15/26 (57%), Positives = 18/26 (69%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FVGGLS  TT E +K YF  FG +
Sbjct: 1  KVFVGGLSPDTTEEQIKEYFGAFGEI 26

This subgroup corresponds to the RRM2 of hnRNP DL (or hnRNP D-like), also termed AU-rich element RNA-binding factor, or JKT41-binding protein (protein laAUF1 or JKTBP), 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. hnRNP DL binds single-stranded DNA (ssDNA) or double-stranded DNA (dsDNA) in a non-sequencespecific manner, and interacts with poly(G) and poly(A) tenaciously. It contains two putative two 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|240807 cd12361, RRM1_2_CELF1-6_like, RNA recognition motif 1 and 2 in CELF/Bruno-like family of RNA binding proteins and plant flowering time control protein FCA

 Score = 32.9 bits (76), Expect = 0.001
 Identities = 12/27 (44%), Positives = 17/27 (62%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
          K+FVG L    T EDV+  FE++G + 
Sbjct: 1  KLFVGQLPKTATEEDVRALFEEYGNIE 27

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

>gnl|CDD|241020 cd12576, RRM1_MSI, RNA recognition motif 1 in RNA-binding protein Musashi homolog Musashi-1, Musashi-2 and similar proteins

 Score = 32.8 bits (75), Expect = 0.002
 Identities = 12/25 (48%), Positives = 18/25 (72%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          +F+GGLS  TT E ++ YF +FG +
Sbjct: 1  MFIGGLSWQTTAEGLREYFSKFGEI 25

This subfamily corresponds to the RRM1 in Musashi-1 and Musashi-2. Musashi-1 (also termed Msi1) is 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 = 75

>gnl|CDD|241027 cd12583, RRM2_hnRNPD, RNA recognition motif 2 in heterogeneous nuclear ribonucleoprotein D0 (hnRNP D0) and similar proteins

 Score = 31.9 bits (72), Expect = 0.003
 Identities = 15/26 (57%), Positives = 17/26 (65%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLS  T  E ++ YF  FG V
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGAFGEV 26

This subgroup corresponds to the RRM2 of hnRNP D0, also termed AU-rich element RNA-binding protein 1, a UUAG-specific nuclear RNA binding protein that may be involved in pre-mRNA splicing and telomere elongation. hnRNP D0 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), in the middle and an RGG box rich in glycine and arginine residues in the C-terminal part. Each of RRMs can bind solely to the UUAG sequence specifically. . Length = 75

>gnl|CDD|241076 cd12632, RRM1_CELF3_4_5_6, RNA recognition motif 1 in CUGBP Elav-like family member CELF-3, CELF-4, CELF-5, CELF-6 and similar proteins

 Score = 32.0 bits (73), Expect = 0.003
 Identities = 11/27 (40%), Positives = 17/27 (62%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
          K+FVG +      +D++  FEQFG +Y
Sbjct: 7  KLFVGQIPRNLEEKDLRPLFEQFGKIY 33

This subfamily corresponds to the RRM1 of CELF-3, CELF-4, CELF-5, CELF-6, all of which belong to the CUGBP1 and ETR-3-like factors (CELF) or BRUNOL (Bruno-like) family of RNA-binding proteins that display dual nuclear and cytoplasmic localizations and have been implicated in the regulation of pre-mRNA splicing and in the control of mRNA translation and deadenylation. CELF-3, expressed in brain and testis only, is also known as bruno-like protein 1 (BRUNOL-1), or CAG repeat protein 4, or CUG-BP- and ETR-3-like factor 3, or embryonic lethal abnormal vision (ELAV)-type RNA-binding protein 1 (ETR-1), or expanded repeat domain protein CAG/CTG 4, or trinucleotide repeat-containing gene 4 protein (TNRC4). It plays an important role in the pathogenesis of tauopathies. CELF-3 contains three highly conserved RNA recognition motifs (RRMs), also known as RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains): two consecutive RRMs (RRM1 and RRM2) situated in the N-terminal region followed by a linker region and the third RRM (RRM3) close to the C-terminus of the protein.The effect of CELF-3 on tau splicing is mediated mainly by the RNA-binding activity of RRM2. The divergent linker region might mediate the interaction of CELF-3 with other proteins regulating its activity or involved in target recognition. CELF-4, highly expressed throughout the brain and in glandular tissues, moderately expressed in heart, skeletal muscle, and liver, is also known as bruno-like protein 4 (BRUNOL-4), or CUG-BP- and ETR-3-like factor 4. Like CELF-3, CELF-4 also contain three highly conserved RRMs. The splicing activation or repression activity of CELF-4 on some specific substrates is mediated by its RRM1/RRM2. On the other hand, both RRM1 and RRM2 of CELF-4 can activate cardiac troponin T (cTNT) exon 5 inclusion. CELF-5, expressed in brain, is also known as bruno-like protein 5 (BRUNOL-5), or CUG-BP- and ETR-3-like factor 5. Although its biological role remains unclear, CELF-5 shares same domain architecture with CELF-3. CELF-6, strongly expressed in kidney, brain, and testis, is also known as bruno-like protein 6 (BRUNOL-6), or CUG-BP- and ETR-3-like factor 6. It activates exon inclusion of a cardiac troponin T minigene in transient transfection assays in an muscle-specific splicing enhancer (MSE)-dependent manner and can activate inclusion via multiple copies of a single element, MSE2. CELF-6 also promotes skipping of exon 11 of insulin receptor, a known target of CELF activity that is expressed in kidney. In additiona to three highly conserved RRMs, CELF-6 also possesses numerous potential phosphorylation sites, a potential nuclear localization signal (NLS) at the C terminus, and an alanine-rich region within the divergent linker region. . Length = 87

>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 = 31.8 bits (73), Expect = 0.003
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FV GLS  TT ++++  F +FG V
Sbjct: 3  KLFVSGLSTRTTEKELEALFSKFGRV 28

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

 Score = 32.2 bits (74), Expect = 0.003
 Identities = 10/27 (37%), Positives = 17/27 (62%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K +FV  L+  TT   ++  FE++GP+
Sbjct: 2  KTLFVARLNYDTTESKLRREFEEYGPI 28

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	60
KOG0149|consensus	247		99.55
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	99.23
KOG0125|consensus	376		99.23
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.16
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	99.16
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.15
KOG4205|consensus	311		99.14
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.07
PLN03213	759	repressor of silencing 3; Provisional	99.03
PLN03120	260	nucleic acid binding protein; Provisional	98.96
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.95
KOG0126|consensus	219		98.92
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.9
KOG0107|consensus	195		98.9
KOG0109|consensus	346		98.89
PLN03121	243	nucleic acid binding protein; Provisional	98.86
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	98.86
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.86
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.84
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.84
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.83
KOG0144|consensus	510		98.83
KOG4205|consensus	311		98.82
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.82
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.82
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	98.78
KOG0148|consensus	321		98.77
KOG0113|consensus	335		98.77
KOG0148|consensus	321		98.76
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.76
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	98.75
smart00362	72	RRM_2 RNA recognition motif.	98.67
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	98.57
KOG0144|consensus	510		98.53
smart00360	71	RRM RNA recognition motif.	98.52
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.49
KOG0127|consensus	678		98.49
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	98.48
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	98.47
KOG0105|consensus	241		98.42
KOG0122|consensus	270		98.39
KOG0109|consensus	346		98.32
KOG0114|consensus	124		98.29
KOG0127|consensus	678		98.27
KOG0146|consensus	371		98.26
KOG0123|consensus	369		98.24
KOG0132|consensus	894		98.22
KOG0147|consensus	549		98.21
KOG4207|consensus	256		98.17
KOG0153|consensus	377		98.15
KOG0121|consensus	153		98.14
KOG0130|consensus	170		98.11
KOG0117|consensus	506		98.11
KOG0124|consensus	544		98.02
KOG0145|consensus	360		98.01
KOG0108|consensus	435		98.01
KOG0124|consensus	544		97.97
KOG0117|consensus	506		97.87
KOG0131|consensus	203		97.82
KOG0145|consensus	360		97.78
KOG0129|consensus	520		97.68
KOG0110|consensus	725		97.68
KOG4206|consensus	221		97.52
KOG0111|consensus	298		97.52
KOG0116|consensus	419		97.51
KOG0106|consensus	216		97.42
KOG0533|consensus	243		97.42
KOG0151|consensus	877		97.37
KOG0415|consensus	479		97.36
KOG0123|consensus	369		97.32
KOG4660|consensus	549		97.29
KOG0131|consensus	203		97.18
KOG4661|consensus	940		97.04
KOG0110|consensus	725		96.9
KOG3152|consensus	278		96.86
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	96.64
smart00361	70	RRM_1 RNA recognition motif.	96.64
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	96.62
KOG4210|consensus	285		96.48
KOG4454|consensus	267		96.41
KOG4208|consensus	214		96.38
KOG1190|consensus	492		96.33
KOG4209|consensus	231		96.1
KOG1548|consensus	382		95.96
KOG0146|consensus	371		95.55
KOG1457|consensus	284		95.46
KOG0115|consensus	275		95.44
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	95.4
KOG0129|consensus	520		95.4
KOG4212|consensus	608		95.06
KOG4212|consensus	608		94.78
KOG0120|consensus	500		94.67
KOG0112|consensus	975		94.23
KOG0226|consensus	290		93.87
KOG1855|consensus	484		93.77
COG5175	480	MOT2 Transcriptional repressor [Transcription]	92.84
PF08675	87	RNA_bind: RNA binding domain; InterPro: IPR014789	92.71
KOG1457|consensus	284		92.33
KOG4211|consensus	510		91.87
PF15513	62	DUF4651: Domain of unknown function (DUF4651)	90.87
KOG1190|consensus	492		90.18
KOG0147|consensus	549		89.77
KOG2891|consensus	445		88.76
KOG4206|consensus	221		85.6
KOG4849|consensus	498		84.99
KOG0106|consensus	216		84.67
KOG4676|consensus	479		83.36
KOG0128|consensus	881		81.72
PF03467	176	Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120	81.28
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	80.09

>KOG0149|consensus

Probab=99.55  E-value=5.8e-15  Score=94.01  Aligned_cols=50  Identities=36%  Similarity=0.473  Sum_probs=45.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+....|+|||||+|+++.|+||++|+|||+|.++.|+. +.-..++||||
T Consensus         8 ~DT~~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvit-d~~t~rskGyG   57 (247)
T KOG0149|consen    8 GDTTFTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVIT-DKNTGRSKGYG   57 (247)
T ss_pred             CCceEEEEEEcCcccccchHHHHHHHHHhCceEEEEEEe-ccCCcccccee
Confidence            345678999999999999999999999999999998887 77888899987

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

Probab=99.23  E-value=2.6e-11  Score=72.21  Aligned_cols=47  Identities=28%  Similarity=0.395  Sum_probs=38.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||++++|++|+++|++||+|.++.+.+ +.-..++||||
T Consensus        33 ~~~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~-d~~tg~~kGfa   79 (144)
T PLN03134         33 MSTKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIV-DRETGRSRGFG   79 (144)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEe-cCCCCCcceEE
Confidence            456899999999999999999999999999999887 33334456664

>KOG0125|consensus

Probab=99.23  E-value=1.3e-11  Score=81.94  Aligned_cols=48  Identities=25%  Similarity=0.299  Sum_probs=43.9

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+||+|.|||+...|.||+.+|++||.|.+|+|+-+..|   +||||
T Consensus        92 s~~~pkRLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNERG---SKGFG  139 (376)
T KOG0125|consen   92 SKDTPKRLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNERG---SKGFG  139 (376)
T ss_pred             CCCCCceeEeecCCccccCccHHHHHHhhCceeeEEEEeccCC---CCccc
Confidence            3345678999999999999999999999999999999998888   99998

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.16  E-value=1.1e-10  Score=75.72  Aligned_cols=45  Identities=29%  Similarity=0.294  Sum_probs=38.3

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..|||+|||+++++++|+++|++||.|.+|.|.+ +.-...+||||
T Consensus       270 ~~lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~-d~~t~~skG~a  314 (352)
T TIGR01661       270 YCIFVYNLSPDTDETVLWQLFGPFGAVQNVKIIR-DLTTNQCKGYG  314 (352)
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeE-cCCCCCccceE
Confidence            3699999999999999999999999999999988 33344567765

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

>PF00076 RRM_1: RNA recognition motif

Probab=99.16  E-value=7.6e-11  Score=60.49  Aligned_cols=33  Identities=30%  Similarity=0.597  Sum_probs=31.1

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      |||+|||+++++++|+++|++||.|..+.+..+
T Consensus         1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~   33 (70)
T PF00076_consen    1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN   33 (70)
T ss_dssp             EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE
T ss_pred             cEEcCCCCcCCHHHHHHHHHHhhhccccccccc
Confidence            799999999999999999999999998888874

(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 ....

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.15  E-value=9e-11  Score=76.14  Aligned_cols=46  Identities=17%  Similarity=0.241  Sum_probs=38.3

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+|||+|||++++|++|+++|++||+|.+|.++++. -..++||||
T Consensus         3 ~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~-~~g~s~g~a   48 (352)
T TIGR01661         3 KTNLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDK-VTGQSLGYG   48 (352)
T ss_pred             CcEEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcC-CCCccceEE
Confidence            5789999999999999999999999999999998742 123455664

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

>KOG4205|consensus

Probab=99.14  E-value=7e-11  Score=77.93  Aligned_cols=47  Identities=38%  Similarity=0.583  Sum_probs=42.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++||||+|+|++++|.|++||++||+|.++.|++ +.-..+++|||
T Consensus         5 ~~~KlfiGgisw~ttee~Lr~yf~~~Gev~d~~vm~-d~~t~rsrgFg   51 (311)
T KOG4205|consen    5 ESGKLFIGGLSWETTEESLREYFSQFGEVTDCVVMR-DPSTGRSRGFG   51 (311)
T ss_pred             CCcceeecCcCccccHHHHHHHhcccCceeeEEEec-cCCCCCccccc
Confidence            678999999999999999999999999999999998 55567888876

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.07  E-value=4.7e-10  Score=74.65  Aligned_cols=50  Identities=14%  Similarity=0.127  Sum_probs=40.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||++||+++++++|+++|++||+|.+|.|+++. -..++||||
T Consensus       103 ~~~~~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~-~tg~srGya  152 (346)
T TIGR01659       103 TNNSGTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDY-KTGYSFGYA  152 (346)
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecC-CCCccCcEE
Confidence            34456789999999999999999999999999999998732 233455554

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).

>PLN03213 repressor of silencing 3; Provisional

Probab=99.03  E-value=3.5e-10  Score=78.92  Aligned_cols=43  Identities=26%  Similarity=0.431  Sum_probs=38.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..-+||||||++.++++||+..|++||.|.+|.|++ ..|    ||||
T Consensus         9 ~gMRIYVGNLSydVTEDDLravFSeFGsVkdVEIpR-ETG----RGFA   51 (759)
T PLN03213          9 GGVRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFVR-TKG----RSFA   51 (759)
T ss_pred             cceEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEec-ccC----CceE
Confidence            456899999999999999999999999999999997 455    7775

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.96  E-value=1.2e-09  Score=70.74  Aligned_cols=36  Identities=22%  Similarity=0.358  Sum_probs=33.7

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      .++|||||||+.+++++|+++|+.||+|.+|+|.++
T Consensus         4 ~rtVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d   39 (260)
T PLN03120          4 VRTVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSE   39 (260)
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeec
Confidence            578999999999999999999999999999999874

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

Probab=98.95  E-value=1.4e-09  Score=76.82  Aligned_cols=47  Identities=19%  Similarity=0.342  Sum_probs=40.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||||||+++++++|+++|++||+|.+|.+++ +....++||||
T Consensus       106 ~~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~-D~~TgkskGfA  152 (612)
T TIGR01645       106 IMCRVYVGSISFELREDTIRRAFDPFGPIKSINMSW-DPATGKHKGFA  152 (612)
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEee-cCCCCCcCCeE
Confidence            467899999999999999999999999999999987 43445677775

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.

>KOG0126|consensus

Probab=98.92  E-value=1.5e-10  Score=72.25  Aligned_cols=45  Identities=27%  Similarity=0.334  Sum_probs=41.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      -=+||||||++.||-||--.|+|||+|.+|.+++ +.++..+|||+
T Consensus        36 A~Iyiggl~~~LtEgDil~VFSqyGe~vdinLiR-Dk~TGKSKGFa   80 (219)
T KOG0126|consen   36 AYIYIGGLPYELTEGDILCVFSQYGEIVDINLIR-DKKTGKSKGFA   80 (219)
T ss_pred             eEEEECCCcccccCCcEEEEeeccCceEEEEEEe-cCCCCcccceE
Confidence            3499999999999999999999999999999999 88888999985

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.90  E-value=3e-09  Score=70.85  Aligned_cols=38  Identities=16%  Similarity=0.313  Sum_probs=34.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....+|||+|||+++++++|+++|++||+|.++.|.++
T Consensus       191 ~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d  228 (346)
T TIGR01659       191 IKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRD  228 (346)
T ss_pred             cccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeec
Confidence            34568999999999999999999999999999988873

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

>KOG0107|consensus

Probab=98.90  E-value=2.1e-09  Score=66.60  Aligned_cols=43  Identities=23%  Similarity=0.416  Sum_probs=40.4

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISP   55 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~   55 (60)
                      ..+|||||||+..+++.||+..|..||+|.+|+|.++++||.+
T Consensus         9 ~~~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnPPGfAF   51 (195)
T KOG0107|consen    9 GNTKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNPPGFAF   51 (195)
T ss_pred             CCceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecCCCceE
Confidence            4689999999999999999999999999999999999988874

>KOG0109|consensus

Probab=98.89  E-value=1.1e-09  Score=72.18  Aligned_cols=34  Identities=29%  Similarity=0.567  Sum_probs=31.1

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      -||||||||..+++.+||.+|++||+|.+++|++
T Consensus         3 ~KLFIGNLp~~~~~~elr~lFe~ygkVlECDIvK   36 (346)
T KOG0109|consen    3 VKLFIGNLPREATEQELRSLFEQYGKVLECDIVK   36 (346)
T ss_pred             cchhccCCCcccchHHHHHHHHhhCceEeeeeec
Confidence            4899999999999999999999999997777766

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.86  E-value=6.1e-09  Score=66.87  Aligned_cols=37  Identities=24%  Similarity=0.221  Sum_probs=34.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....+||+||++.+|+++|+++|++||+|.+|+|.++
T Consensus         4 ~g~TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D   40 (243)
T PLN03121          4 GGYTAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS   40 (243)
T ss_pred             CceEEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC
Confidence            3467999999999999999999999999999999884

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

Probab=98.86  E-value=4.7e-09  Score=74.25  Aligned_cols=47  Identities=23%  Similarity=0.379  Sum_probs=39.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+++++++|+++|++||+|.++.+.++. ...+.||||
T Consensus       203 ~~~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~-~tgksKGfG  249 (612)
T TIGR01645       203 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAP-TGRGHKGYG  249 (612)
T ss_pred             ccceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecC-CCCCcCCeE
Confidence            35789999999999999999999999999999998843 234567765

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.

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

Probab=98.86  E-value=3.5e-09  Score=72.36  Aligned_cols=35  Identities=23%  Similarity=0.309  Sum_probs=33.0

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ++.|||+|||++++|++|+++|++||+|.++.+++
T Consensus         2 s~vv~V~nLp~~~te~~L~~~f~~fG~V~~v~i~~   36 (481)
T TIGR01649         2 SPVVHVRNLPQDVVEADLVEALIPFGPVSYVMMLP   36 (481)
T ss_pred             ccEEEEcCCCCCCCHHHHHHHHHhcCCeeEEEEEC
Confidence            46799999999999999999999999999998887

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).

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

Probab=98.84  E-value=7.4e-09  Score=62.34  Aligned_cols=46  Identities=30%  Similarity=0.486  Sum_probs=38.2

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+|||||||+++++++|+++|.+||.|..+.+..+ .-...++|||
T Consensus       115 ~~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d-~~~~~~~g~~  160 (306)
T COG0724         115 NNTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRD-RETGKSRGFA  160 (306)
T ss_pred             CceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeec-cccCccCceE
Confidence            588999999999999999999999999988888873 2344555654

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

Probab=98.84  E-value=8.4e-09  Score=69.19  Aligned_cols=47  Identities=19%  Similarity=0.279  Sum_probs=38.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+.+++++|+++|++||.|.+|.++++ .....+||||
T Consensus        88 ~~~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d-~~~~~skg~a  134 (457)
T TIGR01622        88 DDRTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKD-RNSRRSKGVA  134 (457)
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeec-CCCCCcceEE
Confidence            4567999999999999999999999999999999873 2334456664

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=98.83  E-value=9.2e-09  Score=69.69  Aligned_cols=47  Identities=19%  Similarity=0.319  Sum_probs=38.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||||||+.+++++|+++|++||.|..+.+.++. ....++|||
T Consensus       294 ~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~-~~g~~~g~a  340 (509)
T TIGR01642       294 SKDRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDI-ATGLSKGYA  340 (509)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecC-CCCCcCeEE
Confidence            45789999999999999999999999999999887732 233456664

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

>KOG0144|consensus

Probab=98.83  E-value=5e-09  Score=71.84  Aligned_cols=40  Identities=25%  Similarity=0.469  Sum_probs=36.3

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .++...-|||||.||..++|.|||++|++||.|.+|.+.+
T Consensus        29 ~~d~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~k   68 (510)
T KOG0144|consen   29 NPDGSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIK   68 (510)
T ss_pred             CCCchhhhheeccCCccccHHHHHHHHHHhCceeEEEeec
Confidence            3445677999999999999999999999999999999998

>KOG4205|consensus

Probab=98.82  E-value=5.5e-09  Score=69.02  Aligned_cols=47  Identities=53%  Similarity=0.676  Sum_probs=41.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+++|||+||.++++++++++|+|||.|.++.++. ++...+.+|||
T Consensus        96 ~tkkiFvGG~~~~~~e~~~r~yfe~~g~v~~~~~~~-d~~~~~~rgFg  142 (311)
T KOG4205|consen   96 RTKKIFVGGLPPDTTEEDFKDYFEQFGKVADVVIMY-DKTTSRPRGFG  142 (311)
T ss_pred             ceeEEEecCcCCCCchHHHhhhhhccceeEeeEEee-cccccccccce
Confidence            356899999999999999999999999999988887 77777788876

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

Probab=98.82  E-value=8.1e-09  Score=72.67  Aligned_cols=47  Identities=21%  Similarity=0.364  Sum_probs=39.9

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||++++|++|+++|++||.|.++.++++..|  .+||||
T Consensus        56 ~~~~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG--~sRGfa  102 (578)
T TIGR01648        56 GRGCEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSG--QNRGYA  102 (578)
T ss_pred             CCCCEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCC--CccceE
Confidence            34578999999999999999999999999999999886333  566765

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

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

Probab=98.82  E-value=7.5e-09  Score=71.33  Aligned_cols=44  Identities=25%  Similarity=0.400  Sum_probs=36.7

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .|||||||+++||++|+++|++||+|.+|.|.++ ....+++|||
T Consensus         2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d-~~t~~s~G~a   45 (562)
T TIGR01628         2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRD-SVTRRSLGYG   45 (562)
T ss_pred             eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec-CCCCCcceEE
Confidence            5899999999999999999999999999999873 3333455654

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

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

Probab=98.78  E-value=1.3e-08  Score=70.13  Aligned_cols=47  Identities=19%  Similarity=0.296  Sum_probs=39.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+||++.+++++|+++|++||+|.++.++++..|  .+||||
T Consensus       283 ~~~~~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g--~~~g~g  329 (562)
T TIGR01628       283 AQGVNLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKG--VSRGFG  329 (562)
T ss_pred             cCCCEEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCC--CcCCeE
Confidence            34567999999999999999999999999999999886433  345554

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

>KOG0148|consensus

Probab=98.77  E-value=9.1e-09  Score=67.36  Aligned_cols=45  Identities=20%  Similarity=0.345  Sum_probs=39.1

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCc
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPV   56 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~   56 (60)
                      .+..+.+||||++..++|++||+.|++||.|.+|+|-+ +.||++.
T Consensus       161 sp~NtsVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk-~qGYaFV  205 (321)
T KOG0148|consen  161 SPDNTSVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK-DQGYAFV  205 (321)
T ss_pred             CCCCceEEeCCcCccccHHHHHHhcccCCcceEEEEec-ccceEEE
Confidence            35577899999999999999999999999999999999 5666543

>KOG0113|consensus

Probab=98.77  E-value=1.8e-08  Score=66.53  Aligned_cols=47  Identities=23%  Similarity=0.322  Sum_probs=39.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+.|||+.|+++++|.+|++.|+.||+|..+.++++ .=..++||||
T Consensus       100 Py~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d-~vTgkskGYA  146 (335)
T KOG0113|consen  100 PYKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRD-KVTGKSKGYA  146 (335)
T ss_pred             ccceeeeeeccccccHHHHHHHHHhcCcceeEEEeee-cccCCccceE
Confidence            4578999999999999999999999999999999984 2333567765

>KOG0148|consensus

Probab=98.76  E-value=1.1e-08  Score=67.07  Aligned_cols=46  Identities=28%  Similarity=0.424  Sum_probs=42.5

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .-.+|||-|+.+++.++||+.|.+||+|.++.|+| +..+.++||||
T Consensus        62 hfhvfvgdls~eI~~e~lr~aF~pFGevS~akvir-D~~T~KsKGYg  107 (321)
T KOG0148|consen   62 HFHVFVGDLSPEIDNEKLREAFAPFGEVSDAKVIR-DMNTGKSKGYG  107 (321)
T ss_pred             ceeEEehhcchhcchHHHHHHhccccccccceEee-cccCCccccee
Confidence            44699999999999999999999999999999999 77888899987

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.76  E-value=2.3e-08  Score=51.82  Aligned_cols=33  Identities=33%  Similarity=0.640  Sum_probs=29.0

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      |||+|||+.+++++|+++|++||.|..+.+...
T Consensus         1 v~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~   33 (70)
T PF14259_consen    1 VYISNLPPSTTEEDLRNFFSRFGPVEKVRLIKN   33 (70)
T ss_dssp             EEEESSTTT--HHHHHHHCTTSSBEEEEEEEES
T ss_pred             CEEeCCCCCCCHHHHHHHHHhcCCcceEEEEee
Confidence            799999999999999999999999999988873

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 ....

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

Probab=98.75  E-value=1.7e-08  Score=67.71  Aligned_cols=46  Identities=28%  Similarity=0.416  Sum_probs=37.9

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+|||+|||+.+++++|+++|++||.|..|.+.++. ....+||||
T Consensus       186 ~~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~-~~g~~~g~a  231 (457)
T TIGR01622       186 FLKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDP-ETGRSKGFG  231 (457)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcC-CCCccceEE
Confidence            5789999999999999999999999999999888733 223455554

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.

>smart00362 RRM_2 RNA recognition motif

Probab=98.67  E-value=4.9e-08  Score=48.96  Aligned_cols=33  Identities=36%  Similarity=0.678  Sum_probs=30.8

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ++||+|||+.+++++|+++|++||.|..+.+..
T Consensus         1 ~v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~   33 (72)
T smart00362        1 TLFVGNLPPDVTEEDLKELFSKFGPIESVKIPK   33 (72)
T ss_pred             CEEEcCCCCcCCHHHHHHHHHhcCCEEEEEEec
Confidence            489999999999999999999999999888776

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

Probab=98.57  E-value=1.4e-07  Score=64.55  Aligned_cols=37  Identities=19%  Similarity=0.231  Sum_probs=33.6

Q ss_pred             CcceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          13 RTKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        13 ~~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....|||+||++ .+++++|+++|++||.|.+|.++++
T Consensus       274 ~~~~l~v~nL~~~~vt~~~L~~lF~~yG~V~~vki~~~  311 (481)
T TIGR01649       274 PGSVLMVSGLHQEKVNCDRLFNLFCVYGNVERVKFMKN  311 (481)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHhcCCeEEEEEEeC
Confidence            456899999998 6999999999999999999998873

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).

>KOG0144|consensus

Probab=98.53  E-value=2.7e-08  Score=68.35  Aligned_cols=42  Identities=33%  Similarity=0.421  Sum_probs=38.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGIS   54 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~   54 (60)
                      ..+|||||.|+..++|.++++.|++||.|+++.|.++..|.+
T Consensus       123 ~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~s  164 (510)
T KOG0144|consen  123 EERKLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLS  164 (510)
T ss_pred             cchhhhhhhccccccHHHHHHHHHhhCccchhhheecccccc
Confidence            467999999999999999999999999999999999776654

>smart00360 RRM RNA recognition motif

Probab=98.52  E-value=1.6e-07  Score=46.83  Aligned_cols=30  Identities=30%  Similarity=0.509  Sum_probs=27.8

Q ss_pred             EeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          19 VGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        19 Vg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      |+|||+.+++++|+++|++||.|..+.+..
T Consensus         1 i~~l~~~~~~~~l~~~f~~~g~v~~~~i~~   30 (71)
T smart00360        1 VGNLPPDVTEEELRELFSKFGKIESVRLVR   30 (71)
T ss_pred             CCCCCcccCHHHHHHHHHhhCCEeEEEEEe
Confidence            579999999999999999999999988776

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

Probab=98.49  E-value=3.5e-07  Score=45.98  Aligned_cols=33  Identities=36%  Similarity=0.589  Sum_probs=30.8

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +++|+|||+.+++++|+++|+++|.|..+.+..
T Consensus         1 ~i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~   33 (74)
T cd00590           1 TLFVGNLPPDVTEEDLRELFSKFGKVESVRIVR   33 (74)
T ss_pred             CEEEeCCCCccCHHHHHHHHHhcCCEEEEEEee
Confidence            479999999999999999999999999888876

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).

>KOG0127|consensus

Probab=98.49  E-value=3e-07  Score=64.81  Aligned_cols=45  Identities=31%  Similarity=0.385  Sum_probs=37.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+||.|||++++|++|.++|++||+|..+.++. ..-+.+++|.|
T Consensus       293 ~tVFvRNL~fD~tEEel~~~fskFG~v~ya~iV~-~k~T~~skGtA  337 (678)
T KOG0127|consen  293 KTVFVRNLPFDTTEEELKEHFSKFGEVKYAIIVK-DKDTGHSKGTA  337 (678)
T ss_pred             ceEEEecCCccccHHHHHHHHHhhccceeEEEEe-ccCCCCcccce
Confidence            5799999999999999999999999999987776 44555566543

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

Probab=98.48  E-value=3.5e-07  Score=62.06  Aligned_cols=28  Identities=21%  Similarity=0.630  Sum_probs=24.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQF   38 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~f   38 (60)
                      ....++|||||||+.+++++|+++|+++
T Consensus       172 ~~~~r~lyVgnLp~~~t~~~l~~~F~~~  199 (509)
T TIGR01642       172 TRQARRLYVGGIPPEFVEEAVVDFFNDL  199 (509)
T ss_pred             CccccEEEEeCCCCCCCHHHHHHHHHHH
Confidence            3456789999999999999999999985

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

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

Probab=98.47  E-value=2.4e-07  Score=65.33  Aligned_cols=41  Identities=27%  Similarity=0.353  Sum_probs=35.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcC--CceeEEEEeeeecCCC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQF--GPVYYTACDRFIFGIS   54 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~f--G~V~~v~i~~~~~g~~   54 (60)
                      ..++|||+||++++++++|+++|++|  |+|.+|.+.+ .++|.
T Consensus       232 ~~k~LfVgNL~~~~tee~L~~~F~~f~~G~I~rV~~~r-gfAFV  274 (578)
T TIGR01648       232 KVKILYVRNLMTTTTEEIIEKSFSEFKPGKVERVKKIR-DYAFV  274 (578)
T ss_pred             cccEEEEeCCCCCCCHHHHHHHHHhcCCCceEEEEeec-CeEEE
Confidence            35679999999999999999999999  9999887766 35544

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.

>KOG0105|consensus

Probab=98.42  E-value=2.9e-07  Score=58.00  Aligned_cols=36  Identities=17%  Similarity=0.479  Sum_probs=33.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+++||||||.++.|.|++++|.+||.|.+|++..
T Consensus         5 ~~~~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~   40 (241)
T KOG0105|consen    5 NSRRIYVGNLPGDIREKEIEDLFYKYGRIREIELKN   40 (241)
T ss_pred             ccceEEecCCCcchhhccHHHHHhhhcceEEEEecc
Confidence            468899999999999999999999999999887764

>KOG0122|consensus

Probab=98.39  E-value=7e-07  Score=57.78  Aligned_cols=47  Identities=23%  Similarity=0.309  Sum_probs=41.2

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+=|.|||.+++|+||+++|-+||.|..|.+.+ +.-++.+||||
T Consensus       188 D~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylar-dK~TG~~kGFA  234 (270)
T KOG0122|consen  188 DEATVRVTNLSEDMREDDLEELFRPFGPITRVYLAR-DKETGLSKGFA  234 (270)
T ss_pred             ccceeEEecCccccChhHHHHHhhccCccceeEEEE-ccccCcccceE
Confidence            345588999999999999999999999999999998 66677788875

>KOG0109|consensus

Probab=98.32  E-value=3e-07  Score=60.84  Aligned_cols=37  Identities=27%  Similarity=0.520  Sum_probs=32.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....||+||||++.+++++||..|++||+|.+++|.+
T Consensus        76 k~stkl~vgNis~tctn~ElRa~fe~ygpviecdivk  112 (346)
T KOG0109|consen   76 KASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVK  112 (346)
T ss_pred             CCccccccCCCCccccCHHHhhhhcccCCceeeeeec
Confidence            3467899999999999999999999999997766665

>KOG0114|consensus

Probab=98.29  E-value=2.2e-06  Score=49.72  Aligned_cols=36  Identities=14%  Similarity=0.335  Sum_probs=32.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      -.+-|||.|||+++|.|+.-++|.+||.|..+.|.-
T Consensus        17 vnriLyirNLp~~ITseemydlFGkyg~IrQIRiG~   52 (124)
T KOG0114|consen   17 VNRILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGN   52 (124)
T ss_pred             hheeEEEecCCccccHHHHHHHhhcccceEEEEecC
Confidence            345599999999999999999999999999887764

>KOG0127|consensus

Probab=98.27  E-value=1.2e-06  Score=61.86  Aligned_cols=45  Identities=27%  Similarity=0.442  Sum_probs=42.6

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..|||++||++++.++|.++|+.+|+|..+.+++ ..|++..||||
T Consensus         6 ~TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt-~~gs~~~RGfg   50 (678)
T KOG0127|consen    6 ATLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVT-NKGSSEKRGFG   50 (678)
T ss_pred             ceEEEecCCCccchhHHHHhhhcccCcceeEEec-CCCcccccCcc
Confidence            6799999999999999999999999999999998 88999999997

>KOG0146|consensus

Probab=98.26  E-value=5.3e-07  Score=59.46  Aligned_cols=45  Identities=29%  Similarity=0.398  Sum_probs=38.4

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCcccc
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF   59 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~f   59 (60)
                      +.+|||||-|...-.|||+|++|..||.|+++.|.+-..|  .+||+
T Consensus        18 ~drklfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg--~sKGC   62 (371)
T KOG0146|consen   18 DDRKLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDG--NSKGC   62 (371)
T ss_pred             cchhhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCC--CCCCc
Confidence            5689999999999999999999999999999999984444  34554

>KOG0123|consensus

Probab=98.24  E-value=1.5e-06  Score=58.53  Aligned_cols=40  Identities=18%  Similarity=0.342  Sum_probs=37.5

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCcccc
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF   59 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~f   59 (60)
                      +||-||+++++.++|.+.|+.||+|.++.++++..|   +|||
T Consensus        79 ~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g---~kg~  118 (369)
T KOG0123|consen   79 VFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENG---SKGY  118 (369)
T ss_pred             eeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCC---ceee
Confidence            999999999999999999999999999999998888   6664

>KOG0132|consensus

Probab=98.22  E-value=1.2e-06  Score=63.47  Aligned_cols=35  Identities=29%  Similarity=0.551  Sum_probs=32.1

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ++.||||+|+..++|.||+++|+.||+|.+|.+.-
T Consensus       421 SrTLwvG~i~k~v~e~dL~~~feefGeiqSi~li~  455 (894)
T KOG0132|consen  421 SRTLWVGGIPKNVTEQDLANLFEEFGEIQSIILIP  455 (894)
T ss_pred             eeeeeeccccchhhHHHHHHHHHhcccceeEeecc
Confidence            45799999999999999999999999999997665

>KOG0147|consensus

Probab=98.21  E-value=9.6e-07  Score=61.80  Aligned_cols=45  Identities=24%  Similarity=0.436  Sum_probs=37.8

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+||||||+.++++++|+..|++||.|..|.+.++. -...+||||
T Consensus       279 ~rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~-~tG~skgfG  323 (549)
T KOG0147|consen  279 RRLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDS-ETGRSKGFG  323 (549)
T ss_pred             hhhhhcccccCchHHHHhhhccCcccceeeeecccc-ccccccCcc
Confidence            349999999999999999999999999999998854 223567775

>KOG4207|consensus

Probab=98.17  E-value=3.5e-06  Score=53.83  Aligned_cols=40  Identities=25%  Similarity=0.314  Sum_probs=35.7

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..-.....|-|-||.+.++.++|+..|++||.|.+|.|.+
T Consensus         8 Pdv~gm~SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPr   47 (256)
T KOG4207|consen    8 PDVEGMTSLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPR   47 (256)
T ss_pred             CCcccceeEEecceeccCCHHHHHHHHHHhCcccceeccc
Confidence            3345567899999999999999999999999999999987

>KOG0153|consensus

Probab=98.15  E-value=3.7e-06  Score=56.60  Aligned_cols=42  Identities=21%  Similarity=0.354  Sum_probs=36.5

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..+...+.||||+|-..++|.||+++|.|||+|.++.|..
T Consensus       221 epPeD~~I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~  262 (377)
T KOG0153|consen  221 EPPEDTSIKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILP  262 (377)
T ss_pred             CCCcccceeEEEecccccchhHHHHHHHHhhcCCeeeEEeec
Confidence            345566778899999988999999999999999999987765

>KOG0121|consensus

Probab=98.14  E-value=2.8e-06  Score=50.85  Aligned_cols=35  Identities=26%  Similarity=0.385  Sum_probs=31.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEE
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC   46 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i   46 (60)
                      .+++.+|||||+.-++||.|-++|+..|+|..|.+
T Consensus        34 r~S~tvyVgNlSfyttEEqiyELFs~cG~irriiM   68 (153)
T KOG0121|consen   34 RKSCTVYVGNLSFYTTEEQIYELFSKCGDIRRIIM   68 (153)
T ss_pred             hhcceEEEeeeeeeecHHHHHHHHHhccchheeEe
Confidence            35778999999999999999999999999976643

>KOG0130|consensus

Probab=98.11  E-value=3.7e-06  Score=50.79  Aligned_cols=44  Identities=25%  Similarity=0.368  Sum_probs=36.0

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      -|||.++.+.++|+++.+.|..||+|.++++.- +.-....|||+
T Consensus        74 Ii~VtgvHeEatEedi~d~F~dyGeiKNihLNL-DRRtGy~KGYa  117 (170)
T KOG0130|consen   74 IIFVTGVHEEATEEDIHDKFADYGEIKNIHLNL-DRRTGYVKGYA  117 (170)
T ss_pred             EEEEeccCcchhHHHHHHHHhhcccccceeecc-cccccccccee
Confidence            399999999999999999999999999987654 33444466664

>KOG0117|consensus

Probab=98.11  E-value=2e-06  Score=59.42  Aligned_cols=43  Identities=28%  Similarity=0.409  Sum_probs=36.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCc
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPV   56 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~   56 (60)
                      +.+-|||.||+..+|||.|+++|++||.|..|...+ +.+|.++
T Consensus       258 ~VKvLYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r-DYaFVHf  300 (506)
T KOG0117|consen  258 KVKVLYVRNLMESTTEETLKKLFNEFGKVERVKKPR-DYAFVHF  300 (506)
T ss_pred             heeeeeeeccchhhhHHHHHHHHHhccceEEeeccc-ceeEEee
Confidence            456799999999999999999999999999988777 4666543

>KOG0124|consensus

Probab=98.02  E-value=1e-05  Score=55.39  Aligned_cols=47  Identities=26%  Similarity=0.450  Sum_probs=38.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++||..++++.+|+||+..|+.||+|..+.+.+...| ..-||||
T Consensus       209 ~fnRiYVaSvHpDLSe~DiKSVFEAFG~I~~C~LAr~pt~-~~HkGyG  255 (544)
T KOG0124|consen  209 KFNRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTG-RGHKGYG  255 (544)
T ss_pred             hhheEEeeecCCCccHHHHHHHHHhhcceeeEEeeccCCC-CCcccee
Confidence            4578999999999999999999999999999888873322 3456665

>KOG0145|consensus

Probab=98.01  E-value=1e-05  Score=53.35  Aligned_cols=44  Identities=32%  Similarity=0.354  Sum_probs=40.0

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      -+||=||++++.|.-|=++|.+||.|.+|.|.+ ++-.-..||||
T Consensus       280 ciFvYNLspd~de~~LWQlFgpFGAv~nVKvir-D~ttnkCKGfg  323 (360)
T KOG0145|consen  280 CIFVYNLSPDADESILWQLFGPFGAVTNVKVIR-DFTTNKCKGFG  323 (360)
T ss_pred             EEEEEecCCCchHhHHHHHhCcccceeeEEEEe-cCCccccccee
Confidence            499999999999999999999999999999999 66667788886

>KOG0108|consensus

Probab=98.01  E-value=8.6e-06  Score=56.07  Aligned_cols=45  Identities=24%  Similarity=0.320  Sum_probs=38.5

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+||||+|+++++++|.++|+..|.|.++.++- ++=...+||||
T Consensus        19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~-D~~tG~~~G~~   63 (435)
T KOG0108|consen   19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVY-DRETGKPKGFG   63 (435)
T ss_pred             cceEecCCCCcccHHHHHHHHhccCccceeeecc-cccCCCcCcee
Confidence            7899999999999999999999999999988776 44445567765

>KOG0124|consensus

Probab=97.97  E-value=3.3e-06  Score=57.70  Aligned_cols=46  Identities=20%  Similarity=0.367  Sum_probs=37.8

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+++|||.|++++.|+.||..|.+||+|.++.+.- +.-+.+-|||+
T Consensus       113 McRvYVGSIsfEl~EDtiR~AF~PFGPIKSInMSW-Dp~T~kHKgFA  158 (544)
T KOG0124|consen  113 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSW-DPATGKHKGFA  158 (544)
T ss_pred             hHheeeeeeEEEechHHHHhhccCCCCcceeeccc-ccccccccceE
Confidence            57999999999999999999999999999997664 33444466664

>KOG0117|consensus

Probab=97.87  E-value=2.6e-05  Score=54.06  Aligned_cols=38  Identities=21%  Similarity=0.329  Sum_probs=35.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      +.-+-+|||.||.++.|++|.-+|+.-|+|.++++|.+
T Consensus        81 ~~G~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD  118 (506)
T KOG0117|consen   81 PRGCEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMD  118 (506)
T ss_pred             CCCceEEecCCCccccchhhHHHHHhccceeeEEEeec
Confidence            45567999999999999999999999999999999985

>KOG0131|consensus

Probab=97.82  E-value=1.9e-05  Score=49.40  Aligned_cols=37  Identities=24%  Similarity=0.374  Sum_probs=34.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..+||||||+..++++-|-++|-|.|+|.++.+.+
T Consensus         7 nqd~tiyvgnld~kvs~~~l~EL~iqagpVv~i~iPk   43 (203)
T KOG0131|consen    7 NQDATLYVGNLDEKVSEELLYELFIQAGPVVNLHIPK   43 (203)
T ss_pred             CCCceEEEecCCHHHHHHHHHHHHHhcCceeeeecch
Confidence            4567899999999999999999999999999998886

>KOG0145|consensus

Probab=97.78  E-value=1.3e-05  Score=52.88  Aligned_cols=38  Identities=18%  Similarity=0.388  Sum_probs=31.7

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      ..-+..+|||.+||...|..+|+++|++||.|..-+|.
T Consensus       123 ~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL  160 (360)
T KOG0145|consen  123 DSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRIL  160 (360)
T ss_pred             hhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhh
Confidence            33455689999999999999999999999998655444

>KOG0129|consensus

Probab=97.68  E-value=4.2e-05  Score=53.48  Aligned_cols=45  Identities=33%  Similarity=0.462  Sum_probs=35.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe--eeecCCCCccc
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD--RFIFGISPVKN   58 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~--~~~~g~~~~k~   58 (60)
                      -.+|+|||+|||+++|+.|..-|.+||.+. |+..  ....+..+.||
T Consensus       258 ~S~KVFvGGlp~dise~~i~~~F~~FGs~~-VdWP~k~~~~~~~ppkG  304 (520)
T KOG0129|consen  258 YSRKVFVGGLPWDITEAQINASFGQFGSVK-VDWPGKANSRGRAPPKG  304 (520)
T ss_pred             cccceeecCCCccccHHHHHhhcccccceE-eecCCCccccccCCCCC
Confidence            357899999999999999999999999985 5444  33345555555

>KOG0110|consensus

Probab=97.68  E-value=3.5e-05  Score=55.50  Aligned_cols=47  Identities=23%  Similarity=0.430  Sum_probs=40.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|+|.|||+.++-.+++++|..||.|.+|.+.+. .|..-.+|||
T Consensus       612 ~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlPKK-~~k~a~rGF~  658 (725)
T KOG0110|consen  612 KGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLPKK-IGKGAHRGFG  658 (725)
T ss_pred             ccceeeeeccchHHHHHHHHHHHhcccceeeeccchh-hcchhhccce
Confidence            3679999999999999999999999999999999984 5555556654

>KOG4206|consensus

Probab=97.52  E-value=0.00023  Score=45.40  Aligned_cols=33  Identities=18%  Similarity=0.434  Sum_probs=29.6

Q ss_pred             ceEEEeCCCCCCCHHHHHH----HHhcCCceeEEEEe
Q psy7530          15 KKIFVGGLSAPTTLEDVKN----YFEQFGPVYYTACD   47 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~----~F~~fG~V~~v~i~   47 (60)
                      .+|||.||...+..++|++    +|+|||+|.+|.+-
T Consensus        10 ~TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~   46 (221)
T KOG4206|consen   10 GTLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAF   46 (221)
T ss_pred             ceEeehhccccccHHHHHHHHHHHHHhhCCeEEEEec
Confidence            3999999999999999999    99999999777544

>KOG0111|consensus

Probab=97.52  E-value=4.3e-05  Score=49.41  Aligned_cols=38  Identities=21%  Similarity=0.371  Sum_probs=33.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+.+.||||+|..+++|.-|...|-+||.|.+|.+.-
T Consensus         7 a~~KrtlYVGGladeVtekvLhaAFIPFGDI~dIqiPl   44 (298)
T KOG0111|consen    7 ANQKRTLYVGGLADEVTEKVLHAAFIPFGDIKDIQIPL   44 (298)
T ss_pred             cccceeEEeccchHHHHHHHHHhccccccchhhccccc
Confidence            34567799999999999999999999999999998774

>KOG0116|consensus

Probab=97.51  E-value=0.00015  Score=49.91  Aligned_cols=33  Identities=30%  Similarity=0.511  Sum_probs=30.5

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .|||+|||.+++.++|++.|.+||+|....|..
T Consensus       290 ~i~V~nlP~da~~~~l~~~Fk~FG~Ik~~~I~v  322 (419)
T KOG0116|consen  290 GIFVKNLPPDATPAELEEVFKQFGPIKEGGIQV  322 (419)
T ss_pred             ceEeecCCCCCCHHHHHHHHhhcccccccceEE
Confidence            499999999999999999999999999887765

>KOG0106|consensus

Probab=97.42  E-value=0.00014  Score=46.26  Aligned_cols=34  Identities=18%  Similarity=0.478  Sum_probs=31.0

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .++|||+||+.+.+.||+++|..||.|.++.+..
T Consensus         2 ~rv~vg~~~~~~~~~d~E~~f~~yg~~~d~~mk~   35 (216)
T KOG0106|consen    2 PRVYIGRLPYRARERDVERFFKGYGKIPDADMKN   35 (216)
T ss_pred             CceeecccCCccchhHHHHHHhhccccccceeec
Confidence            5799999999999999999999999999886654

>KOG0533|consensus

Probab=97.42  E-value=0.0003  Score=45.45  Aligned_cols=42  Identities=29%  Similarity=0.311  Sum_probs=34.7

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG   52 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g   52 (60)
                      .....+++|.|||+.++++||+++|++||.+..+-+.-+-.|
T Consensus        80 ~~~~~~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~~G  121 (243)
T KOG0533|consen   80 ETRSTKVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDRAG  121 (243)
T ss_pred             CCCcceeeeecCCcCcchHHHHHHHHHhccceEEeeccCCCC
Confidence            344578999999999999999999999999888766654433

>KOG0151|consensus

Probab=97.37  E-value=0.00027  Score=51.49  Aligned_cols=38  Identities=21%  Similarity=0.320  Sum_probs=35.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      -++.++++|||||++.++|+.|-.-|..||+|.+|.|+
T Consensus       170 gDP~TTNlyv~Nlnpsv~E~~ll~tfGrfgPlasvKim  207 (877)
T KOG0151|consen  170 GDPQTTNLYVGNLNPSVDENFLLRTFGRFGPLASVKIM  207 (877)
T ss_pred             CCCcccceeeecCCccccHHHHHHHhcccCcccceeee
Confidence            35678899999999999999999999999999999877

>KOG0415|consensus

Probab=97.36  E-value=0.00025  Score=48.49  Aligned_cols=41  Identities=27%  Similarity=0.364  Sum_probs=36.6

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+...-|||--|.+-++++||+-.|+.||.|.+++|.+
T Consensus       233 Ad~~PPeNVLFVCKLNPVTtDeDLeiIFSrFG~i~sceVIR  273 (479)
T KOG0415|consen  233 ADVKPPENVLFVCKLNPVTTDEDLEIIFSRFGKIVSCEVIR  273 (479)
T ss_pred             cccCCCcceEEEEecCCcccccchhhHHhhcccceeeeEEe
Confidence            44455667899999999999999999999999999999998

>KOG0123|consensus

Probab=97.32  E-value=0.00033  Score=47.35  Aligned_cols=48  Identities=21%  Similarity=0.317  Sum_probs=39.5

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||-||+..++++.|++.|+.||+|.++.++.+..|  +++|||
T Consensus       267 ~~~~~nl~vknld~~~~~e~L~~~f~~~GeI~s~kv~~~~~g--~skG~g  314 (369)
T KOG0123|consen  267 SLQGANLYVKNLDETLSDEKLRKIFSSFGEITSAKVMVDENG--KSKGFG  314 (369)
T ss_pred             cccccccccccCccccchhHHHHHHhcccceeeEEEEeccCC--CccceE
Confidence            456678999999999999999999999999999888875555  344443

>KOG4660|consensus

Probab=97.29  E-value=0.00025  Score=49.99  Aligned_cols=39  Identities=10%  Similarity=0.099  Sum_probs=33.3

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....+.|+|-|||..+++++|++.|+.||+|.+|..-.
T Consensus        71 ~~~~~~~L~v~nl~~~Vsn~~L~~~f~~yGeir~ir~t~  109 (549)
T KOG4660|consen   71 KDMNQGTLVVFNLPRSVSNDTLLRIFGAYGEIREIRETP  109 (549)
T ss_pred             ccCccceEEEEecCCcCCHHHHHHHHHhhcchhhhhccc
Confidence            345667899999999999999999999999999874433

>KOG0131|consensus

Probab=97.18  E-value=0.00027  Score=44.38  Aligned_cols=36  Identities=22%  Similarity=0.298  Sum_probs=30.6

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEE-EEeee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT-ACDRF   49 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v-~i~~~   49 (60)
                      .-++|||||.++++|.-|-+.|+.||.+.+. .|+++
T Consensus        96 ganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd  132 (203)
T KOG0131|consen   96 GANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRD  132 (203)
T ss_pred             cccccccccCcchhHHHHHHHHHhccccccCCccccc
Confidence            3589999999999999999999999998653 45553

>KOG4661|consensus

Probab=97.04  E-value=0.00072  Score=48.78  Aligned_cols=37  Identities=30%  Similarity=0.473  Sum_probs=33.3

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      .++|||.+|+-.+.-.||+.+|++||.|..+.|+++.
T Consensus       405 gRNlWVSGLSstTRAtDLKnlFSKyGKVvGAKVVTNa  441 (940)
T KOG4661|consen  405 GRNLWVSGLSSTTRATDLKNLFSKYGKVVGAKVVTNA  441 (940)
T ss_pred             ccceeeeccccchhhhHHHHHHHHhcceeceeeeecC
Confidence            4579999999999999999999999999998888754

>KOG0110|consensus

Probab=96.90  E-value=0.001  Score=48.23  Aligned_cols=36  Identities=33%  Similarity=0.517  Sum_probs=32.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +..+|||.||+++++.++|+.+|...|.|.++.|.+
T Consensus       514 ~~t~lfvkNlnf~Tt~e~l~~~F~k~G~VlS~~I~k  549 (725)
T KOG0110|consen  514 TETKLFVKNLNFDTTLEDLEDLFSKQGTVLSIEISK  549 (725)
T ss_pred             cchhhhhhcCCcccchhHHHHHHHhcCeEEEEEEec
Confidence            344599999999999999999999999999997775

>KOG3152|consensus

Probab=96.86  E-value=0.0019  Score=42.30  Aligned_cols=36  Identities=11%  Similarity=0.217  Sum_probs=32.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...-+|+++||+...-..||+++++||+|..|.+..
T Consensus        73 k~GVvylS~IPp~m~~~rlReil~~yGeVGRvylqp  108 (278)
T KOG3152|consen   73 KTGVVYLSNIPPYMDPVRLREILSQYGEVGRVYLQP  108 (278)
T ss_pred             cceEEEeccCCCccCHHHHHHHHHhccccceEEecc
Confidence            445699999999999999999999999999997764

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

Probab=96.64  E-value=0.0018  Score=36.83  Aligned_cols=40  Identities=38%  Similarity=0.541  Sum_probs=22.8

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEee-eecCCCCc
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR-FIFGISPV   56 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~-~~~g~~~~   56 (60)
                      |.+.+++..++.++|++.|++||+|.-|++.+ +..|+.++
T Consensus         4 l~~~g~~~~~~re~iK~~f~~~g~V~yVD~~~G~~~g~VRf   44 (105)
T PF08777_consen    4 LKFSGLGEPTSREDIKEAFSQFGEVAYVDFSRGDTEGYVRF   44 (105)
T ss_dssp             EEEEE--SS--HHHHHHHT-SS--EEEEE--TT-SEEEEEE
T ss_pred             EEEecCCCCcCHHHHHHHHHhcCCcceEEecCCCCEEEEEE
Confidence            66778999999999999999999998776664 22444433

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

>smart00361 RRM_1 RNA recognition motif

Probab=96.64  E-value=0.0023  Score=33.33  Aligned_cols=33  Identities=18%  Similarity=-0.123  Sum_probs=21.9

Q ss_pred             HHHHHHHHh----cCCceeEEE-Eeeee-cCCCCccccC
Q psy7530          28 LEDVKNYFE----QFGPVYYTA-CDRFI-FGISPVKNFG   60 (60)
Q Consensus        28 e~~l~~~F~----~fG~V~~v~-i~~~~-~g~~~~k~fg   60 (60)
                      +++|+++|+    +||.|.++. +..+. .-+..+||||
T Consensus         2 ~~~l~~~~~~~~~~fG~v~~v~~v~~~~~~~~~~~rG~~   40 (70)
T smart00361        2 DEDFEREFSEEEEYFGEVGKINKIYIDNVGYENHKRGNV   40 (70)
T ss_pred             chhHHHHHHHHHHhcCCeeEEEEEEeCCCCCCCCCcEEE
Confidence            578899998    999999885 44322 1124566664

>PF13893 RRM_5: RNA recognition motif

Probab=96.62  E-value=0.002  Score=31.95  Aligned_cols=18  Identities=22%  Similarity=0.327  Sum_probs=15.1

Q ss_pred             HHHHHhcCCceeEEEEee
Q psy7530          31 VKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        31 l~~~F~~fG~V~~v~i~~   48 (60)
                      |+++|++||+|.++.+..
T Consensus         1 L~~~f~~fG~V~~i~~~~   18 (56)
T PF13893_consen    1 LYKLFSKFGEVKKIKIFK   18 (56)
T ss_dssp             HHHHHTTTS-EEEEEEET
T ss_pred             ChHHhCCcccEEEEEEEe
Confidence            678999999999988876

(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 ....

>KOG4210|consensus

Probab=96.48  E-value=0.0035  Score=41.14  Aligned_cols=43  Identities=26%  Similarity=0.267  Sum_probs=35.0

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|++|+..+++++|+.+|..+|.|..+.++. .......++||
T Consensus       188 ~~~~~~~f~~~~d~~~~~~~~~~~i~~~r~~~-~~~s~~~kg~a  230 (285)
T KOG4210|consen  188 FFVGELDFSLTRDDLKEHFVSSGEITSVRLPT-DEESGDSKGFA  230 (285)
T ss_pred             eeecccccccchHHHhhhccCcCcceeeccCC-CCCccchhhhh
Confidence            44999999999999999999999999888886 44444555553

>KOG4454|consensus

Probab=96.41  E-value=0.0011  Score=42.79  Aligned_cols=37  Identities=22%  Similarity=0.331  Sum_probs=33.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +..+.|||+|+...++|+-|.++|-|.|+|..|.|..
T Consensus         7 e~drtl~v~n~~~~v~eelL~ElfiqaGPV~kv~ip~   43 (267)
T KOG4454|consen    7 EMDRTLLVQNMYSGVSEELLSELFIQAGPVYKVGIPS   43 (267)
T ss_pred             chhhHHHHHhhhhhhhHHHHHHHhhccCceEEEeCCC
Confidence            4567899999999999999999999999998887765

>KOG4208|consensus

Probab=96.38  E-value=0.0073  Score=38.43  Aligned_cols=47  Identities=21%  Similarity=0.272  Sum_probs=38.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcC-CceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQF-GPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~f-G~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...-++|..+|.-..+..+..+|.|| |.|..+.+.| ..-++.+||||
T Consensus        48 ~~g~~~~~~~p~g~~e~~~~~~~~q~~g~v~r~rlsR-nkrTGNSKgYA   95 (214)
T KOG4208|consen   48 IEGVVYVDHIPHGFFETEILNYFRQFGGTVTRFRLSR-NKRTGNSKGYA   95 (214)
T ss_pred             CccceeecccccchhHHHHhhhhhhcCCeeEEEEeec-ccccCCcCceE
Confidence            34558999999999999999999999 7777777766 56677888886

>KOG1190|consensus

Probab=96.33  E-value=0.0059  Score=42.41  Aligned_cols=36  Identities=19%  Similarity=0.126  Sum_probs=32.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .++-+.+++|||+++|+||-+++.+||.|..+.+.+
T Consensus        27 pSkV~HlRnlp~e~tE~elI~Lg~pFG~vtn~~~lk   62 (492)
T KOG1190|consen   27 PSKVVHLRNLPWEVTEEELISLGLPFGKVTNLLMLK   62 (492)
T ss_pred             CcceeEeccCCccccHHHHHHhcccccceeeeeeec
Confidence            345699999999999999999999999998887665

>KOG4209|consensus

Probab=96.10  E-value=0.0042  Score=39.77  Aligned_cols=49  Identities=20%  Similarity=0.256  Sum_probs=38.2

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCcccc
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF   59 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~f   59 (60)
                      .....+.+||||+.+.++.+++..+|+.+|.|..|.+..+.+.- +.|||
T Consensus        97 ~~~d~~sv~v~nvd~~~t~~~~e~hf~~Cg~i~~~ti~~d~~~~-~~k~~  145 (231)
T KOG4209|consen   97 KEVDAPSVWVGNVDFLVTLTKIELHFESCGGINRVTVPKDKFRG-HPKGF  145 (231)
T ss_pred             hccCCceEEEeccccccccchhhheeeccCCccceeeeccccCC-Cccee
Confidence            34456789999999999999999999999999877777644332 24555

>KOG1548|consensus

Probab=95.96  E-value=0.0094  Score=40.55  Aligned_cols=29  Identities=17%  Similarity=0.438  Sum_probs=26.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCce
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV   41 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V   41 (60)
                      ....+||.|||.++|-+++.+.|+.+|-|
T Consensus       133 ~Nt~VYVsgLP~DiT~dE~~~~~sKcGiI  161 (382)
T KOG1548|consen  133 VNTSVYVSGLPLDITVDEFAEVMSKCGII  161 (382)
T ss_pred             cCceEEecCCCCcccHHHHHHHHHhcceE
Confidence            34569999999999999999999999987

>KOG0146|consensus

Probab=95.55  E-value=0.025  Score=37.77  Aligned_cols=38  Identities=13%  Similarity=0.100  Sum_probs=33.0

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      ..+.-++|||=.||.+..+.+|-+.|-.||-|.+..+-
T Consensus       281 eGPeGCNlFIYHLPQEFgDaEliQmF~PFGhivSaKVF  318 (371)
T KOG0146|consen  281 EGPEGCNLFIYHLPQEFGDAELIQMFLPFGHIVSAKVF  318 (371)
T ss_pred             cCCCcceEEEEeCchhhccHHHHHHhccccceeeeeee
Confidence            34567899999999999999999999999999886443

>KOG1457|consensus

Probab=95.46  E-value=0.013  Score=38.18  Aligned_cols=33  Identities=12%  Similarity=0.285  Sum_probs=27.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEE
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTA   45 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~   45 (60)
                      .+..|||.||.++++|++|+.+|+.|--..-..
T Consensus       209 acstlfianl~~~~~ed~l~~~~~~~~gf~~l~  241 (284)
T KOG1457|consen  209 ACSTLFIANLGPNCTEDELKQLLSRYPGFHILK  241 (284)
T ss_pred             hhhhHhhhccCCCCCHHHHHHHHHhCCCceEEE
Confidence            355799999999999999999999996543333

>KOG0115|consensus

Probab=95.44  E-value=0.015  Score=38.20  Aligned_cols=36  Identities=17%  Similarity=0.274  Sum_probs=30.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      .-|+|.||+.-+++|.|++.|++||+|....+.-+.
T Consensus        32 a~l~V~nl~~~~sndll~~~f~~fg~~e~av~~vD~   67 (275)
T KOG0115|consen   32 AELYVVNLMQGASNDLLEQAFRRFGPIERAVAKVDD   67 (275)
T ss_pred             ceEEEEecchhhhhHHHHHhhhhcCccchheeeecc
Confidence            459999999999999999999999999886544433

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

Probab=95.40  E-value=0.026  Score=28.32  Aligned_cols=31  Identities=23%  Similarity=0.274  Sum_probs=23.7

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      -+-|.|.+++..+ ++..+|.+||+|.++.+.
T Consensus         3 wI~V~Gf~~~~~~-~vl~~F~~fGeI~~~~~~   33 (53)
T PF14605_consen    3 WISVSGFPPDLAE-EVLEHFASFGEIVDIYVP   33 (53)
T ss_pred             EEEEEeECchHHH-HHHHHHHhcCCEEEEEcC
Confidence            4667888877554 466799999999887766

>KOG0129|consensus

Probab=95.40  E-value=0.043  Score=38.88  Aligned_cols=38  Identities=37%  Similarity=0.621  Sum_probs=33.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHh-cCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFE-QFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~-~fG~V~~v~i~~~   49 (60)
                      ...+.+|||+||.-++-++|-..|+ -||-|.-|-|.+|
T Consensus       368 DprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD  406 (520)
T KOG0129|consen  368 DPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD  406 (520)
T ss_pred             CccceEEecCCCCcchHHHHHHHHHHhcCceEEEEeccC
Confidence            3467799999999999999999999 8999988877775

>KOG4212|consensus

Probab=95.06  E-value=0.022  Score=40.17  Aligned_cols=37  Identities=19%  Similarity=0.332  Sum_probs=33.1

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      ..+.+.+||.|||.+.|=..||+-|..||.|..++|+
T Consensus       533 arKa~qIiirNlP~dfTWqmlrDKfre~G~v~yadim  569 (608)
T KOG4212|consen  533 ARKACQIIIRNLPFDFTWQMLRDKFREIGHVLYADIM  569 (608)
T ss_pred             cccccEEEEecCCccccHHHHHHHHHhccceehhhhh
Confidence            3456779999999999999999999999999888874

>KOG4212|consensus

Probab=94.78  E-value=0.056  Score=38.20  Aligned_cols=48  Identities=21%  Similarity=0.187  Sum_probs=40.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCcccc
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF   59 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~f   59 (60)
                      ..+...++||+||.+.+..+.|.+.|.-.|.|+.|...++..|  .++||
T Consensus       211 ~pPl~~k~fvanl~~~vg~~kL~qvfgmAGkv~~vdf~idKeG--~s~G~  258 (608)
T KOG4212|consen  211 SPPLHNKVFVANLDYKVGNKKLKQVFGMAGKVQSVDFSIDKEG--NSRGF  258 (608)
T ss_pred             CCCccceeeeeccccccchHHHHHHhccceeeeeeceeecccc--ccCCe
Confidence            3456778999999999999999999999999999988887777  44454

>KOG0120|consensus

Probab=94.67  E-value=0.037  Score=39.10  Aligned_cols=48  Identities=31%  Similarity=0.422  Sum_probs=38.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+||...+++.++++.+.||.+..-.+.++.. +..+|||+
T Consensus       287 ~~~~ki~v~~lp~~l~~~q~~Ell~~fg~lk~f~lv~d~~-~g~skg~a  334 (500)
T KOG0120|consen  287 DSPNKIFVGGLPLYLTEDQVKELLDSFGPLKAFRLVKDSA-TGNSKGFA  334 (500)
T ss_pred             cccchhhhccCcCccCHHHHHHHHHhcccchhheeecccc-ccccccee
Confidence            4567899999999999999999999999999888877443 23455553

>KOG0112|consensus

Probab=94.23  E-value=0.019  Score=42.95  Aligned_cols=40  Identities=20%  Similarity=0.348  Sum_probs=34.9

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +....+..||+|||+..+++.+|+..|..+|.|.+|.|.+
T Consensus       367 DD~~atrTLf~Gnl~~kl~eseiR~af~e~gkve~VDiKt  406 (975)
T KOG0112|consen  367 DDFRATRTLFLGNLDSKLTESEIRPAFDESGKVEEVDIKT  406 (975)
T ss_pred             cchhhhhhhhhcCcccchhhhhhhhhhhhhcccccccccc
Confidence            3344567799999999999999999999999999998775

>KOG0226|consensus

Probab=93.87  E-value=0.087  Score=34.78  Aligned_cols=48  Identities=19%  Similarity=0.241  Sum_probs=39.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...-+||.|-|..+++++-|-+.|.+|=.-....+.+ +.-...+||||
T Consensus       188 ~~DfRIfcgdlgNevnd~vl~raf~Kfpsf~~akviR-dkRTgKSkgyg  235 (290)
T KOG0226|consen  188 EDDFRIFCGDLGNEVNDDVLARAFKKFPSFQKAKVIR-DKRTGKSKGYG  235 (290)
T ss_pred             cccceeecccccccccHHHHHHHHHhccchhhccccc-cccccccccce
Confidence            4556899999999999999999999998777777776 55556677776

>KOG1855|consensus

Probab=93.77  E-value=0.13  Score=36.04  Aligned_cols=37  Identities=14%  Similarity=0.245  Sum_probs=33.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      -..+.|.+-|||.+-.-+.|+++|+.+|.|..|.|-+
T Consensus       229 l~srtivaenLP~Dh~~enl~kiFg~~G~IksIRIck  265 (484)
T KOG1855|consen  229 LPSRTIVAENLPLDHSYENLSKIFGTVGSIKSIRICK  265 (484)
T ss_pred             cccceEEEecCCcchHHHHHHHHhhcccceeeeeecC
Confidence            4677899999999999999999999999999997765

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=92.84  E-value=0.11  Score=35.84  Aligned_cols=34  Identities=21%  Similarity=0.479  Sum_probs=27.7

Q ss_pred             ceEEEeCCCCCCCHHH------HHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLED------VKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~------l~~~F~~fG~V~~v~i~~   48 (60)
                      .-+||-+||+.+-.|+      -.+||.|||.|..+.|-+
T Consensus       115 NLvYVigi~pkva~Ee~~~vLk~~eyFGQyGkI~KIvvNk  154 (480)
T COG5175         115 NLVYVIGIPPKVADEEVAPVLKRHEYFGQYGKIKKIVVNK  154 (480)
T ss_pred             ceeEEecCCCCCCcccccccccchhhhhhccceeEEEecc
Confidence            3489999998888776      358999999998877665

>PF08675 RNA_bind: RNA binding domain; InterPro: IPR014789 This domain corresponds to the RNA binding domain of Poly(A)-specific ribonuclease (PARN)

Probab=92.71  E-value=0.31  Score=27.16  Aligned_cols=31  Identities=19%  Similarity=0.411  Sum_probs=21.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCcee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY   42 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~   42 (60)
                      +....+|--..|......||.++|+.||.|.
T Consensus         6 P~RdHVFhltFPkeWK~~DI~qlFspfG~I~   36 (87)
T PF08675_consen    6 PSRDHVFHLTFPKEWKTSDIYQLFSPFGQIY   36 (87)
T ss_dssp             -SGCCEEEEE--TT--HHHHHHHCCCCCCEE
T ss_pred             CCcceEEEEeCchHhhhhhHHHHhccCCcEE
Confidence            3444555555999999999999999999985

; 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.

>KOG1457|consensus

Probab=92.33  E-value=0.2  Score=32.78  Aligned_cols=27  Identities=26%  Similarity=0.572  Sum_probs=24.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQF   38 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~f   38 (60)
                      ...+.|||.+||.++...+|..+|..|
T Consensus        32 ~~VRTLFVSGLP~DvKpREiynLFR~f   58 (284)
T KOG1457|consen   32 GAVRTLFVSGLPNDVKPREIYNLFRRF   58 (284)
T ss_pred             cccceeeeccCCcccCHHHHHHHhccC
Confidence            347889999999999999999999998

>KOG4211|consensus

Probab=91.87  E-value=0.27  Score=34.88  Aligned_cols=33  Identities=18%  Similarity=0.337  Sum_probs=25.6

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .-+=+.+|||.+|++||.++|+..+ |.++.+.+
T Consensus        11 ~~vr~rGLPwsat~~ei~~Ff~~~~-I~~~~~~r   43 (510)
T KOG4211|consen   11 FEVRLRGLPWSATEKEILDFFSNCG-IENLEIPR   43 (510)
T ss_pred             eEEEecCCCccccHHHHHHHHhcCc-eeEEEEec
Confidence            3355689999999999999999876 45555555

>PF15513 DUF4651: Domain of unknown function (DUF4651)

Probab=90.87  E-value=0.35  Score=25.39  Aligned_cols=18  Identities=17%  Similarity=0.530  Sum_probs=14.9

Q ss_pred             HHHHHHHhcCCceeEEEE
Q psy7530          29 EDVKNYFEQFGPVYYTAC   46 (60)
Q Consensus        29 ~~l~~~F~~fG~V~~v~i   46 (60)
                      .+||++|+++|+|.-+.+
T Consensus         9 ~~iR~~fs~lG~I~vLYv   26 (62)
T PF15513_consen    9 AEIRQFFSQLGEIAVLYV   26 (62)
T ss_pred             HHHHHHHHhcCcEEEEEE
Confidence            579999999999975544

>KOG1190|consensus

Probab=90.18  E-value=0.54  Score=33.02  Aligned_cols=30  Identities=20%  Similarity=0.382  Sum_probs=26.2

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCcee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVY   42 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~   42 (60)
                      .+..+...|+|.+++||+|+++|.+-|-..
T Consensus       413 psatlHlsnip~svsee~lk~~f~~~g~~v  442 (492)
T KOG1190|consen  413 PSATLHLSNIPPSVSEEDLKNLFQEPGGQV  442 (492)
T ss_pred             chhheeeccCCcccchhHHHHhhhcCCceE
Confidence            344688999999999999999999999863

>KOG0147|consensus

Probab=89.77  E-value=0.073  Score=37.95  Aligned_cols=36  Identities=17%  Similarity=0.259  Sum_probs=31.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+.+|+-.|+..+++.||.++|+.+|+|.+|.++.
T Consensus       178 d~Rtvf~~qla~r~~pRdL~efFs~~gkVrdVriI~  213 (549)
T KOG0147|consen  178 DQRTVFCMQLARRNPPRDLEEFFSIVGKVRDVRIIG  213 (549)
T ss_pred             hHHHHHHHHHhhcCCchhHHHHHHhhcCcceeEeec
Confidence            345688888999999999999999999999998886

>KOG2891|consensus

Probab=88.76  E-value=0.52  Score=31.92  Aligned_cols=39  Identities=18%  Similarity=0.332  Sum_probs=29.6

Q ss_pred             ccCCcceEEEeCCCCC------------CCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAP------------TTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~------------~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +......+++.+||..            -+|+-|+..|+.||+|..|+|..
T Consensus       145 pgerpdti~la~ip~kwf~lkedg~~dlpse~rlr~a~eafg~ir~vdipi  195 (445)
T KOG2891|consen  145 PGERPDTIHLAGIPCKWFALKEDGSEDLPSEDRLRKAFEAFGEIRNVDIPI  195 (445)
T ss_pred             CCCCCCceeecCCcceeeeecccccccCChHHHHHHHHHHhccceecCCcc
Confidence            3344556788877743            36788999999999999998774

>KOG4206|consensus

Probab=85.60  E-value=1.9  Score=27.80  Aligned_cols=36  Identities=17%  Similarity=0.206  Sum_probs=30.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...-+|+-+||..++.+.|..+|+||.--.+|....
T Consensus       145 pn~ilf~~niP~es~~e~l~~lf~qf~g~keir~i~  180 (221)
T KOG4206|consen  145 PNNILFLTNIPSESESEMLSDLFEQFPGFKEIRLIP  180 (221)
T ss_pred             CceEEEEecCCcchhHHHHHHHHhhCcccceeEecc
Confidence            445699999999999999999999998777765554

>KOG4849|consensus

Probab=84.99  E-value=0.53  Score=32.66  Aligned_cols=25  Identities=28%  Similarity=0.264  Sum_probs=22.4

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCce
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPV   41 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V   41 (60)
                      +|||||-|-+|++||.+....-|--
T Consensus        83 ~YvGNL~W~TTD~DL~~A~~S~G~~  107 (498)
T KOG4849|consen   83 CYVGNLLWYTTDADLLKALQSTGLA  107 (498)
T ss_pred             EEecceeEEeccHHHHHHHHhhhHH
Confidence            8999999999999999998877753

>KOG0106|consensus

Probab=84.67  E-value=0.56  Score=30.01  Aligned_cols=35  Identities=26%  Similarity=0.401  Sum_probs=29.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      ...++.|-+++..+...+|.++|++||.+..+..+
T Consensus        98 s~~r~~~~~~~~r~~~qdl~d~~~~~g~~~~~~~~  132 (216)
T KOG0106|consen   98 THFRLIVRNLSLRVSWQDLKDHFRPAGEVTYVDAR  132 (216)
T ss_pred             ccceeeeccchhhhhHHHHhhhhcccCCCchhhhh
Confidence            45679999999999999999999999999555443

>KOG4676|consensus

Probab=83.36  E-value=0.92  Score=31.78  Aligned_cols=34  Identities=18%  Similarity=0.216  Sum_probs=30.0

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +-|-|.||++.++.+.+..+|...|+|.++.+..
T Consensus         8 ~vIqvanispsat~dqm~tlFg~lGkI~elrlyp   41 (479)
T KOG4676|consen    8 GVIQVANISPSATKDQMQTLFGNLGKIPELRLYP   41 (479)
T ss_pred             ceeeecccCchhhHHHHHHHHhhccccccccccC
Confidence            3688999999999999999999999998876553

>KOG0128|consensus

Probab=81.72  E-value=0.94  Score=34.13  Aligned_cols=35  Identities=17%  Similarity=0.117  Sum_probs=31.0

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++||.|+|+..|.+.|+..+..+|.+.++.++.
T Consensus       736 K~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt  770 (881)
T KOG0128|consen  736 KISVAISGPPFQGTKEELKSLASKTGNVTSLRLVT  770 (881)
T ss_pred             hhhhheeCCCCCCchHHHHhhccccCCccccchhh
Confidence            44699999999999999999999999998886554

>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons

Probab=81.28  E-value=0.41  Score=29.38  Aligned_cols=30  Identities=13%  Similarity=0.114  Sum_probs=19.5

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhc-CCce
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQ-FGPV   41 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~-fG~V   41 (60)
                      ....||-|.+||+..||+++.+..++ ++.-
T Consensus         5 ~~~~KvVIR~LPP~LteeeF~~~i~~~l~~~   35 (176)
T PF03467_consen    5 KEGTKVVIRRLPPNLTEEEFWEQISPWLPDE   35 (176)
T ss_dssp             ----EEEEEEE-TTS-HHHHCCCCSS--SSE
T ss_pred             ccCceEEEeCCCCCCCHHHHHHHhhhhcccc
Confidence            34569999999999999998886666 5554

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.

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

Probab=80.09  E-value=6.7  Score=22.03  Aligned_cols=45  Identities=9%  Similarity=0.087  Sum_probs=29.6

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcC--CceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQF--GPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~f--G~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.|=+.|||...+.++|.+.+...  |..+=+.++. ++...-+.|||
T Consensus         2 TTvMirNIPn~~t~~~L~~~l~~~~~g~yDF~YLPi-Df~~~~N~GYA   48 (97)
T PF04059_consen    2 TTVMIRNIPNKYTQEMLIQILDEHFKGKYDFFYLPI-DFKNKCNLGYA   48 (97)
T ss_pred             eeEEEecCCCCCCHHHHHHHHHHhccCcceEEEeee-eccCCCceEEE
Confidence            357789999999999999988775  3333334444 44444445543

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

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	60
2mss_A	75	Musashi1 Rbd2, Nmr Length = 75		1e-05

>pdb|2MSS|A Chain A, Musashi1 Rbd2, Nmr Length = 75

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 20/25 (80%), Positives = 22/25 (88%)
Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          IFVGGLS  TT+EDVK+YFEQFG V
Sbjct: 2  IFVGGLSVNTTVEDVKHYFEQFGKV 26

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	60
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	1e-11
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	3e-11
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	2e-10
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	3e-10
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	3e-10
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	5e-10
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	6e-10
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	6e-10
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	8e-10
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	2e-08
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	1e-09
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	2e-09
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	2e-09
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	3e-09
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	2e-08
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	4e-09
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	5e-09
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	8e-09
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	4e-08
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	2e-07
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	5e-07
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	2e-06
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	2e-06
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	2e-06
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	2e-06
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	3e-06
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	3e-06
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	3e-06
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	3e-06
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	4e-06
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	4e-06
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	4e-06
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	5e-06
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	5e-06
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	5e-06
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	7e-06
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	7e-06
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	8e-06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	8e-06
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	1e-05
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	1e-05
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	1e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	1e-05
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	4e-05
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	2e-05
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	2e-05
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	2e-05
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-05
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	2e-05
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	2e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	2e-05
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	2e-05
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	3e-05
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens} Len	3e-05
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	3e-05
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	3e-05
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	3e-05
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	3e-05
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	3e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	3e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	4e-05
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	4e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	4e-05
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-04
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	4e-05
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	4e-05
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	5e-05
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	5e-05
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	5e-05
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	6e-05
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	7e-05
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	8e-05
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	8e-05
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	8e-05
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	9e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	9e-05
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	9e-05
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	9e-05
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	1e-04
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	1e-04
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	1e-04
1x4e_A	85	RNA binding motif, single-stranded interacting pro	1e-04
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	1e-04
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	1e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	1e-04
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	1e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-04
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	2e-04
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	2e-04
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	2e-04
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	2e-04
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	2e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	2e-04
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	2e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	2e-04
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	2e-04
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	3e-04
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	3e-04
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	3e-04
2dis_A	109	Unnamed protein product; structural genomics, RRM	3e-04
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	4e-04
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	4e-04
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	4e-04
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	4e-04
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	5e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-04
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	5e-04
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	6e-04
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	7e-04
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	7e-04
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	7e-04
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	7e-04
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	7e-04
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	8e-04
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	9e-04

>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 = 53.8 bits (130), Expect = 1e-11
 Identities = 17/34 (50%), Positives = 22/34 (64%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S M +   K+F+GGLS  TT E ++ YF QFG V
Sbjct: 19 SHMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEV 52

>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 = 52.2 bits (126), Expect = 3e-11
 Identities = 11/30 (36%), Positives = 20/30 (66%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +++ KIFVGG+       +++ YF++FG V
Sbjct: 8  SKSNKIFVGGIPHNCGETELREYFKKFGVV 37

>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 = 50.3 bits (121), Expect = 2e-10
 Identities = 10/29 (34%), Positives = 17/29 (58%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             K+FVG  +   T E+++ +F Q+G V
Sbjct: 10 HGSKVFVGRCTEDMTAEELQQFFCQYGEV 38

>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 = 50.4 bits (121), Expect = 3e-10
 Identities = 14/34 (41%), Positives = 24/34 (70%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +   + +K+F+GGLS  TT E ++NY+EQ+G +
Sbjct: 21 KREKEQFRKLFIGGLSFETTEESLRNYYEQWGKL 54

>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 = 49.9 bits (120), Expect = 3e-10
 Identities = 14/36 (38%), Positives = 20/36 (55%)

Query: 6  NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + + V +T  + V GL   TT +D+K YF  FG V
Sbjct: 7  GVKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEV 42

>1wf0_A TDP-43, TAR DNA-binding protein-43; structural genomics, RRM domain, riken structural genomics/proteomics initiative RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 88

 Score = 49.1 bits (118), Expect = 5e-10
 Identities = 8/30 (26%), Positives = 18/30 (60%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + +  +FVG  +   T ++++ +F Q+G V
Sbjct: 3  SGSSGVFVGRCTGDMTEDELREFFSQYGDV 32

>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 = 48.7 bits (117), Expect = 6e-10
 Identities = 18/37 (48%), Positives = 25/37 (67%)

Query: 5  INISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          IN S+      K+FVGGLS  T+ +D+K+YF +FG V
Sbjct: 2  INASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEV 38

>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 = 49.2 bits (118), Expect = 6e-10
 Identities = 14/30 (46%), Positives = 19/30 (63%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
              K+FVGGL   TT E +++YF Q+G V
Sbjct: 14 DEIGKLFVGGLDWSTTQETLRSYFSQYGEV 43

>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 = 50.4 bits (121), Expect = 8e-10
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 8   SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
                  KKIFVGG+   T    +++YFEQ+G +
Sbjct: 98  PGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKI 131

>1l3k_A Heterogeneous nuclear ribonucleoprotein A1; nuclear protein hnRNP A1, RNA-recognition motif, RNA- binding, UP1, RNA binding protein; 1.10A {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 1u1k_A* 1u1l_A* 1u1m_A* 1u1n_A* 1u1o_A 1u1p_A* 1u1q_A 1u1r_A* 1pgz_A* 1ha1_A 1po6_A* 2up1_A* 1up1_A Length = 196

 Score = 46.5 bits (111), Expect = 2e-08
 Identities = 13/34 (38%), Positives = 24/34 (70%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +   + +K+F+GGLS  TT E ++++FEQ+G +
Sbjct: 7  PKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTL 40

>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 = 48.8 bits (117), Expect = 1e-09
 Identities = 15/30 (50%), Positives = 18/30 (60%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          T   KIFVGGL   TT   ++ YFE FG +
Sbjct: 15 TTFTKIFVGGLPYHTTDASLRKYFEGFGDI 44

>2mss_A Protein (musashi1); RNA-binding domain, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 PDB: 2mst_A Length = 75

 Score = 47.1 bits (113), Expect = 2e-09
 Identities = 21/26 (80%), Positives = 23/26 (88%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLS  TT+EDVK+YFEQFG V
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKV 26

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 114

 Score = 48.1 bits (114), Expect = 2e-09
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + ++K+FVGGL      +++   F +FGP+
Sbjct: 6  SGSRKVFVGGLPPDIDEDEITASFRRFGPL 35

>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-09
 Identities = 10/29 (34%), Positives = 18/29 (62%)

Query: 13  RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +T KIFVGG+      ++ + +F Q+G +
Sbjct: 86  KTGKIFVGGIGPDVRPKEFEEFFSQWGTI 114

>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 = 46.4 bits (111), Expect = 2e-08
 Identities = 11/29 (37%), Positives = 21/29 (72%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + K+F+GGL+  TT ++++ YF ++G V
Sbjct: 2  ESCKMFIGGLNWDTTEDNLREYFGKYGTV 30

>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 = 46.3 bits (111), Expect = 4e-09
 Identities = 15/26 (57%), Positives = 17/26 (65%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          KIFVGGLS  T  E ++ YF  FG V
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEV 26

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 94

 Score = 46.5 bits (111), Expect = 5e-09
 Identities = 10/34 (29%), Positives = 14/34 (41%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S   +  + +FV G         +  YF  FGPV
Sbjct: 2  SSGSSGLRSVFVSGFPRGVDSAQLSEYFLAFGPV 35

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1 Length = 77

 Score = 45.6 bits (109), Expect = 8e-09
 Identities = 15/26 (57%), Positives = 19/26 (73%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+F+GGLS  TT E ++ YF QFG V
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEV 27

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A Length = 102

 Score = 44.1 bits (105), Expect = 4e-08
 Identities = 7/36 (19%), Positives = 19/36 (52%)

Query: 6  NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++ +       +FVGG+       +++++F ++G V
Sbjct: 1  SLPEGKIMPNTVFVGGIDVRMDETEIRSFFARYGSV 36

>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 = 42.6 bits (101), Expect = 2e-07
 Identities = 12/34 (35%), Positives = 20/34 (58%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S M +   K+FVGGLS  T  + ++  F ++G +
Sbjct: 6  SGMASDEGKLFVGGLSFDTNEQSLEQVFSKYGQI 39

>1x4h_A RNA-binding protein 28; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 41.6 bits (98), Expect = 5e-07
 Identities = 9/29 (31%), Positives = 15/29 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
          K +F+  LS  +  E +    +QFG + Y
Sbjct: 16 KTVFIRNLSFDSEEEALGEVLQQFGDLKY 44

>2cq4_A RNA binding motif protein 23; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 114

 Score = 40.4 bits (95), Expect = 2e-06
 Identities = 7/27 (25%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + +F   L+A     D++++F   G V
Sbjct: 26 RTVFCMQLAARIRPRDLEDFFSAVGKV 52

>1whw_A Hypothetical protein riken cDNA 1200009A02; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics; NMR {Mus musculus} SCOP: d.58.7.1 Length = 99

 Score = 39.9 bits (94), Expect = 2e-06
 Identities = 10/34 (29%), Positives = 20/34 (58%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S   + + ++FV  LS  ++ ED++  F  +GP+
Sbjct: 2  SSGSSGSGRLFVRNLSYTSSEEDLEKLFSAYGPL 35

>2cqb_A Peptidyl-prolyl CIS-trans isomerase E; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 102

 Score = 39.9 bits (94), Expect = 2e-06
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S M T  + ++VGGL+     + +   F  FG +
Sbjct: 6  SGMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI 39

>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 = 40.5 bits (95), Expect = 2e-06
 Identities = 10/28 (35%), Positives = 16/28 (57%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             + V GLS  TT  D++  F ++GP+
Sbjct: 46 NCCLGVFGLSLYTTERDLREVFSKYGPI 73

>2dnp_A RNA-binding protein 14; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 90

 Score = 39.5 bits (93), Expect = 3e-06
 Identities = 13/28 (46%), Positives = 20/28 (71%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          T KIFVG +SA  T +++++ FE+ G V
Sbjct: 9  TWKIFVGNVSAACTSQELRSLFERRGRV 36

>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 = 39.4 bits (93), Expect = 3e-06
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          M T  + ++VGGL+     + +   F  FG +
Sbjct: 3  MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI 34

>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 = 41.0 bits (95), Expect = 3e-06
 Identities = 9/27 (33%), Positives = 16/27 (59%)

Query: 15  KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           K +FV  ++  TT   ++  FE +GP+
Sbjct: 103 KTLFVARVNYDTTESKLRREFEVYGPI 129

>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 = 39.1 bits (92), Expect = 3e-06
 Identities = 13/27 (48%), Positives = 15/27 (55%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + I+VG L    T E VK  F QFG V
Sbjct: 2  RNIYVGNLVYSATSEQVKELFSQFGKV 28

>2cqc_A Arginine/serine-rich splicing factor 10; RNA recognition motif, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 95

 Score = 39.1 bits (92), Expect = 4e-06
 Identities = 10/28 (35%), Positives = 16/28 (57%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             + V GLS  TT  D++  F ++GP+
Sbjct: 15 NCCLGVFGLSLYTTERDLREVFSKYGPI 42

>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 = 39.2 bits (92), Expect = 4e-06
 Identities = 7/27 (25%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K + +  LS   T E ++  FE+   +
Sbjct: 16 KTLVLSNLSYSATEETLQEVFEKATFI 42

>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 = 39.1 bits (92), Expect = 4e-06
 Identities = 10/30 (33%), Positives = 19/30 (63%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +   K+F+G L    T +++++ FEQ+G V
Sbjct: 6  SGMVKLFIGNLPREATEQEIRSLFEQYGKV 35

>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 = 39.2 bits (92), Expect = 5e-06
 Identities = 10/28 (35%), Positives = 16/28 (57%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + +FVG +    T E +K+ F + GPV
Sbjct: 8  LRSVFVGNIPYEATEEQLKDIFSEVGPV 35

>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 = 38.8 bits (91), Expect = 5e-06
 Identities = 10/29 (34%), Positives = 19/29 (65%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + K+ VG +S   T ++++  FE++GPV
Sbjct: 9  ASTKLHVGNISPTCTNQELRAKFEEYGPV 37

>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 = 38.8 bits (91), Expect = 5e-06
 Identities = 10/28 (35%), Positives = 17/28 (60%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
           K+F+G +      +D+K  FE+FG +Y
Sbjct: 14 IKLFIGQIPRNLDEKDLKPLFEEFGKIY 41

>2fy1_A RNA-binding motif protein, Y chromosome, family 1 member A1; RNA binding protein, structure, protein-RNA complex, RNA stem-loop, structural protein/RNA complex; NMR {Homo sapiens} Length = 116

 Score = 38.8 bits (91), Expect = 7e-06
 Identities = 10/26 (38%), Positives = 17/26 (65%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+F+GGL+  T  + +K  F + GP+
Sbjct: 9  KLFIGGLNRETNEKMLKAVFGKHGPI 34

>2x1f_A MRNA 3'-END-processing protein RNA15; transcription-RNA complex, mRNA processing; 1.60A {Saccharomyces cerevisiae} PDB: 2x1b_A 2x1a_A 2km8_B Length = 96

 Score = 38.4 bits (90), Expect = 7e-06
 Identities = 6/28 (21%), Positives = 14/28 (50%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++ +++G +    T E + +     GPV
Sbjct: 2  SRVVYLGSIPYDQTEEQILDLCSNVGPV 29

>2dnm_A SRP46 splicing factor; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Length = 103

 Score = 38.4 bits (90), Expect = 8e-06
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             + V  L+  T+ + ++  FE++G V
Sbjct: 13 MITLKVDNLTYRTSPDSLRRVFEKYGRV 40

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A Length = 135

 Score = 39.0 bits (91), Expect = 8e-06
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             + V  L+  T+ + ++  FE++G V
Sbjct: 47 MTSLKVDNLTYRTSPDTLRRVFEKYGRV 74

>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 = 39.1 bits (91), Expect = 1e-05
 Identities = 7/28 (25%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             + V  L+  T+ + ++  FE++G V
Sbjct: 70 MTSLKVDNLTYRTSPDTLRRVFEKYGRV 97

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens} Length = 140

 Score = 38.6 bits (90), Expect = 1e-05
 Identities = 7/27 (25%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + ++VGGL+     + +   F  FG +
Sbjct: 64 RVLYVGGLAEEVDDKVLHAAFIPFGDI 90

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 103

 Score = 37.8 bits (88), Expect = 1e-05
 Identities = 8/27 (29%), Positives = 15/27 (55%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + +++ G     TL+D+K + E  G V
Sbjct: 12 RSVYIKGFPTDATLDDIKEWLEDKGQV 38

>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 = 38.7 bits (91), Expect = 1e-05
 Identities = 9/34 (26%), Positives = 16/34 (47%)

Query: 8   SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
                  +K+F+G +S   T  D++  F  FG +
Sbjct: 89  KNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQI 122

>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 = 4e-05
 Identities = 11/27 (40%), Positives = 18/27 (66%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
          K+FVG +    + +D++  FEQ+G VY
Sbjct: 5  KMFVGQVPRTWSEKDLRELFEQYGAVY 31

>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 = 37.6 bits (88), Expect = 2e-05
 Identities = 7/27 (25%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K++ V  +       D++  F QFG +
Sbjct: 16 KRLHVSNIPFRFRDPDLRQMFGQFGKI 42

>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 = 37.5 bits (88), Expect = 2e-05
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  ++VG L    T + ++  FE FG +
Sbjct: 5  SSGLYVGSLHFNITEDMLRGIFEPFGKI 32

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens} Length = 116

 Score = 37.8 bits (88), Expect = 2e-05
 Identities = 12/30 (40%), Positives = 17/30 (56%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +    IFV GL    T+E V +YF+Q G +
Sbjct: 5  SDNNTIFVQGLGENVTIESVADYFKQIGII 34

>2do4_A Squamous cell carcinoma antigen recognized by T- cells 3; RRM domaim, RDB, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 100

 Score = 37.3 bits (87), Expect = 2e-05
 Identities = 8/28 (28%), Positives = 14/28 (50%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
            K+F+ GL    T E+++   +  G V
Sbjct: 17 KHKLFISGLPFSCTKEELEEICKAHGTV 44

>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 = 37.3 bits (87), Expect = 2e-05
 Identities = 10/30 (33%), Positives = 16/30 (53%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + K +FV  L+   T E ++  F QFG +
Sbjct: 9  AKVKVLFVRNLANTVTEEILEKAFSQFGKL 38

>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 = 37.3 bits (87), Expect = 2e-05
 Identities = 7/34 (20%), Positives = 14/34 (41%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             ++  K ++V  L   T+ E ++  F    P 
Sbjct: 9  EDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPG 42

>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 = 37.2 bits (87), Expect = 2e-05
 Identities = 10/34 (29%), Positives = 19/34 (55%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +  T+  ++FVG L    T E+++  FE++G  
Sbjct: 9  EKTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKA 42

>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 = 37.5 bits (87), Expect = 2e-05
 Identities = 10/38 (26%), Positives = 19/38 (50%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI 53
          ++ V GL    + +D+K++  + G V Y    R   G+
Sbjct: 18 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV 55

>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 = 37.8 bits (88), Expect = 3e-05
 Identities = 9/38 (23%), Positives = 20/38 (52%), Gaps = 2/38 (5%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT--ACDRF 49
           + ++VG +   +T +D++ +F   G +      CD+F
Sbjct: 36 KRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCDKF 73

>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens} Length = 95

 Score = 36.9 bits (86), Expect = 3e-05
 Identities = 2/28 (7%), Positives = 10/28 (35%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             I +  ++  T ++ +      +  +
Sbjct: 9  MDTIILRNIAPHTVVDSIMTALSPYASL 36

>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 = 36.8 bits (86), Expect = 3e-05
 Identities = 10/28 (35%), Positives = 18/28 (64%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          T +++VGGL   T+L  +   F++FG +
Sbjct: 17 TTRLWVGGLGPNTSLAALAREFDRFGSI 44

>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 = 36.9 bits (86), Expect = 3e-05
 Identities = 6/27 (22%), Positives = 12/27 (44%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + +    LS   T +++K  FE    +
Sbjct: 17 RTLLAKNLSFNITEDELKEVFEDALEI 43

>2cph_A RNA binding motif protein 19; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 107

 Score = 36.9 bits (86), Expect = 3e-05
 Identities = 7/29 (24%), Positives = 12/29 (41%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           T KI V  +       +++  F  FG +
Sbjct: 14 TTSKILVRNIPFQANQREIRELFSTFGEL 42

>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 = 37.5 bits (87), Expect = 3e-05
 Identities = 9/34 (26%), Positives = 19/34 (55%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +++ ++  ++VG LS  TT E +   F + G +
Sbjct: 33 EKLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDI 66

>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 = 37.4 bits (87), Expect = 3e-05
 Identities = 8/26 (30%), Positives = 15/26 (57%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +FV G+    T ED+ + F ++G +
Sbjct: 24 ILFVTGVHEEATEEDIHDKFAEYGEI 49

>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 = 36.9 bits (86), Expect = 3e-05
 Identities = 4/27 (14%), Positives = 12/27 (44%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
            +FV  +      ++++  F  +G +
Sbjct: 27 WILFVTSIHEEAQEDEIQEKFCDYGEI 53

>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 = 37.5 bits (87), Expect = 4e-05
 Identities = 4/28 (14%), Positives = 12/28 (42%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +FV  +      ++++  F  +G +
Sbjct: 72 GWILFVTSIHEEAQEDEIQEKFCDYGEI 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 = 36.9 bits (86), Expect = 4e-05
 Identities = 8/26 (30%), Positives = 15/26 (57%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +++VG L    T + ++  FE FG +
Sbjct: 28 RLYVGSLHFNITEDMLRGIFEPFGRI 53

>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 = 37.6 bits (88), Expect = 4e-05
 Identities = 11/33 (33%), Positives = 16/33 (48%)

Query: 9   QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           Q +    K+F+GGL      + VK     FGP+
Sbjct: 89  QPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPL 121

>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 = 35.3 bits (82), Expect = 3e-04
 Identities = 5/27 (18%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++++VG +    T E + ++F     +
Sbjct: 5  RRLYVGNIPFGITEEAMMDFFNAQMRL 31

>3n9u_C Cleavage and polyadenylation specificity factor S; protein-protein complex, coexpression, heterotetramer, mRNA maturation, mRNA cleavage; 1.92A {Homo sapiens} Length = 156

 Score = 37.6 bits (87), Expect = 4e-05
 Identities = 8/34 (23%), Positives = 13/34 (38%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          S +  R   ++VG  S  TT + +       G  
Sbjct: 49 SGLRNRRAAVYVGSFSWWTTDQQLIQVIRSIGVY 82

>2err_A Ataxin-2-binding protein 1; protein-RNA complex, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 109

 Score = 36.9 bits (86), Expect = 4e-05
 Identities = 7/27 (25%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K++ V  +       D++  F QFG +
Sbjct: 30 KRLHVSNIPFRFRDPDLRQMFGQFGKI 56

>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 = 36.4 bits (85), Expect = 5e-05
 Identities = 7/27 (25%), Positives = 12/27 (44%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
            ++V  L    T  D+   F ++G V
Sbjct: 17 STVYVSNLPFSLTNNDLYRIFSKYGKV 43

>1p27_B RNA-binding protein 8A; nuclear protein, mRNA splicing; 2.00A {Homo sapiens} SCOP: d.58.7.1 Length = 106

 Score = 36.5 bits (85), Expect = 5e-05
 Identities = 8/26 (30%), Positives = 15/26 (57%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +FV G+    T ED+ + F ++G +
Sbjct: 25 ILFVTGVHEEATEEDIHDKFAEYGEI 50

>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 = 36.0 bits (84), Expect = 5e-05
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + I+VG +    T E+++ +F   G V
Sbjct: 6  ARSIYVGNVDYGATAEELEAHFHGCGSV 33

>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 = 36.4 bits (85), Expect = 6e-05
 Identities = 9/28 (32%), Positives = 12/28 (42%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             I V  LS  T   D++  F  FG +
Sbjct: 15 NATIRVTNLSEDTRETDLQELFRPFGSI 42

>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 = 36.2 bits (84), Expect = 7e-05
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
              +    I+V GL+   TL+D+ ++F+Q G V
Sbjct: 9  PDEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVV 42

>2la4_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RNA recognition, stress granules, nucleus, RNA-binding, transcription; NMR {Saccharomyces cerevisiae} Length = 101

 Score = 36.1 bits (84), Expect = 8e-05
 Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 7/44 (15%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG 60
           ++G +    T  D+   F+ FG +         F   P K   
Sbjct: 30 AYIGNIPHFATEADLIPLFQNFGFILD-------FKHYPEKGCC 66

>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 = 35.8 bits (83), Expect = 8e-05
 Identities = 7/37 (18%), Positives = 15/37 (40%), Gaps = 1/37 (2%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          + +  I V  L   +  ++V +  + +    Y   DR
Sbjct: 3  SGSSGILVKNLPQDSNCQEVHDLLKDYDLK-YCYVDR 38

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 36.9 bits (86), Expect = 8e-05
 Identities = 8/29 (27%), Positives = 16/29 (55%)

Query: 13  RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
              +I+V  +    + +D+K+ FE FG +
Sbjct: 124 AFNRIYVASVHQDLSDDDIKSVFEAFGKI 152

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A Length = 216

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 6/34 (17%), Positives = 15/34 (44%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             +    +++VG +      + ++  F  FGP+
Sbjct: 22 QGALAIMSRVYVGSIYYELGEDTIRQAFAPFGPI 55

>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 = 37.0 bits (86), Expect = 9e-05
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 9  QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  T+  ++FVG L    T ED K  FE++G  
Sbjct: 17 KTYTQRCRLFVGNLPTDITEEDFKRLFERYGEP 49

>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 = 37.0 bits (86), Expect = 9e-05
 Identities = 11/30 (36%), Positives = 15/30 (50%)

Query: 12  TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
           T    + V  LS   + E ++  F QFGPV
Sbjct: 94  THGAALTVKNLSPVVSNELLEQAFSQFGPV 123

>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 = 35.7 bits (83), Expect = 9e-05
 Identities = 9/27 (33%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
            ++VGGL    +   +   F Q GPV
Sbjct: 16 ATVYVGGLDEKVSEPLLWELFLQAGPV 42

>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 = 35.9 bits (83), Expect = 9e-05
 Identities = 10/38 (26%), Positives = 19/38 (50%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI 53
          ++ V GL    + +D+K++  + G V Y    R   G+
Sbjct: 17 RVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV 54

>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 = 36.6 bits (84), Expect = 1e-04
 Identities = 7/29 (24%), Positives = 13/29 (44%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +   +++G L+  TT ED+       G  
Sbjct: 67 KRIALYIGNLTWWTTDEDLTEAVHSLGVN 95

>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 = 35.4 bits (82), Expect = 1e-04
 Identities = 12/34 (35%), Positives = 17/34 (50%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
              +    IFV GL    T+E V +YF+Q G +
Sbjct: 7  HHSHSDNNTIFVQGLGENVTIESVADYFKQIGII 40

>2hvz_A Splicing factor, arginine/serine-rich 7; RRM, RNA binding protein; NMR {Homo sapiens} Length = 101

 Score = 35.3 bits (82), Expect = 1e-04
 Identities = 7/26 (26%), Positives = 14/26 (53%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K++VG L       +++  F  +GP+
Sbjct: 2  KVYVGNLGTGAGKGELERAFSYYGPL 27

>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 = 35.2 bits (82), Expect = 1e-04
 Identities = 6/28 (21%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  +++ GL   TT +D+    + +G +
Sbjct: 5  SSGLYIRGLQPGTTDQDLVKLCQPYGKI 32

>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 = 36.0 bits (84), Expect = 1e-04
 Identities = 4/27 (14%), Positives = 12/27 (44%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
            +F+G L+   ++ ++K    +    
Sbjct: 14 FNLFIGNLNPNKSVAELKVAISELFAK 40

>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 = 35.2 bits (82), Expect = 1e-04
 Identities = 6/29 (20%), Positives = 14/29 (48%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  K+ +G L+   T + +   F  +G +
Sbjct: 3  KPTKVHIGRLTRNVTKDHIMEIFSTYGKI 31

>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 = 35.3 bits (82), Expect = 1e-04
 Identities = 7/28 (25%), Positives = 13/28 (46%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
           K+++G LS   T +D++  F       
Sbjct: 9  NKLYIGNLSPAVTADDLRQLFGDRKLPL 36

>2e44_A Insulin-like growth factor 2 mRNA binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 96

 Score = 35.1 bits (81), Expect = 1e-04
 Identities = 6/29 (20%), Positives = 13/29 (44%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          R +K+ +  +      E + +   Q+G V
Sbjct: 14 RIRKLQIRNIPPHLQWEVLDSLLVQYGVV 42

>2jvo_A Nucleolar protein 3; nucleus, phosphorylation, ribonucleoprotein, ribosome biogenesis, RNA-binding, rRNA processing; NMR {Saccharomyces cerevisiae} PDB: 2osq_A Length = 108

 Score = 35.3 bits (82), Expect = 1e-04
 Identities = 6/26 (23%), Positives = 11/26 (42%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++FV          ++   F  FGP+
Sbjct: 33 RLFVRPFPLDVQESELNEIFGPFGPM 58

>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 = 34.9 bits (81), Expect = 2e-04
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
               ++VGGL    T  D++N+F QFG +  
Sbjct: 10 KTITTLYVGGLGDTITETDLRNHFYQFGEIRT 41

>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 = 35.4 bits (82), Expect = 2e-04
 Identities = 7/26 (26%), Positives = 16/26 (61%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +I+VG L      +D+++ F ++G +
Sbjct: 24 RIYVGNLPPDIRTKDIEDVFYKYGAI 49

>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 = 35.0 bits (81), Expect = 2e-04
 Identities = 11/26 (42%), Positives = 16/26 (61%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+FVG L+   + EDV   F+ FG +
Sbjct: 17 KLFVGMLNKQQSEEDVLRLFQPFGVI 42

>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 = 35.4 bits (82), Expect = 2e-04
 Identities = 12/26 (46%), Positives = 15/26 (57%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +FVG LS   T ED+K  F  FG +
Sbjct: 17 HVFVGDLSPEITTEDIKAAFAPFGRI 42

>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 = 35.3 bits (81), Expect = 2e-04
 Identities = 7/35 (20%), Positives = 13/35 (37%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          ++ I +  L    T  +V +    FG V      +
Sbjct: 31 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 65

>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 = 34.9 bits (81), Expect = 2e-04
 Identities = 10/27 (37%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + +FVG L A    E +   F Q GP+
Sbjct: 17 RTVFVGNLEARVREEILYELFLQAGPL 43

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus} Length = 177

 Score = 35.6 bits (82), Expect = 2e-04
 Identities = 7/26 (26%), Positives = 13/26 (50%)

Query: 16  KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           K+ V  L    +  D++  F +FG +
Sbjct: 90  KLLVSNLDFGVSDADIQELFAEFGTL 115

>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 = 35.2 bits (81), Expect = 2e-04
 Identities = 7/26 (26%), Positives = 14/26 (53%)

Query: 16  KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           K++VG L       +++  F  +GP+
Sbjct: 75  KVYVGNLGNNGNKTELERAFGYYGPL 100

>3r27_A HnRNP L, heterogeneous nuclear ribonucleoprotein L; RBD fold, protein binding, nucleus; 2.04A {Homo sapiens} Length = 100

 Score = 34.7 bits (80), Expect = 2e-04
 Identities = 7/35 (20%), Positives = 14/35 (40%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          +  + + GL       D+    ++FGP+ Y     
Sbjct: 21 SPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP 55

>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 = 34.5 bits (80), Expect = 3e-04
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +  +F+  L+  TT E +K  F + G +
Sbjct: 5  SSGLFIKNLNFSTTEETLKGVFSKVGAI 32

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 104

 Score = 34.5 bits (79), Expect = 3e-04
 Identities = 7/26 (26%), Positives = 9/26 (34%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFG 39
             + V GL      E +  YFE   
Sbjct: 8  GVAVEVRGLPPAVPDELLTLYFENRR 33

>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 = 34.0 bits (79), Expect = 3e-04
 Identities = 9/28 (32%), Positives = 14/28 (50%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          T  +FVG L+     E ++N F+ F   
Sbjct: 1  TFNLFVGDLNVNVDDETLRNAFKDFPSY 28

>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 = 34.4 bits (79), Expect = 3e-04
 Identities = 4/26 (15%), Positives = 11/26 (42%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++F+GG+      E++     +    
Sbjct: 10 RLFIGGIPKMKKREEILEEIAKVTEG 35

>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 = 34.7 bits (80), Expect = 4e-04
 Identities = 5/27 (18%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + + V  +        ++  FE++GP+
Sbjct: 43 RNLMVNYIPTTVDEVQLRQLFERYGPI 69

>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 = 34.4 bits (79), Expect = 4e-04
 Identities = 8/35 (22%), Positives = 13/35 (37%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          +  + V GL       D+    E+FG + Y     
Sbjct: 15 SPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP 49

>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 = 34.2 bits (79), Expect = 4e-04
 Identities = 4/26 (15%), Positives = 12/26 (46%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +F+G L+   ++ ++K    +    
Sbjct: 19 NLFIGNLNPNKSVAELKVAISELFAK 44

>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 = 34.1 bits (79), Expect = 4e-04
 Identities = 9/27 (33%), Positives = 13/27 (48%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          + ++VG LS   T   +   F Q GP 
Sbjct: 16 RTLYVGNLSRDVTEVLILQLFSQIGPC 42

>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 = 33.8 bits (78), Expect = 5e-04
 Identities = 6/25 (24%), Positives = 15/25 (60%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++ GG+++  T + ++  F  FG +
Sbjct: 28 VYCGGIASGLTDQLMRQTFSPFGQI 52

>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 = 34.0 bits (78), Expect = 5e-04
 Identities = 7/25 (28%), Positives = 12/25 (48%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV 41
          I    L A T   +++  F +FG +
Sbjct: 13 ILAKNLPAGTLAAEIQETFSRFGSL 37

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 105

 Score = 33.7 bits (77), Expect = 5e-04
 Identities = 7/35 (20%), Positives = 13/35 (37%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          ++ I +  L    T  +V +    FG V      +
Sbjct: 16 SRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK 50

>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 = 34.2 bits (79), Expect = 6e-04
 Identities = 5/27 (18%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++++VG +    T E + ++F     +
Sbjct: 5  RRLYVGNIPFGITEEAMMDFFNAQMRL 31

>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 = 34.2 bits (79), Expect = 7e-04
 Identities = 10/26 (38%), Positives = 14/26 (53%)

Query: 16  KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           K+F+GGL      + VK     FGP+
Sbjct: 116 KLFIGGLPNYLNDDQVKELLTSFGPL 141

>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 = 33.8 bits (78), Expect = 7e-04
 Identities = 7/29 (24%), Positives = 13/29 (44%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVY 42
           K +++  LS   T  D+ + F +F    
Sbjct: 25 NKVLYLKNLSPRVTERDLVSLFARFQEKK 53

>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 = 33.9 bits (78), Expect = 7e-04
 Identities = 7/26 (26%), Positives = 13/26 (50%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+ V  L    +  D++  F +FG +
Sbjct: 37 KLLVSNLDFGVSDADIQELFAEFGTL 62

>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 = 33.4 bits (77), Expect = 7e-04
 Identities = 7/29 (24%), Positives = 14/29 (48%), Gaps = 1/29 (3%)

Query: 14 TKKIFVGGLSAPT-TLEDVKNYFEQFGPV 41
            ++F+G L     + ED+   F  +G +
Sbjct: 22 KSRLFIGNLPLKNVSKEDLFRIFSPYGHI 50

>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 = 33.3 bits (77), Expect = 7e-04
 Identities = 9/26 (34%), Positives = 12/26 (46%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +FVG LS   T   +   F  FG +
Sbjct: 8  HVFVGDLSPEITTAAIAAAFAPFGRI 33

>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 = 32.9 bits (76), Expect = 8e-04
 Identities = 7/26 (26%), Positives = 12/26 (46%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           +++G L+  TT ED+       G  
Sbjct: 3  ALYIGNLTWWTTDEDLTEAVHSLGVN 28

>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 = 33.7 bits (78), Expect = 9e-04
 Identities = 6/26 (23%), Positives = 11/26 (42%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
           + V  L    T E+ ++ F   G +
Sbjct: 4  NLIVNYLPQNMTQEEFRSLFGSIGEI 29

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	60
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	99.51
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.5
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	99.5
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	99.49
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	99.47
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.46
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	99.46
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	99.45
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.44
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.44
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	99.43
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	99.42
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.42
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	99.4
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	99.4
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	99.39
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	99.39
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	99.39
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	99.38
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	99.38
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	99.38
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	99.38
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	99.38
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	99.38
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	99.38
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	99.38
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	99.38
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	99.37
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	99.37
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.37
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.37
2div_A	99	TRNA selenocysteine associated protein; structural	99.37
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	99.36
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	99.36
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	99.36
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	99.36
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.36
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	99.36
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	99.36
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.36
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	99.36
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	99.35
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	99.35
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	99.35
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	99.35
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	99.35
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	99.34
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	99.34
1x4e_A	85	RNA binding motif, single-stranded interacting pro	99.34
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	99.34
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	99.34
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	99.34
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.34
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	99.33
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.33
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	99.33
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	99.33
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	99.33
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	99.33
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	99.33
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.33
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	99.32
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	99.32
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	99.32
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	99.32
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	99.32
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	99.32
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	99.31
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.31
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	99.31
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	99.31
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.3
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	99.3
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	99.3
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.3
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	99.3
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	99.3
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.3
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.3
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.3
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.29
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	99.29
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	99.29
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	99.29
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	99.28
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.28
2dis_A	109	Unnamed protein product; structural genomics, RRM	99.28
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	99.28
1x5o_A	114	RNA binding motif, single-stranded interacting pro	99.28
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	99.28
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	99.28
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	99.28
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	99.28
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.27
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	99.27
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	99.27
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.27
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	99.27
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	99.27
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	99.27
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.26
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	99.26
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	99.26
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	99.26
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	99.26
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.26
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.26
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.26
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	99.26
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	99.25
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.25
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	99.25
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	99.24
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	99.24
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	99.24
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	99.23
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	99.23
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	99.23
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	99.23
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	99.22
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	99.22
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.22
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	99.22
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	99.21
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	99.21
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	99.21
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	99.21
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	99.21
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	99.21
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.2
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	99.2
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	99.2
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	99.2
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.19
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.18
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	99.18
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.18
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	99.17
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	99.17
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.17
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	99.17
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	99.17
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	99.16
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.16
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.15
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	99.15
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.14
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.13
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.13
1x5p_A	97	Negative elongation factor E; structure genomics,	99.13
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	99.13
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	99.13
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	99.11
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	99.11
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.71
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.11
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.1
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.1
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	99.1
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	99.1
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	99.09
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.09
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	99.08
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.08
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.08
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.07
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.07
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.07
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.06
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.04
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	99.03
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	99.03
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.03
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	99.01
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.01
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.01
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	99.01
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.0
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.99
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	98.98
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.96
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.96
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.95
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.94
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.92
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.92
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.9
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.89
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.88
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	98.87
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.86
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	98.83
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.79
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.79
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.78
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.7
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.51
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.5
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	98.48
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.47
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.21
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.21
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	97.89
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	97.89
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	97.12
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	96.02
3pq1_A	464	Poly(A) RNA polymerase; nucleotidyl transferase, R	96.02
1whv_A	100	Poly(A)-specific ribonuclease; RNA recognition mot	95.92
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	95.63
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	94.95
3ctr_A	101	Poly(A)-specific ribonuclease PARN; protein-RNA-co	93.92
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	93.75
1uw4_A	91	UPF3X; nonsense mediated mRNA decay protein, RNA-b	93.42
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	92.14
2l08_A	97	Regulator of nonsense transcripts 3A; NESG, nonsen	88.18
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	85.51

>1sjq_A Polypyrimidine tract-binding protein 1; babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.51  E-value=1.3e-14  Score=81.95  Aligned_cols=43  Identities=21%  Similarity=0.093  Sum_probs=38.6

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +...++|||+|||++++|++|+++|++||+|.+|.|++       +||||
T Consensus        13 ~~~~~~LfV~nLp~~vte~dL~~lF~~fG~V~~v~i~~-------~kGfa   55 (105)
T 1sjq_A           13 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK-------GKNQA   55 (105)
T ss_dssp             CCCCCEEEECSCCTTSCHHHHHHHHHHHCCEEEEEEET-------TTTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEc-------CCCEE
Confidence            45678999999999999999999999999999999998       56664

>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=99.50  E-value=3.9e-14  Score=78.11  Aligned_cols=47  Identities=17%  Similarity=0.210  Sum_probs=39.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++|||+|||+++|+++|+++|++||+|.++.+.+ +.....+||||
T Consensus        18 ~gt~lfV~nLp~~~te~~L~~~F~~~G~I~~v~i~~-d~~tg~~kG~a   64 (99)
T 4fxv_A           18 QGTNLIVNYLPQNMTQDELRSLFSSIGEVESAKLIR-DKVAGHSLGYG   64 (99)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEE-CSSSCCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEeEeee-cCCCCcccccE
Confidence            457899999999999999999999999999999887 33334556664

>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.50  E-value=4.4e-14  Score=78.65  Aligned_cols=48  Identities=21%  Similarity=0.415  Sum_probs=41.4

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||||||+++|+++|+++|++||+|.+|.++++..  ..+||||
T Consensus         8 ~~~~~~lfV~~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~--g~~rG~a   55 (103)
T 1s79_A            8 DVKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH--KAFKGSI   55 (103)
T ss_dssp             CSGGGCEEEECCCTTCCHHHHHHHHHTSSCEEEEEEECCCT--TSCCCEE
T ss_pred             cCCCCEEEEECCCCCCCHHHHHHHHhhcCCEEEEEEEECCC--CCCccEE
Confidence            44568899999999999999999999999999999998544  5677775

>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=99.49  E-value=3.1e-14  Score=77.14  Aligned_cols=41  Identities=24%  Similarity=0.384  Sum_probs=34.1

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      .......+|||||||+++++++|+++|++||+|.++.++++
T Consensus         6 ~~~~~~~~l~V~~Lp~~~te~~L~~~F~~~G~i~~v~i~~~   46 (89)
T 3d2w_A            6 HHHHHGSKVFVGRCTEDMTAEELQQFFCQYGEVVDVFIPKP   46 (89)
T ss_dssp             -----CCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCSS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEeeC
Confidence            34456789999999999999999999999999999998873

>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=99.47  E-value=1.2e-13  Score=73.55  Aligned_cols=53  Identities=34%  Similarity=0.488  Sum_probs=40.7

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+......++|||+|||+++++++|+++|++||+|.++.+.++ .....++|||
T Consensus         4 ~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   56 (87)
T 3s7r_A            4 ASKNEEDAGKMFVGGLSWDTSKKDLKDYFTKFGEVVDCTIKMD-PNTGRSRGFG   56 (87)
T ss_dssp             ---CCSCTTEEEEECCCTTCCHHHHHHHHTTTSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEeec-CCCCccccEE
Confidence            3455567889999999999999999999999999999998873 2223445553

>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=99.46  E-value=1e-13  Score=79.60  Aligned_cols=38  Identities=18%  Similarity=0.091  Sum_probs=35.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+++|++||+|.+|.+++
T Consensus        28 ~~ps~~LfVgNLp~~vte~dL~~lF~~fG~V~~v~i~~   65 (119)
T 2ad9_A           28 GVPSRVIHIRKLPIDVTEGEVISLGLPFGKVTNLLMLK   65 (119)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHHHTTTSCCCEEEEEG
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC
Confidence            34567899999999999999999999999999999988

>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=99.46  E-value=1.3e-13  Score=76.82  Aligned_cols=38  Identities=16%  Similarity=0.100  Sum_probs=34.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+++|++||.|.+|.+++
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~v~~v~i~~   49 (101)
T 2cq1_A           12 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK   49 (101)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC
Confidence            34567899999999999999999999999999998887

>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=99.45  E-value=2.2e-13  Score=76.14  Aligned_cols=38  Identities=24%  Similarity=0.396  Sum_probs=34.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+++|++||+|.+|.+++
T Consensus        12 ~~p~~~l~V~nLp~~~te~~L~~~F~~fG~V~~v~i~~   49 (104)
T 1wex_A           12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP   49 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC
Confidence            34567899999999999999999999999999998887

>4f25_A Polyadenylate-binding protein 1; RRM fold, translation initiation, RNA-binding, EIF4G-binding translation; 1.90A {Homo sapiens} PDB: 4f26_A 2k8g_A

Probab=99.44  E-value=9.5e-14  Score=77.91  Aligned_cols=45  Identities=20%  Similarity=0.304  Sum_probs=37.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||||||+++++++|+++|++||+|.+|.|.++..+   +||||
T Consensus         4 ~~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d~~~---~kg~a   48 (115)
T 4f25_A            4 GSGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG---SKGYG   48 (115)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTE---EEEEE
T ss_pred             CCCEEEECCCCCCCCHHHHHHHHhccCCEEEEEEeecCCC---CCceE
Confidence            3568999999999999999999999999999999885332   46664

>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=99.44  E-value=1e-13  Score=77.58  Aligned_cols=37  Identities=8%  Similarity=0.080  Sum_probs=34.5

Q ss_pred             CCcceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+ +++++||+++|++||+|.+|.|++
T Consensus        13 ~p~~~l~V~nLp~~~~te~dL~~lF~~fG~V~~v~i~~   50 (102)
T 1x4d_A           13 ETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILN   50 (102)
T ss_dssp             CCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECS
T ss_pred             CCCCEEEEeCCCCCcCCHHHHHHHHHhcCCEEEEEEEc
Confidence            3567899999999 999999999999999999999988

>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=99.43  E-value=3.1e-13  Score=71.51  Aligned_cols=41  Identities=29%  Similarity=0.427  Sum_probs=36.9

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +......++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         6 ~~~~~~~~~l~V~~l~~~~t~~~l~~~f~~~G~i~~~~~~~   46 (85)
T 2ytc_A            6 SGEDKTITTLYVGGLGDTITETDLRNHFYQFGEIRTITVVQ   46 (85)
T ss_dssp             CCSCSSCCCEEEECCTTTSCHHHHHHHHHTTSCEEEEEEEG
T ss_pred             CCCCCCccEEEEcCCCCCCCHHHHHHHHHhCCCEeEEEEEC
Confidence            34456678999999999999999999999999999999988

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

Probab=99.42  E-value=2.7e-13  Score=75.94  Aligned_cols=44  Identities=18%  Similarity=0.316  Sum_probs=38.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+..+.|||+|||+++++++|+++|++||+|.+|.+.+       +||||
T Consensus        17 ~~~ps~~l~V~NLp~~~te~~L~~lF~~fG~V~~v~i~~-------~kg~A   60 (100)
T 3r27_A           17 KTPASPVVHIRGLIDGVVEADLVEALQEFGPISYVVVMP-------KKRQA   60 (100)
T ss_dssp             CCCCCSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEET-------TTTEE
T ss_pred             cCCCCcEEEEeCCCCCCCHHHHHHHHhccCCEEEEEEEc-------CCCEE
Confidence            334567899999999999999999999999999999887       67665

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

Probab=99.42  E-value=3.4e-13  Score=75.69  Aligned_cols=48  Identities=10%  Similarity=-0.007  Sum_probs=39.9

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +..++|||+|||+++++++|+++|++||+|.+|.|++ +.....+||||
T Consensus         4 ~p~~~lfV~nL~~~~te~~L~~~F~~~G~i~~v~i~~-d~~tg~~rG~a   51 (110)
T 3s8s_A            4 IPLKEVTFARLNDNVRETFLKDMCRKYGEVEEVEILL-HPRTRKHLGLA   51 (110)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCCcEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEE-CCCCCceeeEE
Confidence            3467899999999999999999999999999999987 33334566664

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

Probab=99.40  E-value=7.1e-14  Score=75.88  Aligned_cols=46  Identities=13%  Similarity=0.195  Sum_probs=38.9

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCC-ceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFG-PVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG-~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++.|||+|||+++||++|+++|++|| +|.+|.+++ +.....+||||
T Consensus         1 S~~i~v~nLp~~~te~~l~~~F~~~G~~v~~v~i~~-d~~t~~~rg~a   47 (91)
T 2lxi_A            1 SNIVMLRMLPQAATEDDIRGQLQSHGVQAREVRLMR-NKSSGQSRGFA   47 (91)
T ss_dssp             CCEEEEETCCSSCCHHHHHHHHHHHTCCCSBCCSSS-CSSSCCCSSEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCEeEEEEEEe-cCCCCCcCceE
Confidence            35799999999999999999999999 899998887 44445677775

>2cqg_A TDP-43, TAR DNA-binding protein-43; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.40  E-value=8.7e-13  Score=72.12  Aligned_cols=52  Identities=33%  Similarity=0.512  Sum_probs=40.7

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .......++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus         9 ~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   60 (103)
T 2cqg_A            9 KRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKKD-LKTGHSKGFG   60 (103)
T ss_dssp             SCCCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEEC-SSSCSEEEEE
T ss_pred             CCccCCCCEEEEEcCCCcCCHHHHHHHHHhcCCeEEEEEEec-CCCCCccceE
Confidence            344556788999999999999999999999999999998873 2223345553

>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=99.39  E-value=5.3e-13  Score=71.32  Aligned_cols=38  Identities=21%  Similarity=0.448  Sum_probs=34.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ...++|||+|||+++++++|+++|++||+|.++.+.++
T Consensus         3 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   40 (88)
T 1wf0_A            3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKP   40 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCSS
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEEecC
Confidence            34689999999999999999999999999999998863

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

Probab=99.39  E-value=2.8e-13  Score=74.62  Aligned_cols=49  Identities=8%  Similarity=0.135  Sum_probs=40.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCc--eeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGP--VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~--V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++|+++|+++|++||.  |.+|.+.+ +.....+||||
T Consensus         6 ~~~m~tlfV~nL~~~~tee~L~~~F~~~G~i~v~~v~i~~-d~~tg~srG~a   56 (95)
T 2lkz_A            6 HHHMDTIILRNIAPHTVVDSIMTALSPYASLAVNNIRLIK-DKQTQQNRGFA   56 (95)
T ss_dssp             SCCCCEEEEESCCTTCCHHHHHHHSTTTCCCCGGGEECCC-CSSSSSCSSEE
T ss_pred             CCccCEEEEeCCCCcCCHHHHHHHHHhhCCccEEEEEEEe-cCCCCCCceEe
Confidence            456788999999999999999999999995  66788877 44445677775

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

Probab=99.39  E-value=1e-12  Score=71.37  Aligned_cols=51  Identities=25%  Similarity=0.420  Sum_probs=40.5

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus         5 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   55 (99)
T 2dgs_A            5 SSGSKSNKIFVGGIPHNCGETELREYFKKFGVVTEVVMIYD-AEKQRPRGFG   55 (99)
T ss_dssp             CCCSSCCEEEEESCCSSCCHHHHHHHHSSSSCEEEEEECCC-TTTCSCCSEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEeC-CCCCCCCceE
Confidence            34456789999999999999999999999999999998873 2223345553

>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=99.38  E-value=1e-12  Score=73.15  Aligned_cols=46  Identities=20%  Similarity=0.231  Sum_probs=39.6

Q ss_pred             ccCcccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530           4 FINISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus         4 ~~~~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ..+.++.....++|||+|||+.+++++|+++|++||+|.++.+.++
T Consensus        16 ~~~~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~   61 (108)
T 2jrs_A           16 ANNLQKGSAGPMRLYVGSLHFNITEDMLRGIFEPFGRIESIQLMMD   61 (108)
T ss_dssp             CCSSCCSCSSCEEEEEECCCSSCCHHHHHHHHTTTSCEEEEEEEEE
T ss_pred             ccccccCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEc
Confidence            3444556667789999999999999999999999999999998873

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=99.38  E-value=7.9e-13  Score=73.62  Aligned_cols=51  Identities=37%  Similarity=0.481  Sum_probs=38.0

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.....++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus        20 ~~~~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~v~i~~~-~~tg~~kg~a   70 (109)
T 2rs2_A           20 HMGSSGCKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD-PLTKRSRGFG   70 (109)
T ss_dssp             ------CCEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCC-TTTCCCTTCE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHHccCCeEEEEEEEC-CCCCCcCcEE
Confidence            34456788999999999999999999999999999999873 2233456664

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

Probab=99.38  E-value=1.6e-12  Score=72.40  Aligned_cols=52  Identities=35%  Similarity=0.440  Sum_probs=41.1

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus        11 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   62 (116)
T 2cqd_A           11 SQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITD-RQTGKSRGYG   62 (116)
T ss_dssp             CCCSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCC-SSSCCCCSEE
T ss_pred             CcCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeeEEEEEEc-CCCCccceEE
Confidence            344556789999999999999999999999999999998873 2223445553

>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=99.38  E-value=1.3e-12  Score=71.97  Aligned_cols=52  Identities=23%  Similarity=0.273  Sum_probs=40.8

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++ .-...++|||
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   60 (111)
T 1x4h_A            9 PSDVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVLH-PDTEHSKGCA   60 (111)
T ss_dssp             CCCCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBC-SSSCCBCSEE
T ss_pred             CCcCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEec-CCCCCCccEE
Confidence            344456788999999999999999999999999999998863 2223345554

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

Probab=99.38  E-value=1.4e-12  Score=71.46  Aligned_cols=53  Identities=19%  Similarity=0.357  Sum_probs=41.5

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+.+++++|+++|++||+|.+|.+.++......++|||
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~~g~a   61 (107)
T 2cph_A            9 VPKKQTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFG   61 (107)
T ss_dssp             SCCSSCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEE
T ss_pred             cccCCCCCEEEEeCCCCcCCHHHHHHHHHccCCeEEEEEecCCCCCCCcCceE
Confidence            34455678899999999999999999999999999999987422233445553

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=99.38  E-value=4e-13  Score=76.67  Aligned_cols=50  Identities=8%  Similarity=0.109  Sum_probs=40.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE--EEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY--TACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~--v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||||||+++++++|+++|++||.|..  |.|+++ .-...+||||
T Consensus        19 ~~~~~~~lfV~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d-~~tg~~rG~a   70 (131)
T 2m2b_A           19 SENANDTIILRNLNPHSTMDSILGALAPYAVLSSSNVRVIKD-KQTQLNRGFA   70 (131)
T ss_dssp             CSCCCCEEEECSCCTTCCSHHHHHHHGGGCCCCTTTEECCBC-SSSSSBCSCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeEEEEEc-CCCCCcceEE
Confidence            3345678999999999999999999999999966  888873 3334567775

>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=99.38  E-value=2e-12  Score=70.76  Aligned_cols=52  Identities=21%  Similarity=0.269  Sum_probs=41.0

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++. ....+||||
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~~~~~~g~a   60 (105)
T 1x5u_A            9 ISERNQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDR-VTGQHQGYG   60 (105)
T ss_dssp             CCCCCTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCBCS-SSCSBCSCE
T ss_pred             cccCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecC-CCCcCCcEE
Confidence            3445567899999999999999999999999999999888732 223455553

>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=99.38  E-value=9.3e-13  Score=71.67  Aligned_cols=40  Identities=25%  Similarity=0.489  Sum_probs=36.1

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~   49 (99)
T 2cpj_A           10 KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK   49 (99)
T ss_dssp             CCCCCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHHhhcCCeEEEEEec
Confidence            3445677999999999999999999999999999999987

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

Probab=99.38  E-value=1.9e-12  Score=70.79  Aligned_cols=52  Identities=19%  Similarity=0.201  Sum_probs=40.9

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus         7 ~~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~-~~~~~~~g~a   58 (103)
T 2dnm_A            7 GPDVDGMITLKVDNLTYRTSPDSLRRVFEKYGRVGDVYIPRE-PHTKAPRGFA   58 (103)
T ss_dssp             SSCCSCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEECCBC-SSSCSBCSCE
T ss_pred             CCCCCCCeEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeC-CCCCCCCeEE
Confidence            344556789999999999999999999999999999988873 2223445554

>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=99.37  E-value=7.2e-13  Score=72.66  Aligned_cols=52  Identities=21%  Similarity=0.255  Sum_probs=41.1

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus         7 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   58 (106)
T 2dgp_A            7 GMKDHDAIKLFIGQIPRNLDEKDLKPLFEEFGKIYELTVLKD-RFTGMHKGCA   58 (106)
T ss_dssp             SCCCTTCEEEEEESCCTTCCHHHHHHHHHHHSCCCEEECCCC-SSSCSCCSEE
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEec-CCCCCcceEE
Confidence            344556788999999999999999999999999999998873 2223445553

>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=99.37  E-value=3e-13  Score=76.93  Aligned_cols=42  Identities=17%  Similarity=0.150  Sum_probs=37.5

Q ss_pred             CCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||++ +++++|+++|++||+|.+|.+++       +||||
T Consensus        23 ~p~~~l~V~NLp~~~~te~~L~~lF~~fG~V~~v~i~~-------~kg~a   65 (112)
T 1x4f_A           23 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-------MKSQA   65 (112)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-------TTTEE
T ss_pred             CCCCEEEEeCCCCccCCHHHHHHHHHhcCCEEEEEEec-------CCCEE
Confidence            34678999999998 99999999999999999999987       67765

>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=99.37  E-value=1.8e-12  Score=70.85  Aligned_cols=50  Identities=24%  Similarity=0.306  Sum_probs=40.8

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++..+   ++|||
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~~~---~~g~a   58 (103)
T 2cq3_A            9 SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG---SKGFG   58 (103)
T ss_dssp             SCCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT---TCCEE
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCC---CcEEE
Confidence            344566789999999999999999999999999999999874322   45553

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

Probab=99.37  E-value=6.2e-13  Score=80.59  Aligned_cols=49  Identities=16%  Similarity=0.184  Sum_probs=38.6

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||||||++++|++|+++|++||+|.+|.+++ +....+++|||
T Consensus        12 ~~p~~tlfVgnLp~~~te~~L~~~F~~~G~I~~v~i~~-d~~tg~~~G~a   60 (213)
T 4f02_A           12 SYPMASLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCR-DMITRRSLGYA   60 (213)
T ss_dssp             ---CCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEec-ccCCCCccccc
Confidence            34467899999999999999999999999999999987 33334455554

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

Probab=99.37  E-value=1.1e-12  Score=71.16  Aligned_cols=39  Identities=13%  Similarity=0.144  Sum_probs=35.7

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCcee-EEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY-YTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~-~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||+|. ++.+.+
T Consensus         5 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~v~i~~   44 (99)
T 2div_A            5 SSGMAASLWMGDLEPYMDENFISRAFATMGETVMSVKIIR   44 (99)
T ss_dssp             CCSSSSEEEECSCCTTCCHHHHHHHHHHTTCCCCEEEEEE
T ss_pred             CCCCccEEEEeCCCCCCCHHHHHHHHHHhCCcceEEEEee
Confidence            345678999999999999999999999999999 998887

>2xs2_A Deleted in azoospermia-like; RNA binding protein-RNA complex; 1.35A {Mus musculus} PDB: 2xs7_A 2xs5_A 2xsf_A

Probab=99.36  E-value=6.1e-13  Score=72.64  Aligned_cols=50  Identities=18%  Similarity=0.365  Sum_probs=40.8

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......++|||+|||+++++++|+++|++||.|.++.+.++.  ...+||||
T Consensus         4 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~a   53 (102)
T 2xs2_A            4 EGKIMPNTVFVGGIDVRMDETEIRSFFARYGSVKEVKIITDR--TGVSKGYG   53 (102)
T ss_dssp             CCEEEEEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECT--TSCEEEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC--CCCccceE
Confidence            344556889999999999999999999999999999998843  33455654

>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=99.36  E-value=2e-12  Score=70.74  Aligned_cols=48  Identities=29%  Similarity=0.313  Sum_probs=39.4

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++..  ..+||||
T Consensus        12 ~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~--g~~~g~a   59 (105)
T 2dnh_A           12 GGRDRKLFVGMLNKQQSEEDVLRLFQPFGVIDECTVLRGPD--GSSKGCA   59 (105)
T ss_dssp             CCCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECSS--SCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC--CCcCcEE
Confidence            34578899999999999999999999999999999987432  2345553

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

Probab=99.36  E-value=2.5e-12  Score=69.09  Aligned_cols=51  Identities=16%  Similarity=0.228  Sum_probs=40.1

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+..++|||+|||+++++++|+++|++||+|.++.+.++. ....++|||
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~-~~~~~~g~a   61 (94)
T 2e5h_A           11 GLAPSKSTVYVSNLPFSLTNNDLYRIFSKYGKVVKVTIMKDK-DTRKSKGVA   61 (94)
T ss_dssp             SCCCCTTSEEEESCCTTSCHHHHHHHTTTTSCEEEEEECCCS-SSCCCTTCE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEeCC-CCCCcccEE
Confidence            344567899999999999999999999999999999988732 222345553

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.36  E-value=1.2e-12  Score=71.71  Aligned_cols=41  Identities=34%  Similarity=0.496  Sum_probs=36.8

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ......++|||+|||+++++++|+++|++||+|.+|.+.++
T Consensus        11 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~   51 (105)
T 2dh8_A           11 SGADEIGKLFVGGLDWSTTQETLRSYFSQYGEVVDCVIMKD   51 (105)
T ss_dssp             CCSSSSSEECCBSCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC
Confidence            34566789999999999999999999999999999998873

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

Probab=99.36  E-value=1.2e-12  Score=71.30  Aligned_cols=37  Identities=19%  Similarity=0.305  Sum_probs=34.3

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus        25 ~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~~~~   61 (101)
T 2la4_A           25 PRVTTAYIGNIPHFATEADLIPLFQNFGFILDFKHYP   61 (101)
T ss_dssp             SSCCEEEEESCCTTCCHHHHHHHHHTTSCCSEEEEET
T ss_pred             CCCCEEEEcCCCcccCHHHHHHHHHhCCCEEEEEEec
Confidence            4467899999999999999999999999999999886

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

Probab=99.36  E-value=6.4e-13  Score=68.96  Aligned_cols=44  Identities=52%  Similarity=0.679  Sum_probs=36.3

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +|||+|||+++++++|+++|++||+|.++.+.++. ....++|||
T Consensus         1 ~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~~~~~~g~a   44 (75)
T 2mss_A            1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFDK-TTNRHRGFG   44 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCCBCS-SSTTSCBEE
T ss_pred             CEEEecCCCCCCHHHHHHHHHhcCCEEEEEEEecC-CCCCcCcEE
Confidence            68999999999999999999999999999888732 233455654

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=99.36  E-value=1.9e-12  Score=72.21  Aligned_cols=49  Identities=24%  Similarity=0.151  Sum_probs=39.2

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus        37 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~-~~~g~~~g~a   85 (118)
T 2khc_A           37 GPEGCNLFIYHLPQEFTDTDLASTFLPFGNVISAKVFID-KQTSLSKCFG   85 (118)
T ss_dssp             CCCSEEEEEECSCTTCCHHHHHHHTTTSCEEEEEEECCC-SSSSCCCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEeC-CCCCCcCcEE
Confidence            345678999999999999999999999999999998873 2223445553

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

Probab=99.36  E-value=1.2e-12  Score=70.88  Aligned_cols=49  Identities=22%  Similarity=0.353  Sum_probs=39.9

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeec--CCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIF--GISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~--g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||+|.+|.+.++..  |...+||||
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~a   53 (98)
T 2cpf_A            3 SGSSGLFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFG   53 (98)
T ss_dssp             CCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEE
Confidence            3467899999999999999999999999999999887443  333455554

>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=99.36  E-value=1.7e-12  Score=72.20  Aligned_cols=40  Identities=18%  Similarity=0.100  Sum_probs=35.7

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      .....++|||+|||+++++++|+++|++||.|.+|.+.++
T Consensus        21 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   60 (115)
T 2cpz_A           21 EGPEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID   60 (115)
T ss_dssp             CCSTTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEEC
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEC
Confidence            3445678999999999999999999999999999998873

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

Probab=99.35  E-value=2.5e-12  Score=69.94  Aligned_cols=53  Identities=25%  Similarity=0.292  Sum_probs=41.6

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE--------EEEeeeecCCCCccccC
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY--------TACDRFIFGISPVKNFG   60 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~--------v~i~~~~~g~~~~k~fg   60 (60)
                      .+.......+|||+|||+++++++|+++|++||.|.+        +.+.++ .....+||||
T Consensus         6 ~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~-~~~g~~~G~a   66 (99)
T 2la6_A            6 HHHSHSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYTD-RETGKLKGEA   66 (99)
T ss_dssp             SCCSCCCCSEEEEECCCSSCCHHHHHHHHTTTSCBCEETTTTEESEEEEEC-TTTCSEEEEE
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHHhCCEeeccccccccEEEEec-CCCCCeeeEE
Confidence            3445567789999999999999999999999999999        888773 2223445554

>1uaw_A Mouse-musashi-1; RNP-type structure, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=99.35  E-value=7.3e-13  Score=68.84  Aligned_cols=45  Identities=40%  Similarity=0.536  Sum_probs=36.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||+|||+++++++|+++|++||+|.++.+.++. ....++|||
T Consensus         1 ~~l~v~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~-~~~~~~g~a   45 (77)
T 1uaw_A            1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRDP-LTKRSRGFG   45 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEECCC-CSSSCSSEE
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEecCC-CCCCcCceE
Confidence            479999999999999999999999999999988732 223455554

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

Probab=99.35  E-value=2.5e-12  Score=71.49  Aligned_cols=42  Identities=29%  Similarity=0.415  Sum_probs=37.1

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ........++|||+|||+++++++|+++|++||.|.+|.+.+
T Consensus         8 ~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~   49 (115)
T 2dgo_A            8 QKKDTSNHFHVFVGDLSPEITTEDIKAAFAPFGRISDARVVK   49 (115)
T ss_dssp             SCCCSTTCEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCCCCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEE
Confidence            334455678899999999999999999999999999999987

>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=99.35  E-value=1.6e-12  Score=72.25  Aligned_cols=47  Identities=17%  Similarity=0.198  Sum_probs=38.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||.|.+|.+.++ .....++|||
T Consensus        24 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   70 (114)
T 2cq4_A           24 DARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIISD-RNSRRSKGIA   70 (114)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECCS-CCSSSCCCCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEeEEEEEec-CCCCccCcEE
Confidence            4568999999999999999999999999999998862 2223455554

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.35  E-value=2.2e-12  Score=70.53  Aligned_cols=50  Identities=18%  Similarity=0.164  Sum_probs=40.7

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++..+   .||||
T Consensus         9 ~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~g~a   58 (103)
T 2cqi_A            9 MEDDGQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITEHTS---NDPYC   58 (103)
T ss_dssp             CCCSCCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECCCCS---SCCEE
T ss_pred             CCCCCCCCEEEEeCCCccCCHHHHHHHHHhcCCEeEEEEEecCCC---CCCEE
Confidence            344556789999999999999999999999999999999885322   35554

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=1.2e-12  Score=73.04  Aligned_cols=47  Identities=36%  Similarity=0.581  Sum_probs=38.2

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.+|.+.++ .....+||||
T Consensus        26 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   72 (116)
T 1x4b_A           26 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRD-PASKRSRGFG   72 (116)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEECC-TTTSSCCSEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEEC-CCCCCcCceE
Confidence            4578999999999999999999999999999999873 2223345553

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

Probab=99.34  E-value=2.2e-12  Score=70.72  Aligned_cols=48  Identities=19%  Similarity=0.284  Sum_probs=38.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||+|.+|.+.+ ......++|||
T Consensus        21 ~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~-~~~~~~~~g~a   68 (106)
T 1p27_B           21 VEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNL-DRRTGYLKGYT   68 (106)
T ss_dssp             TTBEEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEE-CTTTSSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhccCCeEEEEEEe-cCCCCceeeEE
Confidence            3457899999999999999999999999999999886 22223445553

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.34  E-value=1.4e-12  Score=69.00  Aligned_cols=48  Identities=19%  Similarity=0.303  Sum_probs=38.9

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +..++|||+|||+++++++|+++|++||+|.++.+..+ .....++|||
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~-~~~~~~~g~a   50 (85)
T 1x4e_A            3 SGSSGLYIRGLQPGTTDQDLVKLCQPYGKIVSTKAILD-KTTNKCKGYG   50 (85)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHTTSTTTSCEEEEEEECC-SSSCSCCSEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec-CCCCCcCcEE
Confidence            45689999999999999999999999999999988873 2223345553

>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=99.34  E-value=1.6e-12  Score=69.97  Aligned_cols=50  Identities=26%  Similarity=0.289  Sum_probs=40.0

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......++|||+|||+.+++++|+++|++||+|.+|.+.++..  ..+||||
T Consensus        11 ~~~~~~~~l~v~nlp~~~~~~~l~~~F~~~G~i~~v~i~~~~~--g~~~g~a   60 (95)
T 2ywk_A           11 AQEEADRTVFVGNLEARVREEILYELFLQAGPLTKVTICKDRE--GKPKSFG   60 (95)
T ss_dssp             -CTTGGGEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEECTT--SCEEEEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEECCC--CCCceEE
Confidence            3445678999999999999999999999999999999987443  3345543

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

Probab=99.34  E-value=3.5e-12  Score=68.46  Aligned_cols=40  Identities=25%  Similarity=0.228  Sum_probs=35.7

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus        10 ~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~   49 (95)
T 2cqc_A           10 ANPDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVY   49 (95)
T ss_dssp             CSCCGGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeeEEEEEE
Confidence            3445567899999999999999999999999999998886

>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=99.34  E-value=2.4e-12  Score=69.83  Aligned_cols=49  Identities=22%  Similarity=0.320  Sum_probs=38.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++. ....++|||
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~~~~~~g~a   53 (99)
T 1whw_A            5 SSGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPIDS-LTKKPKGFA   53 (99)
T ss_dssp             CCSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCCCT-TTCCCCSEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEecC-CCCCcCeEE
Confidence            3457889999999999999999999999999999888732 222344553

>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=99.34  E-value=1.6e-12  Score=76.62  Aligned_cols=53  Identities=30%  Similarity=0.432  Sum_probs=41.0

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+......++|||+|||+++++++|+++|++||+|.+|.++++ .....++|||
T Consensus         6 ~~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   58 (196)
T 1l3k_A            6 SPKEPEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMRD-PNTKRSRGFG   58 (196)
T ss_dssp             --CCCGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEc-CCCCCccceE
Confidence            3445567789999999999999999999999999999998873 2223345553

>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=99.33  E-value=1.8e-12  Score=68.70  Aligned_cols=37  Identities=24%  Similarity=0.363  Sum_probs=33.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         4 ~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~   40 (87)
T 3bs9_A            4 GSHFHVFVGDLSPEITTAAIAAAFAPFGRISDARVVK   40 (87)
T ss_dssp             --CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCceEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEEe
Confidence            3467899999999999999999999999999999887

>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=99.33  E-value=2e-12  Score=68.21  Aligned_cols=39  Identities=21%  Similarity=0.283  Sum_probs=35.2

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++
T Consensus         4 ~~~~~~l~V~nl~~~~~~~~l~~~f~~~G~i~~v~i~~~   42 (85)
T 3mdf_A            4 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD   42 (85)
T ss_dssp             CCCSSEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCEE
T ss_pred             CCCCCEEEEECCCCCCCHHHHHHHHhccCCEEEEEEEEC
Confidence            345788999999999999999999999999999988773

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

Probab=99.33  E-value=1.8e-12  Score=72.03  Aligned_cols=50  Identities=20%  Similarity=0.253  Sum_probs=40.8

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.++.+.++..   .+||||
T Consensus        23 ~~~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~---~~kg~a   72 (109)
T 2err_A           23 TENKSQPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNER---GSKGFG   72 (109)
T ss_dssp             CSCTTCCCEEEEESCCTTCCHHHHHHHGGGTCCCSCEEECCBTT---BCTTEE
T ss_pred             ccCCCCCCEEEEECCCCcCCHHHHHHHHHhcCCEEEEEEEECCC---CCceEE
Confidence            34455678899999999999999999999999999999987432   256654

>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=99.33  E-value=2.7e-12  Score=69.56  Aligned_cols=37  Identities=27%  Similarity=0.547  Sum_probs=34.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus        15 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~~~~   51 (97)
T 1why_A           15 NPTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK   51 (97)
T ss_dssp             CCCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeC
Confidence            4567899999999999999999999999999998887

>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=99.33  E-value=3.7e-12  Score=70.18  Aligned_cols=49  Identities=10%  Similarity=0.026  Sum_probs=39.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE-EEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY-TACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~-v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++||.|.+ |.+..+.  ..++||||
T Consensus        11 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~v~i~~~~--~g~~~G~a   60 (104)
T 1wg5_A           11 DTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLPVDF--QGRSTGEA   60 (104)
T ss_dssp             SCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECCBCS--SSCBCSEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCcceeEEEEECC--CCCcceEE
Confidence            3456789999999999999999999999999987 7777642  33566664

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

Probab=99.33  E-value=2.2e-12  Score=70.26  Aligned_cols=51  Identities=20%  Similarity=0.316  Sum_probs=40.2

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......++|||+|||+++++++|+++|++||+|.+|.+.++ ......+|||
T Consensus         7 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~~-~~~~~~~g~a   57 (102)
T 2cqb_A            7 GMATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD-YETEKHRGFA   57 (102)
T ss_dssp             CSCCCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCC-SSSCCCSSEE
T ss_pred             CcCCCCCEEEEeCCCCCCCHHHHHHHhhccCCEEEEEEEec-CCCCCcceEE
Confidence            34456789999999999999999999999999999988773 2222345543

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

Probab=99.33  E-value=2.9e-12  Score=70.03  Aligned_cols=41  Identities=15%  Similarity=0.171  Sum_probs=36.5

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ......++|||+|||+++++++|+++|++||+|.++.+.++
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~   50 (103)
T 2d9p_A           10 ITRYQVVNLYVKNLDDGIDDERLRKAFSPFGTITSAKVMME   50 (103)
T ss_dssp             CCCSSCCCEEEECCCTTCCHHHHHHTTTTTSCEEEEEEEEC
T ss_pred             cCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEcC
Confidence            34456789999999999999999999999999999998874

>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=99.33  E-value=2.4e-12  Score=67.69  Aligned_cols=45  Identities=20%  Similarity=0.318  Sum_probs=36.5

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+|||+|||+++++++|+++|++||+|.++.+.++ .....++|||
T Consensus         2 ~~l~V~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~-~~~~~~~g~a   46 (83)
T 3md1_A            2 FNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMWD-MQTGSSRGYG   46 (83)
T ss_dssp             EEEEEECCCTTCCHHHHHHHHTTSTTEEEEEEEEC-TTTCCEEEEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEc-CCCCCccceE
Confidence            57999999999999999999999999999988873 2223345553

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

Probab=99.32  E-value=4.2e-12  Score=69.06  Aligned_cols=48  Identities=19%  Similarity=0.213  Sum_probs=39.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+..+.  ...+||||
T Consensus        14 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~a   61 (100)
T 2do4_A           14 SLEKHKLFISGLPFSCTKEELEEICKAHGTVKDLRLVTNR--AGKPKGLA   61 (100)
T ss_dssp             CCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECT--TSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEEECC--CCCEEeEE
Confidence            3456789999999999999999999999999999988743  23344543

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

Probab=99.32  E-value=4.8e-12  Score=68.04  Aligned_cols=48  Identities=21%  Similarity=0.348  Sum_probs=38.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +..++|||+|||+++++++|+++|++||+|.++.+.++. ....++|||
T Consensus         3 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~~-~~~~~~g~a   50 (95)
T 2dnz_A            3 SGSSGLYVGSLHFNITEDMLRGIFEPFGKIDNIVLMKDS-DTGRSKGYG   50 (95)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHTTTSCEEEEEEECCS-SSCCCCSEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEeecC-CCCceeeEE
Confidence            456899999999999999999999999999999988732 223345543

>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=99.32  E-value=1.9e-12  Score=72.38  Aligned_cols=36  Identities=19%  Similarity=0.288  Sum_probs=33.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++||.|.+|.+.+
T Consensus         9 ~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~   44 (111)
T 1whx_A            9 SKTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE   44 (111)
T ss_dssp             EEEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEeC
Confidence            457899999999999999999999999999998877

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

Probab=99.32  E-value=2.3e-12  Score=70.38  Aligned_cols=40  Identities=23%  Similarity=0.300  Sum_probs=36.1

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||+|.+|.+.+
T Consensus        10 ~~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~   49 (103)
T 2cq0_A           10 RRADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAK   49 (103)
T ss_dssp             CCCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEE
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhCCCeEEEEEee
Confidence            3445678899999999999999999999999999999887

>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=99.32  E-value=8.7e-13  Score=68.35  Aligned_cols=44  Identities=36%  Similarity=0.491  Sum_probs=36.1

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +|||+|||+++++++|+++|++||+|.++.+.++ .....++|||
T Consensus         1 ~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   44 (75)
T 1iqt_A            1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMD-NKTNKRRGFC   44 (75)
T ss_dssp             CEEESCCCSSCCHHHHHHHHHHHSCCSEECCCCS-CCCSSSCCCE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec-CCCCCcCCEE
Confidence            5899999999999999999999999999988763 2223456654

>1oo0_B CG8781-PA, drosophila Y14; RNA recognition motif, splicing, protein complex, EXON junct complex, signaling protein; 1.85A {Drosophila melanogaster} SCOP: d.58.7.1 PDB: 2hyi_B* 2j0s_D* 2xb2_D*

Probab=99.32  E-value=3.8e-12  Score=70.23  Aligned_cols=49  Identities=10%  Similarity=0.153  Sum_probs=38.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+.+++++|+++|++||.|.++.+..+ .....++|||
T Consensus        23 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   71 (110)
T 1oo0_B           23 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD-RRTGFSKGYA   71 (110)
T ss_dssp             BTTBEEEEEESCCTTCCHHHHHHHHGGGSCEEEEECCBC-TTTSSBCSEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec-CCCCCcceEE
Confidence            345678999999999999999999999999999988762 2223445554

>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=99.31  E-value=3.9e-12  Score=67.58  Aligned_cols=47  Identities=21%  Similarity=0.212  Sum_probs=37.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.++.+.++ .....++|||
T Consensus         5 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   51 (89)
T 3ucg_A            5 DARSIYVGNVDYGATAEELEAHFHGCGSVNRVTILCD-KFSGHPKGFA   51 (89)
T ss_dssp             HHTEEEEESCCTTCCHHHHHHHHGGGCCEEEEEEEES-CSSSSCCEEE
T ss_pred             cCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEec-CCCCCcceEE
Confidence            4578999999999999999999999999999988873 2223345553

>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=99.31  E-value=1.2e-12  Score=74.84  Aligned_cols=37  Identities=22%  Similarity=0.240  Sum_probs=33.4

Q ss_pred             CCcceEEE--eCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFV--GGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfV--g~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||  |||++++++++|+++|++||+|.+|.+..
T Consensus        23 ~pt~~L~V~Ng~L~~~~te~~L~~~F~~fG~v~~v~i~~   61 (114)
T 2cq2_A           23 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP   61 (114)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT
T ss_pred             CCCCEEEEECCCCCCCCCHHHHHHHHHhcCCeEEEEEeC
Confidence            34678999  88999999999999999999999988876

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

Probab=99.31  E-value=4e-12  Score=69.43  Aligned_cols=48  Identities=15%  Similarity=0.153  Sum_probs=39.6

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhc-CCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQ-FGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~-fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++++++|+++|++ ||.|.+|.+.++.  ...+||||
T Consensus         6 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~~G~v~~v~i~~~~--~g~~~g~a   54 (104)
T 2dhg_A            6 SGPEYSLFVGDLTPDVDDGMLYEFFVKVYPSCRGGKVVLDQ--TGVSKGYG   54 (104)
T ss_dssp             SSCCCCEEEECCCTTCCHHHHHHHHHHHCTTEEEEEEEECT--TCCEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHhCCCeEEEEEEECC--CCCccceE
Confidence            345688999999999999999999999 9999999998743  33455554

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

Probab=99.31  E-value=4.3e-12  Score=69.09  Aligned_cols=40  Identities=28%  Similarity=0.499  Sum_probs=36.2

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         7 ~~~~~~~~l~v~nLp~~~t~~~l~~~f~~~G~i~~v~i~~   46 (102)
T 1x5s_A            7 GMASDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVK   46 (102)
T ss_dssp             CCCCCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECC
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEEEEEe
Confidence            3445678999999999999999999999999999999887

>2dgx_A KIAA0430 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=3.3e-12  Score=69.41  Aligned_cols=40  Identities=10%  Similarity=0.139  Sum_probs=35.8

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHH----HHHhcCCceeEEEEeee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVK----NYFEQFGPVYYTACDRF   49 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~----~~F~~fG~V~~v~i~~~   49 (60)
                      +.....+|||+|||+++++++|+    ++|++||+|.+|.+.++
T Consensus         5 ~~~~~~~l~V~nL~~~~~~~~l~~~l~~~F~~~G~v~~v~i~~~   48 (96)
T 2dgx_A            5 SSGNGADVQVSNIDYRLSRKELQQLLQEAFARHGKVKSVELSPH   48 (96)
T ss_dssp             CCSSCEEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECSC
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHHhccccCcEEEEEEEeC
Confidence            34456789999999999999999    99999999999999873

>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=99.30  E-value=6.1e-12  Score=68.90  Aligned_cols=50  Identities=22%  Similarity=0.293  Sum_probs=39.3

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++|| |.+|.+.++......++|||
T Consensus        11 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~a   60 (104)
T 1wi8_A           11 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFG   60 (104)
T ss_dssp             CSSSCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCE
T ss_pred             CCCCCCEEEEeCCCCcCCHHHHHHHHHHCC-ceEEEEecCCCCCCCcCeEE
Confidence            445568899999999999999999999999 99999887332113456654

>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=99.30  E-value=4.1e-12  Score=68.74  Aligned_cols=46  Identities=15%  Similarity=0.233  Sum_probs=37.5

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||+|||+++++++|+++|++||.|.++.+.++ .....++|||
T Consensus         2 ~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   47 (96)
T 2x1f_A            2 SRVVYLGSIPYDQTEEQILDLCSNVGPVINLKMMFD-PQTGRSKGYA   47 (96)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBC-TTTCCBCSEE
T ss_pred             CcEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEeC-CCCCccceEE
Confidence            468999999999999999999999999999988873 2223445554

>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=99.30  E-value=1.6e-12  Score=69.88  Aligned_cols=45  Identities=20%  Similarity=0.203  Sum_probs=35.8

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCC--ceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFG--PVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG--~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+|||||||+++++++|+++|++||  .|.++.+.++ .....+||||
T Consensus         2 ~~l~V~nL~~~~t~~~l~~~F~~~G~~~v~~v~i~~~-~~~g~~kG~a   48 (90)
T 3p5t_L            2 IALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFEN-RANGQSKGFA   48 (90)
T ss_dssp             --CEEESCCTTCCHHHHHHHHHTTTCCCCCCEEEEEC-TTTCCEEEEE
T ss_pred             eEEEEeCCCCCCCHHHHHHHHHHhCCCceEEEEEEec-CCCCccCcEE
Confidence            3689999999999999999999999  9999988873 2233456654

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.30  E-value=1.6e-12  Score=70.89  Aligned_cols=38  Identities=26%  Similarity=0.397  Sum_probs=35.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         5 ~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~   42 (104)
T 1p1t_A            5 DRSLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVY   42 (104)
T ss_dssp             HHHHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEE
T ss_pred             CCCccEEEEeCCCCcCCHHHHHHHHHhcCCeeEEEEEe
Confidence            34568999999999999999999999999999999887

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

Probab=99.30  E-value=6.7e-12  Score=68.64  Aligned_cols=51  Identities=18%  Similarity=0.182  Sum_probs=39.5

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++|| |.+|.++++ .....++|||
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g-i~~v~i~~~-~~~g~~~g~a   59 (103)
T 2dng_A            9 ELPTEPPYTAYVGNLPFNTVQGDIDAIFKDLS-IRSVRLVRD-KDTDKFKGFC   59 (103)
T ss_dssp             CCCSSSCEEEEEESCCTTCCHHHHHHHTTTSC-EEEEEEEEC-SSSCSEEEEE
T ss_pred             CCCCCCCeEEEEeCCCCCCCHHHHHHHHHhCC-ceEEEEeec-CCCCccceEE
Confidence            34455678899999999999999999999997 999998873 2223345553

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

Probab=99.30  E-value=1.5e-12  Score=71.91  Aligned_cols=41  Identities=12%  Similarity=0.109  Sum_probs=37.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...-||||||+++++|++|+++|.+||+|.++.+..       +||||
T Consensus         6 ~~~wL~VgNL~~~~te~~L~~lF~q~G~V~~~~l~~-------~kGfa   46 (89)
T 2wbr_A            6 GSSWLLLKNLTAQIDGPTLRTLCMQHGPLVSFHPYL-------NQGIA   46 (89)
T ss_dssp             CCCEEEEECCCTTCCCHHHHHHHHHHSCEEEEEEET-------TTTEE
T ss_pred             ccceEEEeCCCccCCHHHHHHHHHhhCCEEEEEEcC-------CCcEE
Confidence            356799999999999999999999999999999887       67775

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

Probab=99.30  E-value=6.4e-12  Score=67.20  Aligned_cols=39  Identities=26%  Similarity=0.317  Sum_probs=35.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         4 ~~~~~~~l~V~nlp~~~t~~~l~~~f~~~G~v~~~~i~~   42 (92)
T 2dgv_A            4 GSSGACQIFVRNLPFDFTWKMLKDKFNECGHVLYADIKM   42 (92)
T ss_dssp             SSSSCCEEEECSCCTTCCHHHHHHHHHTTSCEEEEEEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEc
Confidence            345678999999999999999999999999999998886

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

Probab=99.30  E-value=1.3e-12  Score=71.73  Aligned_cols=47  Identities=19%  Similarity=0.195  Sum_probs=39.0

Q ss_pred             CcceEEEeCCCC------CCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSA------PTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~------~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+.|||+|||+      ++++++|+++|++||+|.+|.++++ .....+||||
T Consensus         5 ~~~~vfV~nLp~v~~~~~~~~~~~L~~~F~~~G~i~~v~i~~d-~~tg~~kG~a   57 (100)
T 3ns6_A            5 SDQYIVVNGAPVIPSAKVPVLKKALTSLFSKAGKVVNMEFPID-EATGKTKGFL   57 (100)
T ss_dssp             GGGEEEEESCCCCBGGGHHHHHHHHHHHHHTTSCEEEEECCEE-TTTTEECSEE
T ss_pred             cCcEEEEeCCCcCChHHHHHHHHHHHHHHHhcCCEeEEEEEEc-CCCCccceEE
Confidence            356899999999      9999999999999999999999873 3334566664

>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=99.29  E-value=3.1e-12  Score=67.76  Aligned_cols=36  Identities=17%  Similarity=0.388  Sum_probs=33.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++||.|.++.+..
T Consensus         3 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~   38 (88)
T 4a8x_A            3 KPTKVHIGRLTRNVTKDHIMEIFSTYGKIKMIDMPV   38 (88)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEe
Confidence            467899999999999999999999999999998876

>2dnl_A Cytoplasmic polyadenylation element binding protein 3; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.29  E-value=3.2e-12  Score=71.43  Aligned_cols=48  Identities=25%  Similarity=0.521  Sum_probs=37.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecC--CCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG--ISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g--~~~~k~fg   60 (60)
                      ...++|||||||+++++++|+++|++||+|. +.++.+...  ..++||||
T Consensus         6 ~~~~~lfVgnLp~~~te~~L~~~F~~~G~i~-~~~~~~~~~~~~g~~~G~a   55 (114)
T 2dnl_A            6 SGSRKVFVGGLPPDIDEDEITASFRRFGPLV-VDWPHKAESKSYFPPKGYA   55 (114)
T ss_dssp             SCCCCEEEECCCTTCCHHHHHHHTTTTCCCC-EECTTSSSSCCCSCTTSEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHhcCCEE-EEEeecCCCCCCCCcccEE
Confidence            4568899999999999999999999999998 656542211  13566664

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

Probab=99.29  E-value=5e-12  Score=72.19  Aligned_cols=49  Identities=12%  Similarity=0.249  Sum_probs=38.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.+|.+.++. ....+||||
T Consensus        39 ~~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~v~i~~~~-~~~~~~g~a   87 (139)
T 1u6f_A           39 PDVLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCDR-ETRQSRGYG   87 (139)
T ss_dssp             TTTTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEET-TTTEEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEEcC-CCCCcceEE
Confidence            3456789999999999999999999999999999988732 223345543

>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=99.29  E-value=5.7e-12  Score=70.86  Aligned_cols=47  Identities=26%  Similarity=0.390  Sum_probs=39.3

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||.|.+|.+..+.  ...++|||
T Consensus         5 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~a   51 (116)
T 2fy1_A            5 DHPGKLFIGGLNRETNEKMLKAVFGKHGPISEVLLIKDR--TSKSRGFA   51 (116)
T ss_dssp             CSCCEEEEECCTTTCCHHHHHHHHHTSSCCSEEEEECST--TTTCCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC--CCCcccEE
Confidence            456899999999999999999999999999999998844  33455554

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

Probab=99.28  E-value=5.5e-12  Score=69.59  Aligned_cols=47  Identities=15%  Similarity=0.136  Sum_probs=38.1

Q ss_pred             cCCcceEEEeCCCCCC------CHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPT------TLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~------~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||||||+.+      ++++|+++|++||+|.+|.+.+ ..|  .+||||
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~v~~v~i~~-~~g--~~~G~a   64 (105)
T 2nlw_A           12 DGIDSVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE-EDG--KTKGYI   64 (105)
T ss_dssp             CSCCSEEEEESCCCCCTTTTTHHHHHHHHHHGGGSCEEEEECCC-BTT--BSCCEE
T ss_pred             CCCCCEEEEeCCCcchhhhhHHHHHHHHHHHhcCCCEEEEEeeC-CCC--CeeeEE
Confidence            3346789999999999      7899999999999999998874 333  566664

>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=99.28  E-value=5.2e-12  Score=72.79  Aligned_cols=47  Identities=28%  Similarity=0.504  Sum_probs=38.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus         2 ~~~~l~v~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a   48 (167)
T 2cjk_A            2 ESCKMFIGGLNWDTTEDNLREYFGKYGTVTDLKIMKD-PATGRSRGFG   48 (167)
T ss_dssp             GGGEEEECSCCTTCCHHHHHHHHTTTCCEEEEECCCC-TTTSSCCSCE
T ss_pred             CCcEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEEC-CCCCCccceE
Confidence            3678999999999999999999999999999998873 2233456664

>2dis_A Unnamed protein product; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.28  E-value=3.3e-12  Score=70.30  Aligned_cols=49  Identities=12%  Similarity=0.184  Sum_probs=40.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCc-eeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGP-VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~-V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||. |.++.+.........+||||
T Consensus         6 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~~v~~v~i~~~~~~~g~~~g~a   55 (109)
T 2dis_A            6 SGNCRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFA   55 (109)
T ss_dssp             CCSEEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEE
T ss_pred             cCCCEEEEeCCCCcCCHHHHHHHHHHhcCCceEEEEEccCCCCCCcCcEE
Confidence            34678999999999999999999999999 99998873344444567765

>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=99.28  E-value=5.6e-12  Score=70.44  Aligned_cols=49  Identities=8%  Similarity=-0.132  Sum_probs=40.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCce-eEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV-YYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V-~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++||.| .+|.++++.  ...+||||
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v~~~v~i~~d~--~g~~~G~a   60 (114)
T 2cpy_A           11 VNSAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDN--NGQGLGQA   60 (114)
T ss_dssp             CCSCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCT--TSSCSSCE
T ss_pred             CCCCccEEEEeCcCCcCCHHHHHHHHHhCCCcCCeEEEEECC--CCCcceEE
Confidence            34456789999999999999999999999999 888888744  34566664

>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=99.28  E-value=7.2e-12  Score=69.48  Aligned_cols=48  Identities=17%  Similarity=0.291  Sum_probs=39.3

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++.  ...+||||
T Consensus        22 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~~--~g~~~g~a   69 (114)
T 1x5o_A           22 EQDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDS--SGTSRGVG   69 (114)
T ss_dssp             CCCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECS--SSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEECC--CCCcceEE
Confidence            3456789999999999999999999999999999998843  23445553

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

Probab=99.28  E-value=4.8e-12  Score=74.73  Aligned_cols=47  Identities=19%  Similarity=0.188  Sum_probs=37.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCC--ceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFG--PVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG--~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||||||+++++++|+++|++||  .|.+|.++++ .-...+||||
T Consensus        54 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~v~~v~i~~d-~~tg~skGfa  102 (156)
T 3n9u_C           54 RRAAVYVGSFSWWTTDQQLIQVIRSIGVYDVVELKFAEN-RANGQSKGYA  102 (156)
T ss_dssp             --CEEEEECCCTTCCHHHHHHHHHHTTCCCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHHCCccEEEEEEEec-CCCCccceEE
Confidence            356899999999999999999999999  9999998873 2233456664

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

Probab=99.28  E-value=4.2e-12  Score=68.40  Aligned_cols=48  Identities=21%  Similarity=0.293  Sum_probs=38.3

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE-EEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT-ACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v-~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||.|.++ .+.++ .....++|||
T Consensus         3 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~i~~~-~~~g~~~g~a   51 (96)
T 1x5t_A            3 SGSSGIFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMRD-PDTGNSKGYA   51 (96)
T ss_dssp             SCCCEEEEECCCTTCCHHHHHHHHHTTSCBSSCCEECCC-TTTCSCCSEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEEc-CCCCCcCeEE
Confidence            356899999999999999999999999999988 88873 2223345553

>1x4g_A Nucleolysin TIAR; structural genomics, RRM domain, TIA-1 related protein, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.28  E-value=4.4e-12  Score=70.08  Aligned_cols=38  Identities=16%  Similarity=0.321  Sum_probs=35.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+|||+++++++|+++|++||.|.+|.+.+
T Consensus        22 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~   59 (109)
T 1x4g_A           22 SPKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFP   59 (109)
T ss_dssp             CSSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEET
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeC
Confidence            34567899999999999999999999999999999987

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

Probab=99.28  E-value=8.8e-12  Score=69.02  Aligned_cols=49  Identities=16%  Similarity=0.116  Sum_probs=39.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||+|||+++++++|+++|++||+|.+|.+.++..  ..++|||
T Consensus        11 ~~~~~~~l~V~nlp~~~~~~~l~~~f~~~G~i~~~~i~~~~~--g~~~g~a   59 (114)
T 2do0_A           11 AGRLGSTVFVANLDYKVGWKKLKEVFSMAGVVVRADILEDKD--GKSRGIG   59 (114)
T ss_dssp             CCCCCSCEEEESCCTTCCHHHHHHHHTTTSCEEEEEEEECTT--CSEEEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCC--CCeeeEE
Confidence            344568899999999999999999999999999999887432  2345543

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

Probab=99.27  E-value=2.7e-12  Score=72.55  Aligned_cols=40  Identities=13%  Similarity=0.272  Sum_probs=34.0

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCC-ceeEEEEe
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFG-PVYYTACD   47 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG-~V~~v~i~   47 (60)
                      ++......+|||+|||+++++++|+++|++|| +|..+.+.
T Consensus        22 ~~~p~~~~~l~VgnLp~~~te~dL~~~F~~~G~~v~~v~i~   62 (111)
T 2jvr_A           22 SKLPAKRYRITMKNLPEGCSWQDLKDLARENSLETTFSSVN   62 (111)
T ss_dssp             ---CCCCEEEEEECSSCCCCHHHHHHHHHHHTCCCSEEECS
T ss_pred             CCCCCCCCEEEEECCCCCCCHHHHHHHHHHhCCeeEEEEEE
Confidence            44555678999999999999999999999999 99998885

>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=99.27  E-value=1e-11  Score=69.87  Aligned_cols=50  Identities=18%  Similarity=0.255  Sum_probs=39.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++||.|.+|.+..+. ....++|||
T Consensus        18 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~-~~~~~~g~a   67 (126)
T 3ex7_B           18 RSVEGWILFVTGVHEEATEEDIHDKFAEYGEIKNIHLNLDR-RTGYLKGYT   67 (126)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCBCT-TTSSBCSCE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEecC-CCCccceEE
Confidence            33456789999999999999999999999999999888732 122345553

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

Probab=99.27  E-value=4.9e-12  Score=66.71  Aligned_cols=43  Identities=14%  Similarity=0.150  Sum_probs=35.6

Q ss_pred             ceEEEeCCCCCC------CHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPT------TLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~------~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||+|||+.+      ++++|+++|++||+|.++.+.+ ..  ..+||||
T Consensus         2 ~~l~V~nLp~~~~~~~~~t~~~l~~~F~~~G~i~~v~i~~-~~--g~~~g~a   50 (81)
T 2krb_A            2 SVIVVDNVPQVGPDRLEKLKNVIHKIFSKFGKITNDFYPE-ED--GKTKGYI   50 (81)
T ss_dssp             CEEEEESCCCCCTTTHHHHHHHHHHHHHTTCCEEEEECCC-BT--TBCCCEE
T ss_pred             CEEEEeCCCCCcHHHHHHHHHHHHHHHhhcCCeEEEEecC-CC--CcEeEEE
Confidence            679999999999      7799999999999999998774 22  2456664

>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=99.27  E-value=8.3e-12  Score=72.45  Aligned_cols=48  Identities=19%  Similarity=0.207  Sum_probs=39.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus        68 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~v~~~~i~~~-~~~g~~~g~a  115 (158)
T 2kn4_A           68 EGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRD-RYTKESRGFA  115 (158)
T ss_dssp             CBCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEECCCC-SSCTTSCCEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeec-CCCCccceEE
Confidence            44678999999999999999999999999999988873 2233456654

>2ku7_A MLL1 PHD3-CYP33 RRM chimeric protein; transcriptional regulation, RRM domain, transcr; NMR {Homo sapiens}

Probab=99.27  E-value=1.2e-11  Score=70.16  Aligned_cols=49  Identities=18%  Similarity=0.306  Sum_probs=39.4

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus        60 ~~~~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~-~~~~~~~g~a  108 (140)
T 2ku7_A           60 ATTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD-YETEKHRGFA  108 (140)
T ss_dssp             CSSCCEEEEECCCTTCCHHHHHHHHGGGSCEEEEECCCC-TTTCCCCSEE
T ss_pred             CCCCcEEEEEeCCCCCCHHHHHHHHHhcCCEEEEEEeec-CCCCCcCcEE
Confidence            345778999999999999999999999999999988773 2223455554

>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=99.27  E-value=8.3e-12  Score=68.46  Aligned_cols=48  Identities=19%  Similarity=0.206  Sum_probs=39.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+.+++++|+++|++||+|.+|.+..+.  ...++|||
T Consensus        26 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~--~g~~~g~a   73 (107)
T 3ulh_A           26 VETGGKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDR--SGRSLGTA   73 (107)
T ss_dssp             CCCSEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEECT--TSCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--CCCcceEE
Confidence            3456789999999999999999999999999999988743  22345543

>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=99.27  E-value=8.2e-12  Score=69.09  Aligned_cols=40  Identities=23%  Similarity=0.377  Sum_probs=36.0

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ......+|||+|||+++++++|+++|++||+|.++.+.++
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~i~~~   50 (108)
T 1x4c_A           11 SRRSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD   50 (108)
T ss_dssp             CCSCCCEEEEESCCSSCCHHHHHHHHGGGSCEEEEEEETT
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEeEEEEecC
Confidence            3455789999999999999999999999999999988874

>2lea_A Serine/arginine-rich splicing factor 2; SR protein, RNA binding protein; NMR {Homo sapiens} PDB: 2leb_A 2lec_A

Probab=99.26  E-value=8.4e-12  Score=71.89  Aligned_cols=52  Identities=19%  Similarity=0.200  Sum_probs=41.0

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +......++|||+|||+++++++|+++|++||+|.+|.+.++. -...+||||
T Consensus        41 ~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~-~~g~~~G~a   92 (135)
T 2lea_A           41 PPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDR-YTKESRGFA   92 (135)
T ss_dssp             CSSGGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCS-SSSSCCSCC
T ss_pred             CCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecC-CCCccceEE
Confidence            3444556789999999999999999999999999999888732 223456664

>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=99.26  E-value=9.5e-12  Score=71.29  Aligned_cols=49  Identities=22%  Similarity=0.193  Sum_probs=39.2

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+++|++||+|.+|.+.++ ......||||
T Consensus        43 ~~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d-~~tg~~~G~a   91 (129)
T 2kxn_B           43 PDPNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD-QQSRRSRGFA   91 (129)
T ss_dssp             CCCSSCBCEETCTTSCCHHHHHHHHTTTSCEEEEEEECC-SSSSCCCCEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEec-CCCCccceEE
Confidence            345678999999999999999999999999999998863 2223455554

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=99.26  E-value=5.6e-12  Score=74.10  Aligned_cols=45  Identities=16%  Similarity=0.066  Sum_probs=40.7

Q ss_pred             ceEEEeCC----CCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGL----SAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L----~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+||||||    ||.+++++|+++|++||+|.++.+.. ++-+.+++|||
T Consensus         3 ~kI~VgnL~~~~~~~tte~~Lk~~Fs~fGeV~~~~li~-Dp~Tg~slGfg   51 (136)
T 2j8a_A            3 CEIVVYPAQDSTTTNIQDISIKNYFKKYGEISHFEAFN-DPNSALPLHVY   51 (136)
T ss_dssp             CEEEEEESSSSCCCCCCHHHHHHHHHTTSCCSEEEEEE-CTTTCCEEEEE
T ss_pred             cEEEEeCCCCCCCCCCCHHHHHHHHHhcCCeEEEEEEe-cCCCCceeeEE
Confidence            68999999    99999999999999999999999888 66677778775

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

Probab=99.26  E-value=6.2e-12  Score=70.89  Aligned_cols=48  Identities=15%  Similarity=0.007  Sum_probs=39.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCc---eeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGP---VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~---V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++++++|+++|++||.   |.+|.+.++..  .++||||
T Consensus        14 ~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~~~v~~v~i~~~~~--g~~~G~a   64 (118)
T 2db1_A           14 GGEGYVVKLRGLPWSCSIEDVQNFLSDCTIHDGVAGVHFIYTRE--GRQSGEA   64 (118)
T ss_dssp             BCCCCEEEEESCCTTCCHHHHHHHTTTSCBTTGGGGEEEEECSS--SCEEEEE
T ss_pred             CCCCcEEEEeCCCCCCCHHHHHHHHHHcCCccCceeEEEEECCC--CCCCeEE
Confidence            445678999999999999999999999999   88898887443  4556664

>2hgl_A HNRPF protein, heterogeneous nuclear ribonucleoprotein F; RNA recognition motif, G-tract, G-quadruplex, alternative, splicing, RNA binding protein; NMR {Homo sapiens} PDB: 2kfy_A

Probab=99.26  E-value=4.5e-12  Score=73.76  Aligned_cols=48  Identities=13%  Similarity=-0.031  Sum_probs=40.1

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCc---eeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGP---VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~---V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++|+++|+++|++||.   |.+|.+.++..  .++||||
T Consensus        41 ~~~~~~lfVgnLp~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~--g~srG~a   91 (136)
T 2hgl_A           41 GGEGFVVKLRGLPWSCSVEDVQNFLSDCTIHDGAAGVHFIYTRE--GRQSGEA   91 (136)
T ss_dssp             CCTTCEEEEESCCTTCCHHHHHHHTTTCCCSSSSTTEEEEECSS--SCEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHhCCcCceeEEEEEECCC--CCCCeEE
Confidence            345678999999999999999999999999   88898887443  4567765

>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=99.26  E-value=5.9e-12  Score=72.87  Aligned_cols=40  Identities=20%  Similarity=0.329  Sum_probs=36.0

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      .....++|||||||+++++++|+++|++||+|.+|.+.++
T Consensus        69 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~  108 (150)
T 2i2y_A           69 SCPLDCKVYVGNLGNNGNKTELERAFGYYGPLRSVWVARN  108 (150)
T ss_dssp             SSTTSCEEEEESCCSCCSCHHHHHHHHHHSCEEEEEECSS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhhCCEEEEEEeeC
Confidence            3445688999999999999999999999999999999884

>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=99.26  E-value=1.7e-11  Score=67.62  Aligned_cols=39  Identities=18%  Similarity=0.378  Sum_probs=34.9

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||.|.++.+..
T Consensus        18 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~   56 (109)
T 1x4a_A           18 AGNNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKN   56 (109)
T ss_dssp             CCCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECC
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEE
Confidence            344567899999999999999999999999999998865

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

Probab=99.26  E-value=1.2e-11  Score=66.21  Aligned_cols=38  Identities=26%  Similarity=0.502  Sum_probs=34.6

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         5 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~~~~   42 (90)
T 2dnq_A            5 SSGMVKLFIGNLPREATEQEIRSLFEQYGKVLECDIIK   42 (90)
T ss_dssp             SSCCEEEEEESCCSSCCHHHHHHHHHTSSCEEEEEEET
T ss_pred             CCCCeEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEC
Confidence            45678999999999999999999999999999988774

>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=99.26  E-value=2.3e-12  Score=70.49  Aligned_cols=50  Identities=22%  Similarity=0.293  Sum_probs=37.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||+|||+++++++|+++|++|| |.+|.+.++......+||||
T Consensus        15 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G-i~~v~i~~~~~~~g~~~g~a   64 (100)
T 2j76_E           15 PKSPPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFG   64 (100)
T ss_dssp             -----CEEEESCCSSCCSSSHHHHHSCSSC-EEEEECSCCTTTTCCCCSCE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEecCCcCCccCeEE
Confidence            345678899999999999999999999999 99999887432234556664

>2lmi_A GRSF-1, G-rich sequence factor 1; G-rich RNA sequence binding factor, RNA binding domain, STRU genomics, joint center for structural genomics, JCSG; NMR {Homo sapiens}

Probab=99.25  E-value=3.2e-12  Score=70.77  Aligned_cols=50  Identities=20%  Similarity=0.024  Sum_probs=41.2

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCc---eeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP---VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~---V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .......+|||+|||+++++++|+++|++||.   |.+|.+.++..  .++||||
T Consensus         6 ~~~~~~~~l~V~nLp~~~te~~l~~~F~~~g~~~~v~~v~i~~~~~--g~~~G~a   58 (107)
T 2lmi_A            6 EEVDDVFLIRAQGLPWSCTMEDVLNFFSDCRIRNGENGIHFLLNRD--GKRRGDA   58 (107)
T ss_dssp             CCCSSCCEEEEECCCSSCCSHHHHHHTTTSCBTTTTTTEECCCCTT--STTCSEE
T ss_pred             CCCCCccEEEEeCCCCCCCHHHHHHHHHhcCCcCCcceEEEEECCC--CCEeeEE
Confidence            34456788999999999999999999999998   88899887443  4566664

>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=99.25  E-value=9.6e-12  Score=71.84  Aligned_cols=48  Identities=27%  Similarity=0.338  Sum_probs=38.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecC-CCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG-ISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g-~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.++.+.++..+ ...+||||
T Consensus         2 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~a   50 (175)
T 3nmr_A            2 DAIKMFVGQVPRTWSEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCC   50 (175)
T ss_dssp             CCEEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEE
T ss_pred             CceEEEEeCCCCCCCHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEE
Confidence            4578999999999999999999999999999998874322 11355554

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

Probab=99.25  E-value=8.5e-12  Score=70.05  Aligned_cols=47  Identities=15%  Similarity=0.197  Sum_probs=37.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.+|.+.++ .....++|||
T Consensus        35 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   81 (124)
T 2jwn_A           35 DKRSVYVGNVDYGSTAQDLEAHFSSCGSINRITILCD-KFSGHPKGYA   81 (124)
T ss_dssp             HHTEEEEEEECTTCCHHHHHHHHHTTSCEEEEEEEEE-CTTSSCEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEec-CCCCCcccEE
Confidence            3578999999999999999999999999999998873 2223345553

>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=99.24  E-value=1.6e-12  Score=69.45  Aligned_cols=45  Identities=36%  Similarity=0.486  Sum_probs=37.1

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||+|||+++++++|+++|++||+|.++.+.++ .....++|||
T Consensus         2 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   46 (90)
T 2ki2_A            2 RNIYVGNLVYSATSEQVKELFSQFGKVFNVKLIYD-RETKKPKGFG   46 (90)
T ss_dssp             EEEEEEEECTTSSHHHHTTTHHHHTCCSEEEECCC-SSSCCCCEEE
T ss_pred             cEEEECCCCCCCCHHHHHHHHHhcCCEEEEEEEEc-CCCCCcceEE
Confidence            58999999999999999999999999999998873 2223455554

>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=99.24  E-value=1.4e-11  Score=71.61  Aligned_cols=37  Identities=24%  Similarity=0.322  Sum_probs=34.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+.+++++|+++|++||+|.+|.|.+
T Consensus        37 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~v~i~~   73 (156)
T 1h2v_Z           37 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGL   73 (156)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEe
Confidence            4567899999999999999999999999999999877

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

Probab=99.24  E-value=2.6e-11  Score=68.22  Aligned_cols=47  Identities=19%  Similarity=0.222  Sum_probs=39.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||+|.+|.+.++.  ...++|||
T Consensus        33 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~~~--~g~~~g~a   79 (124)
T 2kt5_A           33 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR--SGRSLGTA   79 (124)
T ss_dssp             SSCEEEEEESCCSSCCHHHHHHHHHTTSCCSEEEEECCS--SSSCCSEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEECC--CCCEeeEE
Confidence            455789999999999999999999999999999998744  33455554

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

Probab=99.23  E-value=7.3e-12  Score=70.43  Aligned_cols=46  Identities=15%  Similarity=0.145  Sum_probs=38.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||++++++||+++|++| .|.+|.|+++..  .++||||
T Consensus        14 ~~~~~v~V~nLp~~~te~dl~~~F~~~-~v~~v~i~~d~~--g~~~G~a   59 (109)
T 2dnn_A           14 PDDLYVSVHGMPFSAMENDVRDFFHGL-RVDAVHLLKDHV--GRNNGNG   59 (109)
T ss_dssp             HHHHEEEEECCCSSCCHHHHHHHTTTS-CCCEEEECCCTT--CCCCSEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhccC-CeeEEEEEECCC--CCCCeEE
Confidence            345689999999999999999999999 899999987543  4567775

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

Probab=99.23  E-value=1.4e-11  Score=68.22  Aligned_cols=50  Identities=24%  Similarity=0.262  Sum_probs=39.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCcee--------EEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY--------YTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~--------~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||+|||+++++++|+++|++||.|.        .|.+.++ .....+||||
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~~-~~~g~~~g~a   68 (113)
T 2cpe_A           11 EDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKMNKRTGQPMIHIYLD-KETGKPKGDA   68 (113)
T ss_dssp             CCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCBCSSSCCBSEECCBC-TTTCSBCSEE
T ss_pred             cCCCCCEEEEcCCCCCCCHHHHHHHHHhcCCEeEccccCccCEEEEEe-CCCCCeeeEE
Confidence            445678999999999999999999999999998        5887773 2223445553

>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=99.23  E-value=8.4e-12  Score=72.91  Aligned_cols=47  Identities=17%  Similarity=0.118  Sum_probs=38.3

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++++++|+++|++|| |.+|.|+++..  .++||||
T Consensus        43 ~~~~~~lfV~nLp~~~te~dL~~~F~~~G-i~~v~i~~d~~--g~srGfa   89 (139)
T 2hgn_A           43 STTGHCVHMRGLPYKATENDIYNFFSPLN-PVRVHIEIGPD--GRVTGEA   89 (139)
T ss_dssp             --CCCCEECCSCCTTCCHHHHHHHHCSCC-CSEEECCCSSS--SCSSCCC
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcC-CeEEEEEECCC--CCCceEE
Confidence            34567899999999999999999999999 66898887543  4677775

>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=99.23  E-value=1.1e-11  Score=65.59  Aligned_cols=37  Identities=22%  Similarity=0.497  Sum_probs=34.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcC----C-------ceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQF----G-------PVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~f----G-------~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++|    |       +|.++.+.+
T Consensus         4 ~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~~g~~~~~~~~v~~~~~~~   51 (87)
T 2hzc_A            4 GSARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ   51 (87)
T ss_dssp             GGGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEECS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhhhcccccCCCCcceEEEecC
Confidence            356889999999999999999999999    8       999999887

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

Probab=99.22  E-value=8.5e-12  Score=67.92  Aligned_cols=35  Identities=23%  Similarity=0.417  Sum_probs=32.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ++|||+|||+++++++|+++|++||+|.++.+.++
T Consensus         1 ~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~   35 (101)
T 2hvz_A            1 MKVYVGNLGTGAGKGELERAFSYYGPLRTVWIARN   35 (101)
T ss_dssp             CEEEEECCCSSCSHHHHHHHHHHHCCCSEEEEESS
T ss_pred             CEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeeC
Confidence            47999999999999999999999999999998873

>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C

Probab=99.22  E-value=1.5e-11  Score=76.30  Aligned_cols=47  Identities=19%  Similarity=0.212  Sum_probs=37.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCC--ceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFG--PVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG--~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+||++++++++|+++|++||  +|.+|.|+++ .-...+||||
T Consensus        67 ~~~~lfVgnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d-~~tg~skGfa  115 (229)
T 3q2s_C           67 KRIALYIGNLTWWTTDEDLTEAVHSLGVNDILEIKFFEN-RANGQSKGFA  115 (229)
T ss_dssp             --CEEEEESCCTTCCHHHHHHHHHTTTCCCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHHCCcceEEEEEEec-CCCCccceEE
Confidence            456899999999999999999999999  9999999873 2233455654

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

Probab=99.22  E-value=2.7e-11  Score=65.04  Aligned_cols=40  Identities=25%  Similarity=0.445  Sum_probs=36.1

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         5 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~v~~~~   44 (92)
T 2dgt_A            5 SSGKASTKLHVGNISPTCTNQELRAKFEEYGPVIECDIVK   44 (92)
T ss_dssp             CCCCSSEEEEEESCCSSCCHHHHHHHHHTTSCCCEEEECS
T ss_pred             CCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEC
Confidence            3455678999999999999999999999999999998886

>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=99.22  E-value=2.3e-11  Score=67.22  Aligned_cols=37  Identities=22%  Similarity=0.506  Sum_probs=32.9

Q ss_pred             CCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||++ +++++|+++|++||+|.+|.+.+
T Consensus        25 ~~~~~l~V~nl~~~~~t~~~l~~~F~~~G~v~~v~i~~   62 (110)
T 1wf1_A           25 SINSRVFIGNLNTALVKKSDVETIFSKYGRVAGCSVHK   62 (110)
T ss_dssp             TCSSEEEECSCCCSSCCHHHHHHHHGGGSCCSEEEEET
T ss_pred             CCCcEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEeC
Confidence            34579999999999 99999999999999999988743

>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=99.21  E-value=4.6e-12  Score=68.12  Aligned_cols=38  Identities=11%  Similarity=0.280  Sum_probs=32.2

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+++|++||.|.++.++.
T Consensus        12 ~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~~~~   49 (95)
T 2ek1_A           12 KPGPTVIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLK   49 (95)
T ss_dssp             ---CEEEEEECCCTTCCHHHHHHHTTTSCBCTTCCEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEE
Confidence            34468899999999999999999999999998776665

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} SCOP: d.58.7.1 PDB: 2f9d_A 2f9j_A 2fho_B

Probab=99.21  E-value=2.9e-11  Score=67.08  Aligned_cols=37  Identities=16%  Similarity=0.405  Sum_probs=34.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         6 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~v~i~~   42 (115)
T 3lqv_A            6 EVNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN   42 (115)
T ss_dssp             TCCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEee
Confidence            4467899999999999999999999999999998876

>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=99.21  E-value=2e-11  Score=70.41  Aligned_cols=47  Identities=11%  Similarity=0.053  Sum_probs=38.4

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCcee--EEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY--YTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~--~v~i~~~~~g~~~~k~fg   60 (60)
                      .....+|||+|||+++++++|+++|++| .|.  +|.|+++..  .++||||
T Consensus        39 ~~~~~~lfVgnLp~~~te~dL~~~F~~~-~i~~~~v~i~~d~~--GrsrGfa   87 (126)
T 2hgm_A           39 SANDGFVRLRGLPFGCTKEEIVQFFSGL-EIVPNGITLPVDPE--GKITGEA   87 (126)
T ss_dssp             SSSCCEEEEECCCTTCCHHHHHHHTTTS-CEEEEEEECCCCSS--SSSCSEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcC-CceeeEEEEEECCC--CCCceEE
Confidence            3456789999999999999999999999 566  788887544  4667775

>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=99.21  E-value=8.1e-12  Score=67.57  Aligned_cols=39  Identities=10%  Similarity=0.240  Sum_probs=33.6

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus        11 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~G~v~~~~~~~   49 (98)
T 2cqp_A           11 GKPGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGSVCLK   49 (98)
T ss_dssp             CCCSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTTCEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccceEEEE
Confidence            344567899999999999999999999999998766665

>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=99.21  E-value=1.2e-11  Score=68.28  Aligned_cols=48  Identities=19%  Similarity=0.196  Sum_probs=38.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++||.| +|.++++.  ..++||||
T Consensus        11 ~~~~~~~l~V~nLp~~~te~~l~~~F~~~G~~-~v~i~~d~--~g~~~G~a   58 (102)
T 1wez_A           11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGP--DGRVTGEA   58 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESS--SSCEEEEE
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHHcCce-EEEEEECC--CCCEeeEE
Confidence            33456789999999999999999999999955 88888743  34566664

>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=99.21  E-value=2.2e-11  Score=71.67  Aligned_cols=37  Identities=11%  Similarity=0.251  Sum_probs=33.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+|||+.+++++|+++|++||+|.+|.+.+
T Consensus        70 ~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~~  106 (165)
T 1rk8_A           70 VEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNL  106 (165)
T ss_dssp             C-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHhhcCCCEEEEEEEe
Confidence            3456799999999999999999999999999999887

>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=99.20  E-value=1.2e-11  Score=66.39  Aligned_cols=38  Identities=18%  Similarity=0.254  Sum_probs=32.0

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCc-eeEEEEe
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP-VYYTACD   47 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~-V~~v~i~   47 (60)
                      .....++|||+|||+++++++|+++|++||. |..+.+.
T Consensus         4 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~vv~~~~~~   42 (93)
T 2cqh_A            4 GSSGMNKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL   42 (93)
T ss_dssp             CCCCCCCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEEc
Confidence            3456789999999999999999999999999 6555543

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

Probab=99.20  E-value=2.3e-11  Score=67.69  Aligned_cols=40  Identities=15%  Similarity=0.259  Sum_probs=34.5

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus        26 ~~~~~~~~l~V~nLp~~~t~~~L~~~F~~~G~i~~v~i~k   65 (108)
T 2jvo_A           26 EGELSNTRLFVRPFPLDVQESELNEIFGPFGPMKEVKILN   65 (108)
T ss_dssp             --CCSCSEEEECSSCTTCCHHHHHHHHTTTSCCCEEEEET
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEEC
Confidence            3445678899999999999999999999999999988773

>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=99.20  E-value=1.8e-11  Score=66.00  Aligned_cols=38  Identities=18%  Similarity=0.440  Sum_probs=33.7

Q ss_pred             cCCcceEEEeCCCCCCCHHHHH----HHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVK----NYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~----~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+    ++|++||.|.++.+.+
T Consensus         5 ~~~~~~l~V~nLp~~~~~~~l~~~l~~~f~~~G~i~~v~i~~   46 (97)
T 1nu4_A            5 TRPNHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR   46 (97)
T ss_dssp             -CCCSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHHhCCCEEEEEEEc
Confidence            3457899999999999999999    9999999999988773

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=99.20  E-value=1.6e-11  Score=70.44  Aligned_cols=47  Identities=17%  Similarity=0.133  Sum_probs=38.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCce----eEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPV----YYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V----~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||++++++||+++|++||.|    .+|.+.++.  ..++||||
T Consensus        21 ~~~~~v~V~nLp~~~te~dl~~~F~~~g~v~g~v~~v~i~~d~--~gr~~G~a   71 (123)
T 2dha_A           21 ENQVIVRMRGLPFTATAEEVVAFFGQHCPITGGKEGILFVTYP--DGRPTGDA   71 (123)
T ss_dssp             CSCCEEEECSCCTTCCHHHHHHHHHTTSCCTTGGGGEEEEECT--TSCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhCCccCCcceEEEEECC--CCCEeeEE
Confidence            456789999999999999999999999986    678888753  33566664

>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=99.19  E-value=1.5e-11  Score=68.41  Aligned_cols=38  Identities=29%  Similarity=0.475  Sum_probs=34.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHH---HHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVK---NYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~---~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+|||+++++++|+   ++|++||+|.++.+.+
T Consensus        12 ~~~~~~l~V~nLp~~~~~~~l~~~~~~F~~~G~i~~v~i~~   52 (111)
T 2cpi_A           12 VVQKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINN   52 (111)
T ss_dssp             CCCSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEEC
T ss_pred             ccCCCEEEEECCCCCCCHHHHHHHHHHhhccCCEEEEEEec
Confidence            3456789999999999999999   9999999999999887

>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=99.18  E-value=2.5e-11  Score=66.43  Aligned_cols=38  Identities=26%  Similarity=0.358  Sum_probs=34.5

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+|||+++++++|+++|++||.|.+|.+.+
T Consensus         8 ~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~i~~v~~~~   45 (103)
T 2dgu_A            8 MAKVKVLFVRNLANTVTEEILEKAFSQFGKLERVKKLK   45 (103)
T ss_dssp             CCCCCCEEEECCCTTCCHHHHHHHHHHHSCEEEEEECS
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEC
Confidence            34568899999999999999999999999999988876

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

Probab=99.18  E-value=3.7e-11  Score=64.28  Aligned_cols=39  Identities=33%  Similarity=0.432  Sum_probs=35.4

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         5 ~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~~~   43 (90)
T 2dnp_A            5 SSGNTWKIFVGNVSAACTSQELRSLFERRGRVIECDVVK   43 (90)
T ss_dssp             SSCCSCCEEEESCCTTCCHHHHHHHHHHHSCEEEEEECS
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHcCCCEEEEEEEC
Confidence            345678899999999999999999999999999998886

>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=99.18  E-value=4.3e-11  Score=68.51  Aligned_cols=35  Identities=20%  Similarity=0.283  Sum_probs=33.3

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         2 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~~~~   36 (167)
T 1fxl_A            2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVR   36 (167)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEE
T ss_pred             cceEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEe
Confidence            57899999999999999999999999999999887

>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=99.17  E-value=1.3e-11  Score=69.74  Aligned_cols=48  Identities=13%  Similarity=0.135  Sum_probs=35.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||+++++++|+++|++||.|.++.++.+. -...+||||
T Consensus        23 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~v~~~~~~~~~-~~g~~~G~a   70 (124)
T 1wel_A           23 EAGFCVYLKGLPFEAENKHVIDFFKKLDIVEDSIYIAYG-PNGKATGEG   70 (124)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHSCSSCBCTTTCEEEEC-TTSSEEEEE
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCccceEEEEEC-CCCCCCeEE
Confidence            355789999999999999999999999999874333311 123445554

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

Probab=99.17  E-value=4.7e-11  Score=68.69  Aligned_cols=45  Identities=7%  Similarity=0.103  Sum_probs=36.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHH----HHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVK----NYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~----~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +..++|||||||+.+++++|+    ++|++||+|.+|.+.+    ..++||||
T Consensus        27 ~p~~~LfV~nL~~~~~e~~L~~~L~~~F~~~G~I~~v~i~~----~~~~rG~a   75 (127)
T 2a3j_A           27 EPSQVVLITNINPEVPKEKLQALLYALASSQGDILDIVVDL----SDDNSGKA   75 (127)
T ss_dssp             SCCSEEEEESCCTTSCHHHHHHHHHHHHHHHSCEEEEEECC----CCSSCCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHhccCCCeEEEEecc----CCCcCCEE
Confidence            346789999999999999876    6999999998887754    12456665

>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=99.17  E-value=3.7e-11  Score=69.08  Aligned_cols=36  Identities=19%  Similarity=0.243  Sum_probs=33.6

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      .++|||+|||+++++++|+++|++||+|.++.+.++
T Consensus         3 ~~~l~v~nlp~~~~~~~l~~~f~~~G~i~~v~i~~~   38 (168)
T 1b7f_A            3 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRD   38 (168)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEE
T ss_pred             ccEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEEe
Confidence            578999999999999999999999999999988873

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

Probab=99.17  E-value=6.8e-11  Score=63.22  Aligned_cols=48  Identities=10%  Similarity=0.034  Sum_probs=38.8

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++| .|.+|.++++..  ..++|||
T Consensus         6 ~~~~~~~l~v~nLp~~~t~~~l~~~F~~~-~i~~v~i~~~~~--g~~~g~a   53 (91)
T 2dgw_A            6 SGTTCHTVKLRGAPFNVTEKNVMEFLAPL-KPVAIRIVRNAH--GNKTGYI   53 (91)
T ss_dssp             CCCCCCEEEEECCCSSCCHHHHHHHHTTS-CCSEEEEEECTT--SCEEEEE
T ss_pred             CCCCccEEEEECCCCCCCHHHHHHHHhhC-CceEEEEEECCC--CCCceEE
Confidence            34567889999999999999999999999 999999988532  2345553

>2e5g_A U6 snRNA-specific terminal uridylyltransferase 1; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=99.17  E-value=9.4e-11  Score=63.17  Aligned_cols=35  Identities=26%  Similarity=0.497  Sum_probs=31.8

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      .....++|||+|||+++++++|+++|++||+|.+|
T Consensus         4 ~~~~~~~l~V~nl~~~~t~~~l~~~F~~~G~v~~v   38 (94)
T 2e5g_A            4 GSSGLRSVFVSGFPRGVDSAQLSEYFLAFGPVASV   38 (94)
T ss_dssp             CCTTCCEEEEECCCTTCCHHHHHHHGGGTSCEEEE
T ss_pred             ccCCCCEEEEECCCCCCCHHHHHHHHHhcCCeEEE
Confidence            34567899999999999999999999999999887

>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=99.16  E-value=1.7e-11  Score=68.72  Aligned_cols=38  Identities=24%  Similarity=0.427  Sum_probs=33.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....+|||+|||+++++++|+++|++||+|.+|.+..+
T Consensus        14 r~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~   51 (115)
T 3beg_B           14 RSENRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRD   51 (115)
T ss_dssp             ---CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTT
T ss_pred             CCCcEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEecC
Confidence            35678999999999999999999999999999988874

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

Probab=99.16  E-value=3e-11  Score=65.49  Aligned_cols=38  Identities=18%  Similarity=0.447  Sum_probs=33.3

Q ss_pred             cCCcceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+ ++++++|+++|++||+|.++.+.+
T Consensus         7 ~~~~~~l~V~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~   45 (96)
T 2kvi_A            7 IPPKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKN   45 (96)
T ss_dssp             --CCEEEEEESSTTSCCCHHHHHHHHTTTCCCCEEEEET
T ss_pred             CCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeC
Confidence            34578999999999 999999999999999999988764

>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=99.15  E-value=3.4e-11  Score=64.34  Aligned_cols=35  Identities=20%  Similarity=0.434  Sum_probs=32.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++| +|.++.+.+
T Consensus         4 ~~~~l~V~nLp~~~t~~~l~~~F~~~-~v~~~~i~~   38 (88)
T 1wg1_A            4 GSSGILVKNLPQDSNCQEVHDLLKDY-DLKYCYVDR   38 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSS-CCCCEEEEG
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhC-CeEEEEEeC
Confidence            46789999999999999999999999 999988865

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

Probab=99.15  E-value=9.4e-11  Score=63.50  Aligned_cols=37  Identities=19%  Similarity=0.353  Sum_probs=31.5

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..++|||+|||+++++++|+++|++||.|. +.+..
T Consensus        16 ~~~~~~l~V~nL~~~~t~~~l~~~F~~~G~v~-~~~~~   52 (97)
T 2e5j_A           16 APLAADVYVGNLPRDARVSDLKRALRELGSVP-LRLTW   52 (97)
T ss_dssp             SCCCCEEEEECCCTTCCHHHHHHHHHHTTCCC-SEEEE
T ss_pred             CCCCCEEEEeCCCCcCcHHHHHHHHHhcCCEE-EEEEc
Confidence            34567999999999999999999999999996 44443

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

Probab=99.14  E-value=1.3e-10  Score=63.02  Aligned_cols=40  Identities=23%  Similarity=0.286  Sum_probs=34.6

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcC--CceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQF--GPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~f--G~V~~v~i~~   48 (60)
                      ......++|||+|||+++++++|+++|++|  |.|.++.+.+
T Consensus        10 ~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~g~v~~~~~~~   51 (99)
T 2cpd_A           10 DTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKKIR   51 (99)
T ss_dssp             SCSSCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEECS
T ss_pred             cccCCcCEEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEeC
Confidence            344567899999999999999999999999  9998877665

>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=99.13  E-value=5.3e-11  Score=73.97  Aligned_cols=42  Identities=36%  Similarity=0.583  Sum_probs=37.5

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++|+++|+++|++||.|.+|.+.+       +||||
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~-------~kg~a   61 (261)
T 3sde_A           20 TQRCRLFVGNLPTDITEEDFKRLFERYGEPSEVFINR-------DRGFG   61 (261)
T ss_dssp             CGGGEEEEESCCTTCCHHHHHHHTGGGCCCSEEEEET-------TTTEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCEEEEEEeC-------CCcEE
Confidence            4567899999999999999999999999999999987       66664

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

Probab=99.13  E-value=3.1e-11  Score=69.04  Aligned_cols=44  Identities=23%  Similarity=0.297  Sum_probs=36.5

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||+|||+++++++|+++|++||+|.++.+.++..|  .++|||
T Consensus         1 R~l~V~nlp~~~t~~~l~~~f~~~G~i~~v~i~~~~~~--~~~g~a   44 (166)
T 3md3_A            1 RVLYVGNLDKAITEDILKQYFQVGGPIANIKIMIDKNN--KNVNYA   44 (166)
T ss_dssp             CEEEEEEEETTCCHHHHHHHHGGGSCEEEEEEECCCC---CCEEEE
T ss_pred             CEEEECCCCCcCCHHHHHHHHHhcCCeEEEEEEECCCC--CCCCEE
Confidence            57999999999999999999999999999999874432  345553

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

Probab=99.13  E-value=1.4e-10  Score=62.81  Aligned_cols=36  Identities=19%  Similarity=0.289  Sum_probs=31.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....++|||+||  ++++++|+++|++||+|.+|.+.+
T Consensus        12 ~~~~~~l~V~n~--~~t~~~l~~~F~~~G~i~~v~i~~   47 (97)
T 1x5p_A           12 PRKGNTLYVYGE--DMTPTLLRGAFSPFGNIIDLSMDP   47 (97)
T ss_dssp             CCCCSEEEEECS--SCCHHHHHHHHTTTSCEEEEEEET
T ss_pred             CCCCCEEEEcCC--CCCHHHHHHHHhhCCCEEEEEecC
Confidence            345678999996  899999999999999999998876

>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=99.13  E-value=1.5e-11  Score=68.15  Aligned_cols=33  Identities=21%  Similarity=0.281  Sum_probs=29.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      ...++|||+|||+++++++|+++|++||.|.++
T Consensus        23 ~~~~~l~V~nLp~~~t~~~l~~~f~~~G~v~~~   55 (115)
T 2cpx_A           23 EPNKVLYLKNLSPRVTERDLVSLFARFQEKKGP   55 (115)
T ss_dssp             SCCSEEEEECCCTTCCHHHHHHHTHHHHHSSSS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCccce
Confidence            356789999999999999999999999999443

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

Probab=99.13  E-value=7.5e-11  Score=63.49  Aligned_cols=37  Identities=16%  Similarity=0.270  Sum_probs=33.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE-EEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT-ACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v-~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||.|.++ .+..
T Consensus        13 ~~~~~l~V~nlp~~~t~~~l~~~F~~~G~v~~~~~i~~   50 (96)
T 2e44_A           13 QRIRKLQIRNIPPHLQWEVLDSLLVQYGVVESCEQVNT   50 (96)
T ss_dssp             CSCCCEEEEEECSSSCHHHHHHHHHHHSCEEEEEEECC
T ss_pred             CCCCEEEEEcCCCCCCHHHHHHHHHhcCCeEEEEEeec
Confidence            456889999999999999999999999999998 4665

>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=99.11  E-value=7.7e-11  Score=71.39  Aligned_cols=45  Identities=22%  Similarity=0.444  Sum_probs=38.2

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||+|||+++++++|+++|++||+|.+|.+.++..  ..+||||
T Consensus       109 ~~~l~V~nLp~~~t~~~L~~~F~~~G~v~~v~i~~~~~--~~~kG~a  153 (193)
T 2voo_A          109 NRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLH--KAFKGSI  153 (193)
T ss_dssp             HTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTT--CCEEEEE
T ss_pred             cCEEEecCCCCcCCHHHHHHHHhcCCCEEEEEEEECCC--CCcccEE
Confidence            47899999999999999999999999999999887433  3456664

>2f3j_A RNA and export factor binding protein 2; RRM domain, RBD domain., transport protein; NMR {Mus musculus}

Probab=99.11  E-value=1.1e-10  Score=69.94  Aligned_cols=47  Identities=19%  Similarity=0.222  Sum_probs=38.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+.+++++|+++|++||+|.+|.+..+.  ...++|||
T Consensus        86 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~I~~v~i~~d~--~g~~kG~a  132 (177)
T 2f3j_A           86 ETGAKLLVSNLDFGVSDADIQELFAEFGTLKKAAVDYDR--SGRSLGTA  132 (177)
T ss_dssp             TTCEEEEEECCCSCCCHHHHHHHHHHTSCCSEEEECCCT--TSSCSCCE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECC--CCCEeeEE
Confidence            345789999999999999999999999999999998743  33455554

>2lcw_A RNA-binding protein FUS; RRM, nucleic acid binding protein; NMR {Homo sapiens}

Probab=98.71  E-value=6.8e-12  Score=69.96  Aligned_cols=38  Identities=32%  Similarity=0.491  Sum_probs=34.0

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE--------EEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY--------TACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~--------v~i~~   48 (60)
                      ....++|||+|||+++++++|+++|++||.|.+        |.+.+
T Consensus         4 ~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~~~~~~~~~v~i~~   49 (116)
T 2lcw_A            4 NSDNNTIFVQGLGENVTIESVADYFKQIGIIKTNKKTGQPMINLYT   49 (116)
Confidence            455788999999999999999999999999988        77766

>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=99.11  E-value=9.9e-11  Score=63.85  Aligned_cols=39  Identities=18%  Similarity=0.360  Sum_probs=34.0

Q ss_pred             ccCCcceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+..++|||+|||+ ++++++|+++|++||.|.++.+.+
T Consensus        18 ~~~~~~~l~V~nLp~~~~t~~~L~~~F~~~G~v~~v~i~~   57 (97)
T 2xnq_A           18 GSHMKSRLFIGNLPLKNVSKEDLFRIFSPYGHIMQINIKN   57 (97)
T ss_dssp             -CCTTCEEEEESCCSSCCCHHHHHHHHGGGSCEEEEEECS
T ss_pred             CCCCCCEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEeC
Confidence            334678899999998 999999999999999999888754

>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=99.10  E-value=1.4e-10  Score=68.23  Aligned_cols=47  Identities=32%  Similarity=0.536  Sum_probs=37.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+++++++|+++|++||.|.++.+.++ .....++|||
T Consensus       103 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~-~~~g~~~g~a  149 (196)
T 1l3k_A          103 TVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD-RGSGKKRGFA  149 (196)
T ss_dssp             CCSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEeec-CCCCCccceE
Confidence            4578999999999999999999999999999998873 2222345543

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=99.10  E-value=1.2e-10  Score=69.32  Aligned_cols=36  Identities=17%  Similarity=0.396  Sum_probs=33.7

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++||+|.+|.+.+
T Consensus        27 ~~~~l~V~nLp~~~t~~~l~~~f~~~G~i~~v~i~~   62 (216)
T 2qfj_A           27 IMSRVYVGSIYYELGEDTIRQAFAPFGPIKSIDMSW   62 (216)
T ss_dssp             HHTEEEEECCCTTCCHHHHHHHHGGGSCEEEEEECC
T ss_pred             cCCEEEEECCCCCCCHHHHHHHHHhCCCEEEEEEee
Confidence            457899999999999999999999999999999876

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=99.10  E-value=1.9e-10  Score=66.24  Aligned_cols=36  Identities=11%  Similarity=0.068  Sum_probs=32.4

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..-+|||+||++.+++++|+++|++||+|.+|.|.+
T Consensus        24 ~vl~l~V~NL~~~vt~~~L~~~Fs~yG~V~~v~i~~   59 (124)
T 2e5i_A           24 KVLLLSIQNPLYPITVDVLYTVCNPVGKVQRIVIFK   59 (124)
T ss_dssp             SEEEEEEESCCSCCCHHHHHHHHTTTSCEEEEEEEE
T ss_pred             cEEEEEEcCcCCCCCHHHHHHHHHhcCCEEEEEEEe
Confidence            445689999999999999999999999999998865

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

Probab=99.10  E-value=1.6e-11  Score=66.85  Aligned_cols=32  Identities=16%  Similarity=0.261  Sum_probs=29.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeE
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY   43 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~   43 (60)
                      ....+|||+|||+++++++|+++|++||.|.+
T Consensus        15 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~   46 (101)
T 1fj7_A           15 TTPFNLFIGNLNPNKSVAELKVAISELFAKND   46 (101)
T ss_dssp             SCSEEEEEECCCTTSCHHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcce
Confidence            35678999999999999999999999999876

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=99.09  E-value=5.8e-11  Score=74.85  Aligned_cols=43  Identities=21%  Similarity=0.410  Sum_probs=37.6

Q ss_pred             cCCcceEEEeCCCCCC---------CHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPT---------TLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~---------~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++||||||++.+         +|++|+++|++||+|.+|.|+.       +||||
T Consensus       131 ~~~~rtLfVgnL~~~~~~~~~~~~~tEe~L~~~F~~fG~I~~v~v~~-------~kG~A  182 (240)
T 3u1l_A          131 RKKNKTLYVGGIDGALNSKHLKPAQIESRIRFVFSRLGDIDRIRYVE-------SKNCG  182 (240)
T ss_dssp             CCCCCEEEEECTTGGGTTCCCCHHHHHHHHHHHHHTTSCEEEEEEEG-------GGTEE
T ss_pred             ccCCceeecCCCChhhhcccccccCcHHHHHHHHHccCCEEEEEEEC-------CCCEE
Confidence            3456789999999998         7999999999999999999987       66664

>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=99.09  E-value=1.6e-10  Score=66.69  Aligned_cols=46  Identities=24%  Similarity=0.330  Sum_probs=38.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+.+++++|+++|++||.|.++.+.++..|  .++|||
T Consensus        94 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~~~~~~~g--~~~g~a  139 (175)
T 3nmr_A           94 EDRKLFIGMISKKCTENDIRVMFSSFGQIEECRILRGPDG--LSRGCA  139 (175)
T ss_dssp             GGSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTS--CEEEEE
T ss_pred             CCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEEEEEECCCC--CEEEEE
Confidence            5678999999999999999999999999999999885433  345553

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

Probab=99.08  E-value=6.3e-11  Score=63.81  Aligned_cols=36  Identities=19%  Similarity=0.263  Sum_probs=31.5

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      ......++|||+|||+.+++++|+++|++||.|..+
T Consensus        11 ~~~~~~~~l~V~nL~~~~t~~~l~~~F~~~g~v~~~   46 (96)
T 1fjc_A           11 KKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLV   46 (96)
T ss_dssp             STTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCE
T ss_pred             ccCCCCCEEEEeCCCCCCCHHHHHHHHhhCCcEEEe
Confidence            344567889999999999999999999999998765

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

Probab=99.08  E-value=2.3e-10  Score=62.16  Aligned_cols=36  Identities=19%  Similarity=0.255  Sum_probs=31.2

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....++|||+|||+++++++|+++|++||.|   .+.+
T Consensus        11 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~g~v---~~~~   46 (101)
T 2fc9_A           11 WSGESKTLVLSNLSYSATEETLQEVFEKATFI---KVPQ   46 (101)
T ss_dssp             CSCCCSEEEEESCCTTCCHHHHHHHCSSCSEE---ECCB
T ss_pred             CCCCCCEEEEeCCCCCCCHHHHHHHHHhCCEE---EEEE
Confidence            44567899999999999999999999999997   4454

>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=99.08  E-value=3.2e-10  Score=65.43  Aligned_cols=38  Identities=26%  Similarity=0.431  Sum_probs=34.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....+|||+|||+++++++|+++|++||+|.++.+.++
T Consensus        92 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~~  129 (172)
T 2g4b_A           92 PGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD  129 (172)
T ss_dssp             TTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEEC
T ss_pred             CCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEec
Confidence            34678999999999999999999999999999999873

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

Probab=99.07  E-value=3.5e-10  Score=64.57  Aligned_cols=38  Identities=24%  Similarity=0.298  Sum_probs=34.6

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....+|||+|||+++++++|+++|++||.|.++.+.+
T Consensus        84 ~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~  121 (166)
T 3md3_A           84 SDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHVMW  121 (166)
T ss_dssp             CTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEEEE
T ss_pred             CCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEEEe
Confidence            34567899999999999999999999999999998887

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

Probab=99.07  E-value=1.5e-10  Score=70.06  Aligned_cols=45  Identities=20%  Similarity=0.293  Sum_probs=37.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+.+++++|+++|++||.|.++.|.++..+   +||||
T Consensus       102 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i~~d~~~---~~g~~  146 (213)
T 4f02_A          102 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG---SKGYG  146 (213)
T ss_dssp             CTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTE---EEEEE
T ss_pred             ccccceECCcccccHHHHHHHHHhhcCCeEEEEeeccCCC---CceEE
Confidence            4568999999999999999999999999999999875332   45554

>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=99.07  E-value=2.2e-10  Score=69.91  Aligned_cols=42  Identities=14%  Similarity=0.050  Sum_probs=36.8

Q ss_pred             cccCCcceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530           9 QMVTRTKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      ...+..++|||+|||+ ++++++|+++|++||.|.+|.+.++.
T Consensus        29 ~~~~~~~~l~V~nLp~~~~te~~L~~~F~~~G~i~~v~i~~~~   71 (229)
T 2adc_A           29 LAGAGNSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK   71 (229)
T ss_dssp             GGCCCCSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT
T ss_pred             CCCCCCCEEEEeCCCcccCCHHHHHHHHHhCCCeEEEEEEECC
Confidence            3445678999999999 99999999999999999999998733

>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=99.06  E-value=2.8e-10  Score=69.30  Aligned_cols=37  Identities=22%  Similarity=0.230  Sum_probs=33.9

Q ss_pred             CcceEEEeCCC-CCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          13 RTKKIFVGGLS-APTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        13 ~~~klfVg~L~-~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ..+.|||+||| +.+++++|+++|++||.|.+|.++++
T Consensus         3 ~~~~l~V~nL~~~~~~~~~L~~~F~~~G~v~~v~i~~~   40 (205)
T 3tyt_A            3 DSPVLMVYGLDQSKMNCDRVFNVFCLYGNVEKVKFMKS   40 (205)
T ss_dssp             CCSEEEEECCCTTTCCHHHHHHHHTTTSCEEEEEECTT
T ss_pred             CCCEEEEeCCCcccCCHHHHHHHHHhcCCeEEEEEecC
Confidence            45789999999 89999999999999999999998873

>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=99.04  E-value=1.7e-10  Score=71.97  Aligned_cols=48  Identities=17%  Similarity=0.250  Sum_probs=37.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||+|||+++++++|+++|++||+|.+|.+.++..|   ++|||
T Consensus        37 ~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~---~~g~a   84 (292)
T 2ghp_A           37 RNRELTTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSLKK---NFRFA   84 (292)
T ss_dssp             -----CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECTTS---SSEEE
T ss_pred             cCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEEECCCC---CcEEE
Confidence            3445778999999999999999999999999999999885433   35554

>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=99.03  E-value=4.1e-10  Score=75.32  Aligned_cols=37  Identities=24%  Similarity=0.324  Sum_probs=33.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ..++|||+|||+.+++++|+++|++||.|..|.|+.+
T Consensus       101 ~~~~lfV~nL~~~~te~~L~~~F~~~G~I~~v~i~~d  137 (437)
T 3pgw_S          101 AFKTLFVARVNYDTTESKLRREFEVYGPIKRIHMVYS  137 (437)
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHcCCeeEEEeecc
Confidence            3478999999999999999999999999999988863

>1sjr_A Polypyrimidine tract-binding protein 1; extended babbab motif, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2adb_A

Probab=99.03  E-value=2.6e-10  Score=68.58  Aligned_cols=38  Identities=26%  Similarity=0.353  Sum_probs=33.9

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .....+|||+||++.+++++|+++|++||+|.+|.|..
T Consensus        43 ps~vl~l~VgNL~~~vted~L~~~Fs~fG~V~~V~i~~   80 (164)
T 1sjr_A           43 QSPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFT   80 (164)
T ss_dssp             CCCEEEEEECSCCSCCCHHHHHHHHHHHSCEEEEEEEE
T ss_pred             CCceEEEEEeCcCCCCCHHHHHHHHHhcCCEEEEEEEe
Confidence            34567899999999999999999999999999998864

>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=99.03  E-value=1.8e-10  Score=66.29  Aligned_cols=47  Identities=26%  Similarity=0.480  Sum_probs=38.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||.|.++.+.++ .....++|||
T Consensus        86 ~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~~-~~~g~~~g~a  132 (167)
T 2cjk_A           86 KTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLMLD-KDTGQSRGFG  132 (167)
T ss_dssp             HCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCCS-SSSSTTSEEE
T ss_pred             CCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEEc-CCCCccceEE
Confidence            3568999999999999999999999999999988873 2223445554

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=99.01  E-value=5.4e-10  Score=64.98  Aligned_cols=37  Identities=27%  Similarity=0.376  Sum_probs=33.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...-+|||+||++.+++++|+++|++||+|.+|.+.+
T Consensus        26 s~VL~I~V~NL~~~vte~~L~~lFs~yG~V~~V~i~~   62 (130)
T 3zzy_A           26 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFT   62 (130)
T ss_dssp             CSEEEEEEESCCSCCCHHHHHHHHTTSSCEEEEEEEE
T ss_pred             CceEEEEECCCCCCCCHHHHHHHHhCcCCEEEEEEEc
Confidence            4566799999999999999999999999999998776

>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=99.01  E-value=5.7e-10  Score=69.23  Aligned_cols=46  Identities=17%  Similarity=0.359  Sum_probs=37.5

Q ss_pred             cCCcceEEEeCCCCCCCHHHHH----HHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVK----NYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~----~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+++++++|+    ++|++||.|.+|.+.+    ..++||||
T Consensus         6 ~~~~~~l~V~nlp~~~~~~~l~~~L~~~F~~~G~i~~v~~~~----~~~~~g~a   55 (282)
T 3pgw_A            6 TRPNHTIYINNLNEKIKKDELKKSLYAIFSQFGQILDILVSR----SLKMRGQA   55 (282)
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHHHhccCCeEEEEEcC----CCCcceEE
Confidence            3557899999999999999977    8999999999988775    22355554

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.01  E-value=7.9e-10  Score=65.01  Aligned_cols=38  Identities=26%  Similarity=0.437  Sum_probs=34.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ...++|||+|||+.+++++|+++|++||.|.++.+.++
T Consensus       112 ~~~~~l~v~nl~~~~~~~~l~~~f~~~G~v~~~~~~~~  149 (198)
T 2yh0_A          112 DSAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD  149 (198)
T ss_dssp             CCCCEEEEECCCTTCCHHHHHHHHHTBSCEEEEEEEEC
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCccEEEEeec
Confidence            45678999999999999999999999999999998873

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=99.01  E-value=3.6e-10  Score=74.25  Aligned_cols=44  Identities=16%  Similarity=0.156  Sum_probs=37.1

Q ss_pred             ccCCcceEEEeC--CCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGG--LSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~--L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+.+++|||||  |++.++|++|+++|++||+|.+|.+.+       +||||
T Consensus        14 ~~~ps~~l~VgN~gl~~~~te~~L~~~F~~~G~V~~v~~~~-------~kgfa   59 (345)
T 3tht_A           14 VSYATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP-------NKPYS   59 (345)
T ss_dssp             CSSCCSEEEEETCSGGGTCCHHHHHHHHHTTSCEEEEECCT-------TCSEE
T ss_pred             cCCCCCEEEEEcCCCCCCCCHHHHHHHHHhcCCeEEEEEeC-------CCCEE
Confidence            345578899999  689999999999999999999987766       56664

>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=99.00  E-value=8.9e-10  Score=62.94  Aligned_cols=37  Identities=22%  Similarity=0.450  Sum_probs=34.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+|||+.+++++|+++|++||.|.++.+.+
T Consensus        86 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~  122 (167)
T 1fxl_A           86 IRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILV  122 (167)
T ss_dssp             GTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEe
Confidence            3567899999999999999999999999999998887

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A

Probab=98.99  E-value=1.3e-09  Score=62.57  Aligned_cols=38  Identities=16%  Similarity=0.318  Sum_probs=34.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ....+|||+|||+.+++++|+++|++||.|.++.+.++
T Consensus        87 ~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~~  124 (168)
T 1b7f_A           87 IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD  124 (168)
T ss_dssp             TTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEEC
T ss_pred             CCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEEc
Confidence            45678999999999999999999999999999988873

>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A

Probab=98.98  E-value=9.5e-10  Score=65.42  Aligned_cols=37  Identities=24%  Similarity=0.459  Sum_probs=34.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+|||+++++++|+++|++||.|.++.+.+
T Consensus       123 ~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~  159 (216)
T 2qfj_A          123 RAFNRIYVASVHQDLSDDDIKSVFEAFGKIKSATLAR  159 (216)
T ss_dssp             TTSCEEEEECCCTTCCHHHHHHHHTTSSCEEEEEEEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhccCCeeEEEEEe
Confidence            3457899999999999999999999999999999887

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.96  E-value=9.1e-10  Score=65.21  Aligned_cols=37  Identities=16%  Similarity=0.110  Sum_probs=33.9

Q ss_pred             cceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          14 TKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        14 ~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      .++|||+|||+ ++++++|+++|++||.|.+|.+.++.
T Consensus         3 ~~~l~v~nlp~~~~~~~~l~~~F~~~G~i~~v~i~~~~   40 (198)
T 1qm9_A            3 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK   40 (198)
T ss_dssp             CCEEEEECCCSSSCCHHHHHHHHHTTCCCSEEECSTTC
T ss_pred             CcEEEEeCCCcccCCHHHHHHHHHhcCCEEEEEEEeCC
Confidence            47899999999 99999999999999999999988743

>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=98.96  E-value=6.5e-10  Score=64.14  Aligned_cols=41  Identities=27%  Similarity=0.552  Sum_probs=35.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcC----C-------ceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQF----G-------PVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~f----G-------~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++|    |       .|.++.+.+       +||||
T Consensus         3 ~~~~l~V~nLp~~~t~~~l~~~F~~~g~~~g~~~~~~~~v~~~~~~~-------~~g~a   54 (172)
T 2g4b_A            3 SARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ-------DKNFA   54 (172)
T ss_dssp             GGGEEEEESCCTTCCHHHHHHHHHHHHHHTTCCSSSSCSEEEEEEET-------TTTEE
T ss_pred             cccEEEEcCCCcccCHHHHHHHHHHHhhhcccccCCCCceeeeEecC-------CCCEE
Confidence            46789999999999999999999999    6       787777776       66664

>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=98.94  E-value=2.4e-10  Score=65.55  Aligned_cols=33  Identities=18%  Similarity=0.262  Sum_probs=29.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      ...++|||+|||+++++++|+++|++||.|.++
T Consensus        43 ~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~~   75 (143)
T 3egn_A           43 EPNCRIYVKNLAKHVQEKDLKYIFGRYVDFSSE   75 (143)
T ss_dssp             SCCSEEEEEEECTTCCHHHHHHHHGGGCCTTCH
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCcccc
Confidence            456789999999999999999999999998763

>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=98.92  E-value=1.2e-09  Score=67.77  Aligned_cols=41  Identities=22%  Similarity=0.449  Sum_probs=35.5

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++|| |.++.+.+       ++|||
T Consensus        20 ~~~~~l~V~nLp~~~te~~l~~~F~~~G-i~~~~~~~-------~~g~a   60 (284)
T 3smz_A           20 RNRRKILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDK-------YKGTA   60 (284)
T ss_dssp             HCCCEEEEECCCTTCCHHHHHHHTTTSC-EEEEEEET-------TTTEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcC-CEEEEEec-------CCCEE
Confidence            3567899999999999999999999999 98888866       66664

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

Probab=98.92  E-value=1.7e-09  Score=58.66  Aligned_cols=34  Identities=32%  Similarity=0.371  Sum_probs=28.9

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCce
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV   41 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V   41 (60)
                      .......++|||+|||+++++++|+++|++|+.|
T Consensus         9 ~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~~~~   42 (102)
T 2fc8_A            9 NARSQPSKTLFVKGLSEDTTEETLKESFDGSVRA   42 (102)
T ss_dssp             SSSSCCCSSEEEECCCTTCCHHHHHHTSTTCSEE
T ss_pred             CCCCCCCCEEEEeCCCCccCHHHHHHHhcCCeEE
Confidence            3344567889999999999999999999999754

>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=98.90  E-value=2.4e-09  Score=66.42  Aligned_cols=37  Identities=16%  Similarity=0.100  Sum_probs=34.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||.|.+|.+.+
T Consensus       205 ~~~~~l~v~nl~~~~~~~~l~~~F~~~G~i~~v~~~~  241 (282)
T 3pgw_A          205 PPNHILFLTNLPEETNELMLSMLFNQFPGFKEVRLVP  241 (282)
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHhcCCeEEEEEec
Confidence            3467899999999999999999999999999998887

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.89  E-value=1.6e-09  Score=63.73  Aligned_cols=36  Identities=22%  Similarity=0.507  Sum_probs=30.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcC----C-------ceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQF----G-------PVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~f----G-------~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++|    |       .|.++.+.+
T Consensus         3 ~~~~l~V~nLp~~~te~~l~~~F~~~g~i~g~~~~~~~~v~~~~~~~   49 (198)
T 2yh0_A            3 MARRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQAPGNPVLAVQINQ   49 (198)
T ss_dssp             -CCEEEEESCCTTCCHHHHHHHHHHHHHHHTCCSSSSCSEEEEEEET
T ss_pred             ceeEEEEcCCCCCCCHHHHHHHHHHHHhhcccccCCCCceEEeEecC
Confidence            36789999999999999999999999    5       676666666

>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=98.88  E-value=1.1e-09  Score=66.60  Aligned_cols=36  Identities=8%  Similarity=-0.060  Sum_probs=32.7

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCce--eEEEEeee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV--YYTACDRF   49 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V--~~v~i~~~   49 (60)
                      .++|||+|||+++++++|+++|++||.|  .++.+..+
T Consensus       123 ~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~  160 (205)
T 3tyt_A          123 SNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSG  160 (205)
T ss_dssp             CSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSC
T ss_pred             cceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcC
Confidence            4579999999999999999999999999  88888773

>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=98.87  E-value=3.5e-09  Score=65.72  Aligned_cols=36  Identities=14%  Similarity=0.147  Sum_probs=33.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...+|||+|||+++++++|+++|++||.|.++.+.+
T Consensus        94 ~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~  129 (284)
T 3smz_A           94 TDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVY  129 (284)
T ss_dssp             CSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             CCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEe
Confidence            457899999999999999999999999999998876

>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=98.86  E-value=3.6e-09  Score=65.64  Aligned_cols=46  Identities=24%  Similarity=0.174  Sum_probs=38.3

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+.+++++|+++|++||.|.+|.+..+..  ..++|||
T Consensus        95 ~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~--g~~~g~a  140 (261)
T 3sde_A           95 HGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDR--GRATGKG  140 (261)
T ss_dssp             CSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETT--SCEEEEE
T ss_pred             cCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCC--CCcCcEE
Confidence            356899999999999999999999999999999988533  3445554

>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=98.83  E-value=2.8e-09  Score=66.36  Aligned_cols=49  Identities=16%  Similarity=0.089  Sum_probs=38.3

Q ss_pred             CCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||+. +++++|+++|++||.|.+|.+.++..+...++|||
T Consensus       208 ~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~v~~v~i~~~~~~tg~~~g~a  257 (292)
T 2ghp_A          208 LEGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCA  257 (292)
T ss_dssp             CTTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEE
T ss_pred             CCCceEEEECCCcccCCHHHHHHHHhccCCeeEEEEEecCCcCCCCceEE
Confidence            34578999999999 99999999999999999998887443123445553

>2adc_A Polypyrimidine tract-binding protein 1; RBD, RRM, protein-RNA complex, RNA binding protein/RNA complex; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1 PDB: 2evz_A

Probab=98.79  E-value=1.2e-08  Score=62.16  Aligned_cols=35  Identities=17%  Similarity=0.194  Sum_probs=32.5

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCC-ceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFG-PVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG-~V~~v~i~~   48 (60)
                      ..+|||+|||+.+++++|+++|++|| .|.++.+..
T Consensus       151 ~~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~  186 (229)
T 2adc_A          151 SATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ  186 (229)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECS
T ss_pred             CCEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEE
Confidence            57899999999999999999999999 999998854

>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=98.79  E-value=1.2e-08  Score=59.16  Aligned_cols=34  Identities=21%  Similarity=0.277  Sum_probs=30.1

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      .....+|||+|||+++++++|+++|++||.|..+
T Consensus        96 ~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~  129 (175)
T 1fje_B           96 VRAARTLLAKNLSFNITEDELKEVFEDALEIRLV  129 (175)
T ss_dssp             TGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEE
T ss_pred             cccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEe
Confidence            3456789999999999999999999999998655

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.78  E-value=1.1e-08  Score=60.52  Aligned_cols=36  Identities=17%  Similarity=0.181  Sum_probs=33.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCC-ceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFG-PVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG-~V~~v~i~~   48 (60)
                      ...+|||+|||+.+++++|+++|++|| .|.++.+..
T Consensus       119 ~~~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~  155 (198)
T 1qm9_A          119 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQ  155 (198)
T ss_dssp             CCCEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESS
T ss_pred             CccEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEe
Confidence            367899999999999999999999999 999998855

>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=98.70  E-value=1.6e-08  Score=58.52  Aligned_cols=35  Identities=14%  Similarity=0.212  Sum_probs=30.7

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY   43 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~   43 (60)
                      ......++|||+|||+++++++|+++|++||.+..
T Consensus         8 ~~~~~~~~l~V~nLp~~~t~~~l~~~f~~~g~~~~   42 (175)
T 1fje_B            8 SESTTPFNLFIGNLNPNKSVAELKVAISELFAKND   42 (175)
T ss_dssp             SSCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHT
T ss_pred             CCCCCCcEEEEeCCCCCCCHHHHHHHHHHhCCcce
Confidence            34556789999999999999999999999998765

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

Probab=98.51  E-value=1.7e-07  Score=52.18  Aligned_cols=30  Identities=17%  Similarity=0.229  Sum_probs=25.7

Q ss_pred             ceEEEeCCCCCCCHHH----HHHHHhcC-CceeEE
Q psy7530          15 KKIFVGGLSAPTTLED----VKNYFEQF-GPVYYT   44 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~----l~~~F~~f-G~V~~v   44 (60)
                      .-|||+|||+++++++    |+++|++| |+|.+|
T Consensus        10 T~lYV~NL~~~~~~~~lk~~L~~lF~~yGG~Vl~V   44 (96)
T 2diu_A           10 TLLYVYNLPANKDGKSVSNRLRRLSDNCGGKVLSI   44 (96)
T ss_dssp             EEEEEESCCTTSCHHHHHHHHHHHHHTTTCCEEEC
T ss_pred             eEEEEeCCCCcCCHHHHHHHHHHHHHHcCCeeEEE
Confidence            3499999999999988    55899999 599766

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

Probab=98.50  E-value=2.4e-07  Score=51.44  Aligned_cols=49  Identities=12%  Similarity=-0.034  Sum_probs=35.8

Q ss_pred             CCcceEEEeCCCC-----CCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSA-----PTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~-----~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++-|++.||..     +.++++|++.|++||+|.+|.|.++.....++||||
T Consensus         6 ~~s~~l~l~Nm~~~~~l~dd~~~dl~~~f~~~G~V~~v~i~~~~~~~~~~~G~~   59 (105)
T 2pe8_A            6 CPTKVVLLRNMVGAGEVDEDLEVETKEECEKYGKVGKCVIFEIPGAPDDEAVRI   59 (105)
T ss_dssp             SCCSEEEEESSSCSCCC---CHHHHHHHGGGGSCEEEEEEEECSSCCTTTSEEE
T ss_pred             CCCCEEEEEcCCChHHhhHHHHHHHHHHHHhcCCEEEEEEecCCCCCCCCcEEE
Confidence            3466799999962     347899999999999999999987432223456664

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.48  E-value=1.1e-07  Score=54.76  Aligned_cols=44  Identities=20%  Similarity=0.113  Sum_probs=36.2

Q ss_pred             CCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEeeee-cCCCC
Q psy7530          12 TRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDRFI-FGISP   55 (60)
Q Consensus        12 ~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~~~-~g~~~   55 (60)
                      +.-.-|||+||+++ +++++|+++|++||+|..|++.++. +||.+
T Consensus        16 ~~G~il~v~~l~~~~~sredLke~F~~~G~V~~Vd~~~g~~tgfVr   61 (121)
T 1owx_A           16 KIGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRGAKEGIIL   61 (121)
T ss_dssp             CCCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCTTCSEEEEE
T ss_pred             cCCeEEEEecCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCEEEEE
Confidence            34567999999999 9999999999999999999887632 44443

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.47  E-value=5.7e-07  Score=49.75  Aligned_cols=36  Identities=11%  Similarity=0.099  Sum_probs=27.9

Q ss_pred             CcceEEEeCCC-------CCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLS-------APTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~-------~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++-|.-..       .++++++|+++|++||+|.+|.+++
T Consensus         9 ~~~~~~v~w~~~~~~~~~~~~te~~L~~~F~~~G~V~~v~i~~   51 (100)
T 2d9o_A            9 GTPKLKLKWKCKKEDESKGGYSKDVLLRLLQKYGEVLNLVLSS   51 (100)
T ss_dssp             SSCEEEEECCCCSSCSCCCSCCHHHHHHHHHTTSCEEEEEEES
T ss_pred             ccceEEEeeeccCccCcCCCCCHHHHHHHHHhcCCEEEEEEcc
Confidence            34556555443       4579999999999999999998874

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=98.21  E-value=8.2e-08  Score=53.12  Aligned_cols=40  Identities=13%  Similarity=0.125  Sum_probs=31.1

Q ss_pred             EeCCCCCCCHHHHHHHH------------hcCCceeEEEEeeeecCCCCccccC
Q psy7530          19 VGGLSAPTTLEDVKNYF------------EQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        19 Vg~L~~~~~e~~l~~~F------------~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.+||+.+++++|+++|            ++||+|.+|.|.++..|  ++||||
T Consensus        20 ~~~l~~~~~~~~l~~~f~~~~edl~~~f~~~~G~V~~v~i~~~~~~--~~~G~~   71 (104)
T 1jmt_A           20 ADGLRSAVSDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD--HLVGNV   71 (104)
T ss_dssp             -CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSS--SSEEEE
T ss_pred             cCCcccccCHHHHHHHHHHHHHHHHHHhhccCCceEEEEEEeCCCC--CccEEE
Confidence            57888888888888777            99999999999885433  566764

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.21  E-value=3.6e-06  Score=46.43  Aligned_cols=38  Identities=13%  Similarity=0.218  Sum_probs=29.7

Q ss_pred             ccCCcceEEEeCCCCCCC-----------HHHHHHHHhcCCceeEEEEe
Q psy7530          10 MVTRTKKIFVGGLSAPTT-----------LEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~-----------e~~l~~~F~~fG~V~~v~i~   47 (60)
                      .....+.|+|.||.....           +++|+++|++||+|.+|.|.
T Consensus        11 ~~~~s~~l~l~Nl~~~~~~~~~~~~~~~~e~~l~~~f~~~G~v~~v~i~   59 (112)
T 2dit_A           11 RMRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLF   59 (112)
T ss_dssp             CCCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEE
T ss_pred             CCCCceEEEEEcCCCHHHhccCHHHHHHHHHHHHHHHHccCCEeEEEEe
Confidence            334567799999954432           68999999999999999663

>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=97.89  E-value=1.3e-05  Score=44.22  Aligned_cols=47  Identities=19%  Similarity=0.201  Sum_probs=33.4

Q ss_pred             cceEEEeCC--CCCCC--------HHHHHHHHhcCCceeEEEEeeeecCC-CCccccC
Q psy7530          14 TKKIFVGGL--SAPTT--------LEDVKNYFEQFGPVYYTACDRFIFGI-SPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L--~~~~~--------e~~l~~~F~~fG~V~~v~i~~~~~g~-~~~k~fg   60 (60)
                      ++-|.+.|+  |.+..        ++||++.|++||+|.+|.|.++..+. .+++|||
T Consensus         5 s~vl~L~Nm~~~~~l~~d~~~~~~~~dl~~~f~k~G~V~~v~i~~~~~~~~~~~~G~~   62 (105)
T 3v4m_A            5 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPVDGVEVPGCGKI   62 (105)
T ss_dssp             CSEEEEESSCCGGGSSSHHHHHHHHHHHHHHHHTTSCEEEEECCCCBTTBCCTTTTEE
T ss_pred             CeEEEEECCCCHHHccChHHHHHHHHHHHHHHHccCCEEEEEEeccCCCCCcCCcEEE
Confidence            455778886  33443        37999999999999999998855432 3456653

>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=97.89  E-value=2e-05  Score=44.49  Aligned_cols=47  Identities=11%  Similarity=0.041  Sum_probs=34.8

Q ss_pred             CcceEEEeCCC--C---CCCHHHHHHHHhcCCceeEEEEeeeecC---CCCcccc
Q psy7530          13 RTKKIFVGGLS--A---PTTLEDVKNYFEQFGPVYYTACDRFIFG---ISPVKNF   59 (60)
Q Consensus        13 ~~~klfVg~L~--~---~~~e~~l~~~F~~fG~V~~v~i~~~~~g---~~~~k~f   59 (60)
                      .++-|++.|+-  .   +--++||++.|++||+|.+|.|.++..+   ..+++||
T Consensus        19 ps~vl~L~Nm~~~~el~ddleedl~eef~k~G~V~~v~I~~~~~~~~~~~~~~G~   73 (118)
T 3ue2_A           19 ESTVMVLRNMVDPKDIDDDLEGEVTEECGKFGAVNRVIIYQEKQGEEEDAEIIVK   73 (118)
T ss_dssp             SCCEEEEESCSCGGGCCTTHHHHHHHHHTTTSCEEEEEEEEEEESSSTTCEEEEE
T ss_pred             CCCEEEEECCCCHHHHHHHHHHHHHHHHhccCCEeEEEEeecCCCcccCCcceEE
Confidence            45678999983  2   2246899999999999999999986543   3445555

>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=97.12  E-value=0.0003  Score=39.45  Aligned_cols=22  Identities=23%  Similarity=0.203  Sum_probs=19.3

Q ss_pred             HHHHHHHHhcCCceeEEEEeee
Q psy7530          28 LEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        28 e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ++||++.|++||+|.+|.|.++
T Consensus        31 ~edl~~~f~kfG~V~~v~i~~~   52 (114)
T 3s6e_A           31 KDDVIEECNKHGGVIHIYVDKN   52 (114)
T ss_dssp             HHHHHHHHTTTTCCSEEEECTT
T ss_pred             HHHHHHHHhccCCEEEEEEecC
Confidence            3689999999999999998873

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=96.02  E-value=0.01  Score=32.49  Aligned_cols=35  Identities=17%  Similarity=0.149  Sum_probs=25.4

Q ss_pred             cceEEEeCCC----CCCCH----HHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLS----APTTL----EDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~----~~~~e----~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+++|.-.+    ...-.    .+|.+.|++||+|..+++..
T Consensus         7 d~tv~V~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vi~vr~~~   49 (91)
T 2dnr_A            7 GGTVLVSIKSSLPENNFFDDALIDELLQQFASFGEVILIRFVE   49 (91)
T ss_dssp             SCEEEEEEECSSTTTCSCCHHHHHHHHHHHHTTCCEEEEEECS
T ss_pred             CCeEEEEeccCccccccCCHHHHHHHHHHHHhCCCeEEEEEec
Confidence            4456666554    22323    67999999999999998887

>3pq1_A Poly(A) RNA polymerase; nucleotidyl transferase, RNP-type RNA binding domain, poly(A polymerase, mitochondria, transferase; 3.10A {Homo sapiens}

Probab=96.02  E-value=0.0039  Score=42.43  Aligned_cols=35  Identities=14%  Similarity=0.325  Sum_probs=27.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+.+||. .|..+++.+|.+||++||+|.++..-+
T Consensus        52 a~rsv~v~-~~~~~~~~~l~~y~~~~g~i~~~~~~~   86 (464)
T 3pq1_A           52 AQRTVLIH-CPEKISENKFLKYLSQFGPINNHFFYE   86 (464)
T ss_dssp             HHTEEEEE-ECCC---CHHHHHHGGGSCCCCEEEEC
T ss_pred             hcceEEEE-cCCCCCHHHHHHHHHhcCCcceEEEEc
Confidence            34569997 688999999999999999999987766

>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=95.92  E-value=0.016  Score=32.22  Aligned_cols=34  Identities=12%  Similarity=0.274  Sum_probs=27.2

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCcee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY   42 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~   42 (60)
                      +..+....+|+-+.|+.....||.++|++||-|.
T Consensus        10 d~~p~r~HVf~l~FP~ewKt~DI~~lFs~fggv~   43 (100)
T 1whv_A           10 DLQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQ   43 (100)
T ss_dssp             CCCCCCCSEEEEECCTTCCHHHHHHHHTTTCSCC
T ss_pred             CCCCCCCeEEEEeCChhhhhHHHHHHhhccCCEE
Confidence            3444555666669999999999999999999663

>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=95.63  E-value=0.011  Score=35.30  Aligned_cols=26  Identities=15%  Similarity=0.049  Sum_probs=21.8

Q ss_pred             CCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          25 PTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        25 ~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      +-.+++|++.|++||+|.++.|.++.
T Consensus       140 ~e~~~dl~~e~~~~G~v~~~~v~~~~  165 (222)
T 3dxb_A          140 DDLEGEVTEECGKFGAVNRVIIYQEK  165 (222)
T ss_dssp             TTHHHHHHHHHTTTSCEEEEEEEEEE
T ss_pred             HHHHHHHHHHHHccCCeEEEEEecCC
Confidence            34568999999999999999887644

>2dhx_A Poly (ADP-ribose) polymerase family, member 10 variant; RRM domain, RNA- binding, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=94.95  E-value=0.12  Score=28.88  Aligned_cols=34  Identities=29%  Similarity=0.259  Sum_probs=29.8

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcC-----CceeEEEEe
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQF-----GPVYYTACD   47 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~f-----G~V~~v~i~   47 (60)
                      ..++.|.|||+.+.++.|+-||+.=     |+|.+|++.
T Consensus         8 ~~~I~V~~lPp~~~~e~L~LYFEn~rrsGGG~V~~v~~~   46 (104)
T 2dhx_A            8 GVAVEVRGLPPAVPDELLTLYFENRRRSGGGPVLSWQRL   46 (104)
T ss_dssp             CCEEEEESCCTTSCHHHHHHHHHCTTTTCCCCEEEEEEE
T ss_pred             ccEEEEECCCCCCChhHheEEEeCCCcCCCceeeEEEEc
Confidence            4679999999999999999999992     799888765

>3ctr_A Poly(A)-specific ribonuclease PARN; protein-RNA-complex, M7G-CAP, M7GTP, RNA recognition motif, RRM, cytoplasm, exonuclease, hydrolase, magnesium; HET: MGP; 2.10A {Homo sapiens}

Probab=93.92  E-value=0.055  Score=30.10  Aligned_cols=26  Identities=15%  Similarity=0.312  Sum_probs=22.6

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCce
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPV   41 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V   41 (60)
                      .+|+-+.|+.+...||.++|++||-|
T Consensus         7 HV~~l~FP~ewKt~Di~~lFs~fggv   32 (101)
T 3ctr_A            7 HVLHVTFPKEWKTSDLYQLFSAFGNI   32 (101)
T ss_dssp             EEEEEECCTTCCHHHHHHHTTTSEEE
T ss_pred             eEEEEeCChhhhhHHHHHHHhccCCE
Confidence            45555999999999999999999965

>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=93.75  E-value=0.027  Score=31.01  Aligned_cols=37  Identities=8%  Similarity=0.143  Sum_probs=27.3

Q ss_pred             CCcceEEEeCCCCC-----CCH----HHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAP-----TTL----EDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~-----~~e----~~l~~~F~~fG~V~~v~i~~   48 (60)
                      +...+++|.-++..     .-.    .+|.+.|++||+|..+++..
T Consensus        13 PpD~Tv~V~~~~~~~~~~~~fd~~l~~~L~~~F~~~G~Vilvr~v~   58 (95)
T 1ufw_A           13 PLDATVVVNLQSPTLEEKNEFPEDLRTELMQTLGSYGTIVLVRINQ   58 (95)
T ss_dssp             CTTCEEEEEESSCCHHHHHSCCHHHHHHHHHHHHHHSCCSEEEEET
T ss_pred             CCCCeEEEEecCCcccccccCCHHHHHHHHHHHHHCCCEEEEEEec
Confidence            34567888877633     212    56999999999999998877

>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=93.42  E-value=0.09  Score=28.47  Aligned_cols=28  Identities=14%  Similarity=0.195  Sum_probs=25.3

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCcee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVY   42 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~   42 (60)
                      .|+-|.+||+..||+++.+..+.+.++.
T Consensus         2 ~KvVIRrLPP~LteeeF~~~l~~~~~~d   29 (91)
T 1uw4_A            2 SKVVIRRLPPTLTKEQLQEHLQPMPEHD   29 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEE
T ss_pred             cEEEEeCCCCCCCHHHHHHHhcCcccce
Confidence            5899999999999999999999988754

>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=92.14  E-value=0.029  Score=30.52  Aligned_cols=18  Identities=6%  Similarity=0.230  Sum_probs=0.0

Q ss_pred             CcceEEEeCCCCCCCHHH
Q psy7530          13 RTKKIFVGGLSAPTTLED   30 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~   30 (60)
                      ...++||+|||+++|++.
T Consensus        96 ~~~~lyv~Nl~~~~T~~a  113 (115)
T 4f25_A           96 EFTNVYIKNFGPGSTRAA  113 (115)
T ss_dssp             ------------------
T ss_pred             CCCceEeCCCCCCccccc
Confidence            445799999999999874

>2l08_A Regulator of nonsense transcripts 3A; NESG, nonsense regulator, structural genomics, PSI-2, protei structure initiative; NMR {Homo sapiens}

Probab=88.18  E-value=0.22  Score=27.39  Aligned_cols=25  Identities=12%  Similarity=0.243  Sum_probs=20.4

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQF   38 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~f   38 (60)
                      .-||-|..||+..||+++.+.++.+
T Consensus         9 ~~KvVIRrLPP~Ltee~F~~~l~~~   33 (97)
T 2l08_A            9 SHMVVIRRLPPGLTKEQLEEQLRPL   33 (97)
T ss_dssp             CCCEEEECCCSCSCHHHHTTTTSCC
T ss_pred             ceeEEEeCCCCCCCHHHHHHHhCCc
Confidence            5689999999999999877655544

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=85.51  E-value=1.6  Score=24.79  Aligned_cols=37  Identities=8%  Similarity=-0.059  Sum_probs=32.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcC-----CceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQF-----GPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~f-----G~V~~v~i~~   48 (60)
                      ...+.+-+=+||..+++..+|.+.+++     |.+..+.+..
T Consensus        19 ~~~rtiaL~~ipDtvndarIr~lve~~~~i~~g~i~KI~L~p   60 (117)
T 2l9w_A           19 ELETLICLFPLSDKVSPSLICQFLQEEIHINEKDIRKILLVS   60 (117)
T ss_dssp             TTTSCEEEECCCTTCCHHHHHHHHHHHTCCCTTTCSEEEEET
T ss_pred             cCCcEEEEecCCCCCCHHHHHHHHhhhhccCccceeEEEEec
Confidence            346778889999999999999999999     9998886665

---

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	60
d1u1qa_	183	d.58.7.1 (A:) Nuclear ribonucleoprotein A1 (RNP A1	3e-06
d2cqba1	89	d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomer	8e-06
d1h2vz_	93	d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding pro	1e-05
d1x0fa1	75	d.58.7.1 (A:183-257) Nuclear ribonucleoprotein D0	2e-05
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	3e-05
d2cpfa1	85	d.58.7.1 (A:362-446) Probable RNA-binding protein	3e-05
d2cpha1	94	d.58.7.1 (A:454-547) Probable RNA-binding protein	3e-05
d1b7fa2	85	d.58.7.1 (A:205-289) Sex-lethal protein {Drosophil	4e-05
d1uawa_	77	d.58.7.1 (A:) Musashi-1 {Mouse (Mus musculus) [Tax	5e-05
d1fjca_	96	d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocrice	5e-05
d2ghpa1	81	d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splici	8e-05
d2cqca1	83	d.58.7.1 (A:109-191) Arginine/serine-rich splicing	9e-05
d2cq4a1	101	d.58.7.1 (A:132-232) RNA binding protein 23 {Human	9e-05
d2cq3a1	93	d.58.7.1 (A:110-202) RNA-binding protein 9 {Human	9e-05
d1b7fa1	82	d.58.7.1 (A:123-204) Sex-lethal protein {Drosophil	1e-04
d1x4ba1	103	d.58.7.1 (A:8-110) Heterogeneous nuclear ribonucle	1e-04
d1cvja1	80	d.58.7.1 (A:11-90) Poly(A)-binding protein {Human	2e-04
d1owxa_	113	d.58.7.1 (A:) Lupus LA protein {Human (Homo sapien	2e-04
d1x4ga1	96	d.58.7.1 (A:8-103) Nucleolysin TIAR {Human (Homo s	2e-04
d2cpea1	101	d.58.7.1 (A:353-453) RNA-binding protein EWS {Huma	2e-04
d2msta_	75	d.58.7.1 (A:) Neural RNA-binding protein Musashi-1	2e-04
d1x5ua1	93	d.58.7.1 (A:7-99) Splicing factor 3B subunit 4 {Hu	2e-04
d1fxla2	85	d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Ho	3e-04
d1no8a_	78	d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus muscu	3e-04
d1l3ka1	84	d.58.7.1 (A:8-91) Nuclear ribonucleoprotein A1 (RN	3e-04
d2cpja1	86	d.58.7.1 (A:65-150) Non-POU domain-containing octa	3e-04
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	4e-04
d1l3ka2	79	d.58.7.1 (A:103-181) Nuclear ribonucleoprotein A1	4e-04
d1u2fa_	90	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	4e-04
d1hd0a_	75	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	4e-04
d2cq0a1	90	d.58.7.1 (A:231-320) Eukaryotic translation initia	5e-04
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	5e-04
d2cpda1	86	d.58.7.1 (A:223-308) APOBEC1 stimulating protein {	6e-04
d1x5ta1	83	d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Hu	7e-04
d2disa1	96	d.58.7.1 (A:8-103) Hypothetical protein FLJ20273 {	7e-04
d1zh5a2	85	d.58.7.1 (A:105-189) Lupus LA protein {Human (Homo	8e-04
d1x4aa1	95	d.58.7.1 (A:9-103) Splicing factor, arginine/serin	0.001
d1wf0a_	88	d.58.7.1 (A:) TAR DNA-binding protein 43, TDP-43 {	0.001
d2cqha1	80	d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 is	0.001
d2cqia1	90	d.58.7.1 (A:1-90) Nucleolysin TIAR {Human (Homo sa	0.001
d1whwa_	99	d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm	0.002
d1fxla1	82	d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Hom	0.002
d1cvja2	89	d.58.7.1 (A:91-179) Poly(A)-binding protein {Human	0.002

>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 = 39.6 bits (91), Expect = 3e-06
 Identities = 13/27 (48%), Positives = 22/27 (81%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          +K+F+GGLS  TT E ++++FEQ+G +
Sbjct: 7  RKLFIGGLSFETTDESLRSHFEQWGTL 33

>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 = 37.3 bits (86), Expect = 8e-06
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          M T  + ++VGGL+     + +   F  FG +
Sbjct: 1  MATTKRVLYVGGLAEEVDDKVLHAAFIPFGDI 32

>d1h2vz_ d.58.7.1 (Z:) CBP20, 20KDa nuclear cap-binding protein {Human (Homo sapiens) [TaxId: 9606]} Length = 93

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CBP20, 20KDa nuclear cap-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 36.5 bits (84), Expect = 1e-05
 Identities = 9/38 (23%), Positives = 19/38 (50%)

Query: 9  QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
          +++ ++  ++VG LS  TT E +   F + G +     
Sbjct: 2  KLLKKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIM 39

>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 = 36.1 bits (83), Expect = 2e-05
 Identities = 15/34 (44%), Positives = 17/34 (50%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
          KIFVGGLS  T  E ++ YF  FG V        
Sbjct: 1  KIFVGGLSPDTPEEKIREYFGGFGEVESIELPMD 34

>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 = 35.7 bits (82), Expect = 3e-05
 Identities = 13/34 (38%), Positives = 19/34 (55%)

Query: 7  ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP 40
          + + V +T  + V GL   TT +D+K YF  FG 
Sbjct: 1  VKRAVQKTSDLIVLGLPWKTTEQDLKEYFSTFGE 34

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 35.4 bits (81), Expect = 3e-05
 Identities = 11/46 (23%), Positives = 20/46 (43%), Gaps = 2/46 (4%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPV--YYTACDRFIFGISPVKNFG 60
          +F+  L+  TT E +K  F + G +     +  +   G+     FG
Sbjct: 1  LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFG 46

>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 = 35.7 bits (82), Expect = 3e-05
 Identities = 7/36 (19%), Positives = 13/36 (36%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
           T KI V  +       +++  F  FG +      +
Sbjct: 7  TTSKILVRNIPFQANQREIRELFSTFGELKTVRLPK 42

>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 = 35.3 bits (81), Expect = 4e-05
 Identities = 6/38 (15%), Positives = 14/38 (36%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
           +   ++V  L    T + +   F ++G +      R 
Sbjct: 4  IKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD 41

>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 = 35.0 bits (80), Expect = 5e-05
 Identities = 16/34 (47%), Positives = 20/34 (58%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
          K+F+GGLS  TT E ++ YF QFG V      R 
Sbjct: 2  KMFIGGLSWQTTQEGLREYFGQFGEVKECLVMRD 35

>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 = 35.4 bits (81), Expect = 5e-05
 Identities = 10/45 (22%), Positives = 18/45 (40%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG 52
          S+ V   + +    LS   T +++K  FE    +   + D    G
Sbjct: 10 SKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQDGKSKG 54

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 81

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 34.4 bits (78), Expect = 8e-05
 Identities = 2/44 (4%), Positives = 14/44 (31%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF 59
           +++       T  ++++  +    V  +     +   +  +  
Sbjct: 3  TLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTSRRFA 46

>d2cqca1 d.58.7.1 (A:109-191) Arginine/serine-rich splicing factor 10 {Human (Homo sapiens) [TaxId: 9606]} Length = 83

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Arginine/serine-rich splicing factor 10
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 34.3 bits (78), Expect = 9e-05
 Identities = 10/27 (37%), Positives = 15/27 (55%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGP 40
             + V GLS  TT  D++  F ++GP
Sbjct: 9  NCCLGVFGLSLYTTERDLREVFSKYGP 35

>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 = 34.6 bits (79), Expect = 9e-05
 Identities = 9/43 (20%), Positives = 17/43 (39%)

Query: 6  NISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          N+S      + +F   L+A     D++++F   G V       
Sbjct: 10 NLSPEERDARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIIS 52

>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 = 34.7 bits (79), Expect = 9e-05
 Identities = 8/39 (20%), Positives = 16/39 (41%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
          S+  +  K++ V  +       D++  F QFG +     
Sbjct: 5  SESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEI 43

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]} Length = 82

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

 Score = 34.2 bits (78), Expect = 1e-04
 Identities = 6/31 (19%), Positives = 10/31 (32%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
           + V  L    T  ++   F   GP+     
Sbjct: 4  NLIVNYLPQDMTDRELYALFRAIGPINTCRI 34

>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 = 34.3 bits (78), Expect = 1e-04
 Identities = 15/35 (42%), Positives = 23/35 (65%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
          +K+F+GGLS  TT E ++NY+EQ+G +      R 
Sbjct: 21 RKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMRD 55

>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 = 33.7 bits (77), Expect = 2e-04
 Identities = 7/27 (25%), Positives = 11/27 (40%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVY 42
           ++VG L    T   +   F   GP+ 
Sbjct: 2  SLYVGDLHPDVTEAMLYEKFSPAGPIL 28

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]} Length = 113

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 = 34.0 bits (77), Expect = 2e-04
 Identities = 9/36 (25%), Positives = 12/36 (33%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
              F G L   T  ED+   F   G + +    R 
Sbjct: 11 CLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVRG 46

>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 = 33.8 bits (77), Expect = 2e-04
 Identities = 7/34 (20%), Positives = 18/34 (52%)

Query: 7  ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGP 40
          ++Q   +   ++ GG+++  T + ++  F  FG 
Sbjct: 11 VNQSSPKNCTVYCGGIASGLTDQLMRQTFSPFGQ 44

>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 = 34.0 bits (77), Expect = 2e-04
 Identities = 11/28 (39%), Positives = 18/28 (64%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPV 41
             I+V GL+   TL+D+ ++F+Q G V
Sbjct: 8  NSAIYVQGLNDSVTLDDLADFFKQCGVV 35

>d2msta_ d.58.7.1 (A:) Neural RNA-binding protein Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 75

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Neural RNA-binding protein Musashi-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.2 bits (75), Expect = 2e-04
 Identities = 21/34 (61%), Positives = 23/34 (67%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
          KIFVGGLS  TT+EDVK+YFEQFG V        
Sbjct: 1  KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMFD 34

>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 = 33.5 bits (76), Expect = 2e-04
 Identities = 10/47 (21%), Positives = 16/47 (34%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNF 59
          +   ++VGGL    +   +   F Q GPV  T   +           
Sbjct: 8  QDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPKDRVTGQHQGYG 54

>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 = 33.1 bits (75), Expect = 3e-04
 Identities = 8/28 (28%), Positives = 15/28 (53%)

Query: 13 RTKKIFVGGLSAPTTLEDVKNYFEQFGP 40
          R   ++V GL    T ++++  F Q+G 
Sbjct: 5  RDANLYVSGLPKTMTQKELEQLFSQYGR 32

>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 = 33.0 bits (75), Expect = 3e-04
 Identities = 7/25 (28%), Positives = 12/25 (48%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGP 40
          K+ V  L    +  D++  F +FG 
Sbjct: 2  KLLVSNLDFGVSDADIQELFAEFGT 26

>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 = 33.1 bits (75), Expect = 3e-04
 Identities = 12/25 (48%), Positives = 20/25 (80%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQF 38
           +K+F+GGLS  TT E ++++FEQ+
Sbjct: 6  LRKLFIGGLSFETTDESLRSHFEQW 30

>d2cpja1 d.58.7.1 (A:65-150) Non-POU domain-containing octamer-binding protein, NonO {Mouse (Mus musculus) [TaxId: 10090]} Length = 86

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Non-POU domain-containing octamer-binding protein, NonO
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 33.0 bits (75), Expect = 3e-04
 Identities = 10/43 (23%), Positives = 20/43 (46%)

Query: 9  QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIF 51
          +  T+  ++FVG L    T E+++  FE++G        +   
Sbjct: 3  KTFTQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHKDKG 45

>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 = 33.4 bits (76), Expect = 4e-04
 Identities = 6/36 (16%), Positives = 16/36 (44%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
           + +++  L    T E++ + F ++GP+        
Sbjct: 7  NRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGNT 42

>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 = 32.8 bits (74), Expect = 4e-04
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
          KKIFVGG+   T    +++YFEQ+G +     
Sbjct: 3  KKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEI 34

>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 = 32.8 bits (74), Expect = 4e-04
 Identities = 5/27 (18%), Positives = 14/27 (51%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGPV 41
          ++++VG +    T E + ++F     +
Sbjct: 2  RRLYVGNIPFGITEEAMMDFFNAQMRL 28

>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 = 32.3 bits (73), Expect = 4e-04
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
          K+F+GGLS  TT +D+K+YF +FG V     
Sbjct: 1  KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTL 31

>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 = 32.7 bits (74), Expect = 5e-04
 Identities = 9/36 (25%), Positives = 13/36 (36%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
             I V  LS  T   D++  F  FG +      + 
Sbjct: 8  NATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKD 43

>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 = 32.9 bits (75), Expect = 5e-04
 Identities = 7/29 (24%), Positives = 16/29 (55%), Gaps = 1/29 (3%)

Query: 14 TKKIFVGGLSAPTTLE-DVKNYFEQFGPV 41
            ++F+G L+     + DV+  F ++G +
Sbjct: 15 NSRVFIGNLNTLVVKKSDVEAIFSKYGKI 43

>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 = 32.3 bits (73), Expect = 6e-04
 Identities = 7/41 (17%), Positives = 15/41 (36%)

Query: 8  SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
             ++  K ++V  L   T+ E ++  F    P       +
Sbjct: 2  EDTMSSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK 42

>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 = 32.0 bits (72), Expect = 7e-04
 Identities = 7/27 (25%), Positives = 12/27 (44%)

Query: 17 IFVGGLSAPTTLEDVKNYFEQFGPVYY 43
          IF+G L      + + + F  FG +  
Sbjct: 1  IFIGNLDPEIDEKLLYDTFSAFGVILQ 27

>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 = 32.4 bits (73), Expect = 7e-04
 Identities = 4/31 (12%), Positives = 11/31 (35%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTAC 46
          ++F+GG+      E++     +         
Sbjct: 3  RLFIGGIPKMKKREEILEEIAKVTEGVLDVI 33

>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 = 32.0 bits (72), Expect = 8e-04
 Identities = 9/44 (20%), Positives = 18/44 (40%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISP 55
           + + +++ G     TL+D+K + E  G V      R +     
Sbjct: 4  VKNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHKAFK 47

>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 = 32.0 bits (72), Expect = 0.001
 Identities = 7/33 (21%), Positives = 16/33 (48%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR 48
          +I+VG L      +D+++ F ++G +       
Sbjct: 16 RIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKN 48

>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 = 31.9 bits (72), Expect = 0.001
 Identities = 8/39 (20%), Positives = 18/39 (46%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFG 52
          +  +FVG  +   T ++++ +F Q+G V      +    
Sbjct: 5  SSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPKPFRA 43

>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 = 31.6 bits (71), Expect = 0.001
 Identities = 7/26 (26%), Positives = 13/26 (50%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPV 41
          K+++G LS   T +D++  F      
Sbjct: 3  KLYIGNLSPAVTADDLRQLFGDRKLP 28

>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 = 31.6 bits (71), Expect = 0.001
 Identities = 9/26 (34%), Positives = 13/26 (50%)

Query: 15 KKIFVGGLSAPTTLEDVKNYFEQFGP 40
          + ++VG LS   T   +   F Q GP
Sbjct: 9  RTLYVGNLSRDVTEVLILQLFSQIGP 34

>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 = 31.2 bits (70), Expect = 0.002
 Identities = 9/36 (25%), Positives = 18/36 (50%)

Query: 14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
          + ++FV  LS  ++ ED++  F  +GP+        
Sbjct: 8  SGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPID 43

>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 = 30.8 bits (69), Expect = 0.002
 Identities = 7/34 (20%), Positives = 12/34 (35%)

Query: 16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF 49
           + V  L    T E+ ++ F   G +      R 
Sbjct: 4  NLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVRD 37

>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 = 30.8 bits (69), Expect = 0.002
 Identities = 6/32 (18%), Positives = 12/32 (37%)

Query: 12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY 43
          +    IF+  L      + + + F  FG +  
Sbjct: 6  SGVGNIFIKNLDKSIDNKALYDTFSAFGNILS 37

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	60
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.6
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	99.58
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	99.57
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.57
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	99.56
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	99.54
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	99.54
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.51
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.5
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.5
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.48
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.48
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	99.47
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.46
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.46
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.46
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	99.46
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	99.46
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.46
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	99.46
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	99.45
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	99.45
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.45
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	99.45
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.43
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.42
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.42
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	99.41
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.41
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	99.41
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.4
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	99.39
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	99.39
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.39
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.39
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.39
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.38
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	99.38
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	99.38
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.36
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	99.36
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.35
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.35
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.35
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.34
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.33
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.33
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	99.32
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	99.31
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	99.29
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	99.29
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	99.29
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	99.29
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	99.28
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.28
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.27
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.27
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	99.27
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.25
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.25
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.24
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	99.23
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	99.22
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	99.21
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	99.2
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.19
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	99.19
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	99.18
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	99.14
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.13
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.13
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	99.13
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.09
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	99.06
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	99.06
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	99.06
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.06
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	99.02
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	99.02
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.0
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.93
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.93
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.78
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.76
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	97.98
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	97.5
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	96.83
d1uw4a_	91	RNA processing protein UPF3x, RRM domain {Human (H	94.8
d1whva_	100	Poly(A)-specific ribonuclease PARN {Mouse (Mus mus	94.46

>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=99.60  E-value=8.7e-16  Score=82.85  Aligned_cols=50  Identities=34%  Similarity=0.527  Sum_probs=42.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+...+|||+|||+++|+++|+++|++||+|.+|.|++ +....++||||
T Consensus         4 ~~~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~-d~~tg~srG~a   53 (90)
T d2cqga1           4 AVQKTSDLIVLGLPWKTTEQDLKEYFSTFGEVLMVQVKK-DLKTGHSKGFG   53 (90)
T ss_dssp             CCCCCCCEEEESCCSSCCHHHHHHHHGGGSCEEEEEEEE-CSSSCSEEEEE
T ss_pred             CCcCCCeEEEECCCCCCCHHHHHHHHHhhcccceeeecc-CCCCcccCCEE
Confidence            345678899999999999999999999999999999998 34455677775

>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=99.58  E-value=6.7e-16  Score=81.00  Aligned_cols=44  Identities=36%  Similarity=0.496  Sum_probs=38.7

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ||||||||+++|+++|+++|++||+|.+|.+.+ +.....+||||
T Consensus         1 klfVgnLp~~~te~~l~~~F~~~G~I~~v~i~~-d~~t~~~rG~~   44 (75)
T d1x0fa1           1 KIFVGGLSPDTPEEKIREYFGGFGEVESIELPM-DNKTNKRRGFC   44 (75)
T ss_dssp             EEEEESCCSSCCHHHHHHHHHHHSCEEEEECCC-CTTTCCTTCCE
T ss_pred             CEEEcCCCCCCCHHHHHHHHHHhCCcccccccc-cccccccccEE
Confidence            799999999999999999999999999999887 44455677875

>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=99.57  E-value=3.1e-15  Score=82.01  Aligned_cols=52  Identities=35%  Similarity=0.440  Sum_probs=43.0

Q ss_pred             ccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           8 SQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         8 ~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++.+...++|||||||+.+++++|+++|++||+|.+|.++++ .....+||||
T Consensus         4 ~~~d~~~~~lfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d-~~tg~~kg~a   55 (103)
T d2cqda1           4 SQKDTTFTKIFVGGLPYHTTDASLRKYFEGFGDIEEAVVITD-RQTGKSRGYG   55 (103)
T ss_dssp             CCCSCSSSEEEEECCCSSCCHHHHHHHHHTTSCEEEEEESCC-SSSCCCCSEE
T ss_pred             CCCCCCCcEEEEeCCCCcCcHHHHHHHHhhcccccceecccc-ccccccCCeE
Confidence            455566789999999999999999999999999999999873 3334567765

>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=99.57  E-value=1.6e-15  Score=80.64  Aligned_cols=49  Identities=33%  Similarity=0.485  Sum_probs=40.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.+.++|||||||+++++++|+++|++||+|.++.+.+ +.....+||||
T Consensus         3 pe~~~~lfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~-d~~tg~~kG~a   51 (84)
T d1l3ka1           3 PEQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMR-DPNTKRSRGFG   51 (84)
T ss_dssp             CGGGGEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCCCcEEEEECCCCCCCHHHHHHHHHhhccccceeecc-cccCCCcccEE
Confidence            34568999999999999999999999999999999887 33344567765

>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=99.56  E-value=1.2e-15  Score=80.16  Aligned_cols=45  Identities=40%  Similarity=0.533  Sum_probs=39.3

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +||||+|||+++++++|+++|++||+|.++.+.+ +.....+||||
T Consensus         1 cklfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~-d~~tg~~kG~a   45 (77)
T d1uawa_           1 CKMFIGGLSWQTTQEGLREYFGQFGEVKECLVMR-DPLTKRSRGFG   45 (77)
T ss_dssp             CCEEEESCCSSCCSHHHHHHHTTTSCCCCEEEEC-CCCSSSCSSEE
T ss_pred             CEEEEeCCCCcCCHHHHHHHHHHhCCcceeeeec-ccCCCCccceE
Confidence            5899999999999999999999999999999988 44445677875

>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=99.54  E-value=3e-15  Score=82.45  Aligned_cols=47  Identities=36%  Similarity=0.586  Sum_probs=39.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||||||+++++++|+++|++||+|.++.|.+ +.....+||||
T Consensus        19 ~~~~lfVgnLp~~~te~~L~~~F~~~G~i~~~~i~~-d~~~~~~kg~a   65 (103)
T d1x4ba1          19 QFRKLFIGGLSFETTEESLRNYYEQWGKLTDCVVMR-DPASKRSRGFG   65 (103)
T ss_dssp             HHTEEEEECCTTCCCHHHHHHHHTSSCCCSEEEEEC-CTTTSSCCSEE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHhhCcccceeecc-cccCCCccCeE
Confidence            457899999999999999999999999999999987 33334567775

>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=99.54  E-value=4e-15  Score=77.58  Aligned_cols=44  Identities=39%  Similarity=0.572  Sum_probs=38.3

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ||||||||+++++++|+++|++||+|.++.+.+ +.....+||||
T Consensus         1 klfV~nl~~~~te~~l~~~F~~~G~i~~~~i~~-d~~t~~~kg~a   44 (75)
T d1hd0a_           1 KMFIGGLSWDTTKKDLKDYFSKFGEVVDCTLKL-DPITGRSRGFG   44 (75)
T ss_dssp             CEEEECCCTTCCHHHHHHHHHTTSCEEEEECCC-BTTTTBCCSEE
T ss_pred             CEEEeCCCCcCCHHHHHHHHHhhcccccccccc-CCCCCCcCceE
Confidence            699999999999999999999999999999887 44445677775

>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=99.51  E-value=1.5e-14  Score=75.44  Aligned_cols=46  Identities=33%  Similarity=0.554  Sum_probs=39.0

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||||||+++|+++|+++|++||.|..+.+.. ......++|||
T Consensus         2 ~r~lfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~-~~~~~~~~g~a   47 (79)
T d1l3ka2           2 VKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMT-DRGSGKKRGFA   47 (79)
T ss_dssp             CSEEEEECCTTTCCHHHHHHHHTTTSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCEEEECCCCCcCCHHHHHHHHHHhcccccccccc-CCCCcccccEE
Confidence            57999999999999999999999999999988776 44445566664

>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=99.50  E-value=2e-14  Score=77.61  Aligned_cols=49  Identities=20%  Similarity=0.415  Sum_probs=42.3

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....+|||+|||+++++++|+++|++||+|.+|.++++......+||||
T Consensus         6 ~~~~~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~a   54 (94)
T d2cpha1           6 QTTSKILVRNIPFQANQREIRELFSTFGELKTVRLPKKMTGTGAHRGFG   54 (94)
T ss_dssp             SCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHhCCceEEEEEeccccCCCcccEE
Confidence            4567899999999999999999999999999999987555556778875

>d1fxla2 d.58.7.1 (A:119-203) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.50  E-value=1.7e-14  Score=76.57  Aligned_cols=47  Identities=19%  Similarity=0.333  Sum_probs=38.8

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++|||||||+++++++|+++|++||+|.++.++++ .....+||||
T Consensus         5 k~~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~i~~d-~~~g~~kg~a   51 (85)
T d1fxla2           5 RDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILVD-QVTGVSRGVG   51 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCccccccccc-cccccCCCee
Confidence            4568999999999999999999999999999999873 2233456664

>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=99.48  E-value=4.8e-14  Score=75.94  Aligned_cols=48  Identities=23%  Similarity=0.329  Sum_probs=40.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||||||+++++++|+++|++||+|.++.+++ ......+||||
T Consensus         7 ~~~~tlfV~nLp~~~t~~~l~~~F~~~G~v~~v~~~~-d~~tg~~kg~a   54 (93)
T d1x5ua1           7 NQDATVYVGGLDEKVSEPLLWELFLQAGPVVNTHMPK-DRVTGQHQGYG   54 (93)
T ss_dssp             CTTTEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCB-CSSSCSBCSCE
T ss_pred             CCCCEEEEeCCCCcCCHHHHHHHHHHhCCccccceee-cccccccccce
Confidence            3457899999999999999999999999999998887 44445677775

>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=99.48  E-value=3.5e-14  Score=76.96  Aligned_cols=48  Identities=23%  Similarity=0.332  Sum_probs=40.1

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||+|.++.+.+ +.....+||||
T Consensus         6 ~~~~~lfV~nL~~~~t~~~l~~~F~~~g~v~~v~i~~-d~~tg~~~g~a   53 (99)
T d1whwa_           6 SGSGRLFVRNLSYTSSEEDLEKLFSAYGPLSELHYPI-DSLTKKPKGFA   53 (99)
T ss_dssp             CSCEEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCC-CTTTCCCCSEE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHHHHhcCCceeeeecc-cccccccCcce
Confidence            4567899999999999999999999999999998887 33444566664

>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=99.47  E-value=2.4e-14  Score=76.47  Aligned_cols=48  Identities=19%  Similarity=0.312  Sum_probs=39.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+.|||||||+++++++|+++|++||+|.++.+.++ .-...+||||
T Consensus         3 ~~~~tlfV~nLp~~~te~~l~~~F~~~G~i~~v~i~~d-~~~~~~kg~a   50 (89)
T d2cqba1           3 TTKRVLYVGGLAEEVDDKVLHAAFIPFGDITDIQIPLD-YETEKHRGFA   50 (89)
T ss_dssp             CCCSCEEEESCCSSCCHHHHHHHHTTTSCCCCEECCCC-SSSCCCSSEE
T ss_pred             CCCcEEEEeCCCCcCCHHHHHHHHhhCCeEEecccccc-ccccccccee
Confidence            34578999999999999999999999999999998873 3344567765

>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=99.46  E-value=5.1e-14  Score=73.72  Aligned_cols=46  Identities=17%  Similarity=0.195  Sum_probs=38.6

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||+|||+++++++|+++|++||+|.++.+.+ .....+.||||
T Consensus         2 ~t~l~V~nLp~~~te~~l~~~f~~~G~v~~v~i~~-~~~~~~~~g~a   47 (82)
T d1fxla1           2 KTNLIVNYLPQNMTQEEFRSLFGSIGEIESCKLVR-DKITGQSLGYG   47 (82)
T ss_dssp             CSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHhCCccccccee-eccCCCceeeE
Confidence            35799999999999999999999999999998887 34444666664

>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=99.46  E-value=6.2e-14  Score=73.81  Aligned_cols=47  Identities=23%  Similarity=0.214  Sum_probs=38.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+.|||+|||+++++++|+++|++||.|.++.+.++ .-..++||||
T Consensus         8 ~~~~l~V~nL~~~~te~~l~~~F~~~G~i~~v~i~~~-~~~~~~~g~a   54 (83)
T d2cqca1           8 PNCCLGVFGLSLYTTERDLREVFSKYGPIADVSIVYD-QQSRRSRGFA   54 (83)
T ss_dssp             GGGCEEEESCCSSCCHHHHHHHHHTTSCEEEEEEEEC-SSSSSEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHHhCCCcccccccc-ccccccccce
Confidence            4568999999999999999999999999999988873 2233556664

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=3.2e-14  Score=75.59  Aligned_cols=45  Identities=24%  Similarity=0.392  Sum_probs=37.9

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .||||||||+.+++++|+++|++||+|.++.++++ .-...+||||
T Consensus         2 ~rlfV~nlp~~~te~~l~~~F~~~G~v~~v~i~~d-~~tg~~rg~a   46 (85)
T d2u2fa_           2 HKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVKD-SATGLSKGYA   46 (85)
T ss_dssp             CCEEEETCCSSCCSHHHHHHHTSSSCEEEEEEECC-CSSSCCCCEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHhcCccceEEeecc-ccccccceeE
Confidence            47999999999999999999999999999999874 3333556664

>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=99.46  E-value=6.5e-14  Score=75.21  Aligned_cols=50  Identities=24%  Similarity=0.266  Sum_probs=40.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+.++|||||||+++++++|+++|++||.|.++.+.. ......+||||
T Consensus         4 ~~~~~~tlfV~nLp~~~te~~l~~~f~~~G~v~~~~~~~-~~~~~~~~g~a   53 (98)
T d1x4ha1           4 DVTEGKTVFIRNLSFDSEEEALGEVLQQFGDLKYVRVVL-HPDTEHSKGCA   53 (98)
T ss_dssp             CCCCCCCEEEESCCTTCCHHHHHHHHHTTSCEEEEECCB-CSSSCCBCSEE
T ss_pred             CCCCCCEEEEcCCCCcCCHHHHHHHHhccccceeeeecc-ccccccccceE
Confidence            344567899999999999999999999999999888776 33444566665

>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=99.46  E-value=4.9e-14  Score=77.16  Aligned_cols=46  Identities=17%  Similarity=0.210  Sum_probs=39.4

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||||||+++++++|+++|++||+|.+|.+.+ ......+||||
T Consensus        18 ~~tifV~nL~~~~te~~l~~~F~~~G~V~~v~i~~-d~~tg~~kG~a   63 (101)
T d2cq4a1          18 ARTVFCMQLAARIRPRDLEDFFSAVGKVRDVRIIS-DRNSRRSKGIA   63 (101)
T ss_dssp             HTEEEEESCCTTCCHHHHHHHHTTTSCEEEEEECC-SCCSSSCCCCE
T ss_pred             CCEEEEECCCCCCCHHHHHHHHcCCCeEEEEEeee-cCCCccccceE
Confidence            46799999999999999999999999999999988 33334667775

>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=99.46  E-value=6.4e-14  Score=75.44  Aligned_cols=48  Identities=21%  Similarity=0.181  Sum_probs=40.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||||||+++++++|+++|++||+|.+|.+++ ......+||||
T Consensus         5 ~~s~tlfV~nlp~~~te~~l~~~F~~~G~i~~v~i~~-~~~~~~~kg~a   52 (93)
T d1h2vz_           5 KKSCTLYVGNLSFYTTEEQIYELFSKSGDIKKIIMGL-DKMKKTACGFC   52 (93)
T ss_dssp             TTCCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHHCCcceecccc-ccccccccceE
Confidence            4567999999999999999999999999999999887 33344566664

>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=99.46  E-value=4.4e-14  Score=75.27  Aligned_cols=48  Identities=25%  Similarity=0.439  Sum_probs=39.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+||||||||+++++++|+++|++||+|.++.+.+ ......++|||
T Consensus         3 ~~~~kifV~nLp~~~t~~~l~~~F~~~G~i~~~~~~~-~~~~~~~~g~a   50 (90)
T d1x5sa1           3 SDEGKLFVGGLSFDTNEQSLEQVFSKYGQISEVVVVK-DRETQRSRGFG   50 (90)
T ss_dssp             CCCSEEEEESCCTTCCHHHHHHHHHHHSCCCEEEECC-CSSSCSCCSEE
T ss_pred             CCCCEEEEECCCCcCCHHHHHHhhhccccccceeecc-ccccccccceE
Confidence            4567899999999999999999999999999988776 33334456664

>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=99.45  E-value=7.2e-14  Score=73.91  Aligned_cols=47  Identities=13%  Similarity=0.213  Sum_probs=39.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus         5 ~~t~lfV~nlp~~~te~~l~~~F~~~G~i~~~~~~~d-~~~g~~~g~a   51 (85)
T d1b7fa2           5 KDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILRD-KLTGRPRGVA   51 (85)
T ss_dssp             TTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhCCEeeeeeecc-cccccCceeE
Confidence            4567999999999999999999999999999998873 2334556664

>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=99.45  E-value=5.1e-14  Score=74.98  Aligned_cols=37  Identities=27%  Similarity=0.520  Sum_probs=34.3

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+.++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus         6 ~~~~~l~V~nLp~~~~~~~l~~~F~~~G~i~~i~~~~   42 (86)
T d2cpja1           6 TQRSRLFVGNLPPDITEEEMRKLFEKYGKAGEVFIHK   42 (86)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHHTSTTCCCSEEEEET
T ss_pred             cCCCEEEEECCCCCCCHHHHHHHHHHhCCceEeeeec
Confidence            3456899999999999999999999999999999988

>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=99.45  E-value=1.1e-13  Score=74.47  Aligned_cols=49  Identities=22%  Similarity=0.297  Sum_probs=40.5

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......++|||+|||+++++++|+++|++||+|.+|.+.++..+   +||||
T Consensus         6 ~~~~~~~~l~v~nLp~~~t~~~L~~~F~~~G~v~~v~~~~~~~~---~kg~a   54 (93)
T d2cq3a1           6 ESKSTPKRLHVSNIPFRFRDPDLRQMFGQFGKILDVEIIFNERG---SKGFG   54 (93)
T ss_dssp             CCSCCCCEEEEESCCTTCCHHHHHHHGGGTSCEEEEEEECCTTT---TCCEE
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHhhcceeeeccccccccC---Cccee
Confidence            34455678999999999999999999999999999998875433   46664

>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=99.45  E-value=6.5e-14  Score=74.68  Aligned_cols=37  Identities=22%  Similarity=0.495  Sum_probs=33.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||+|.+|.+..
T Consensus         3 ~~s~~lfV~nLp~~~te~~L~~~F~~~G~v~~v~~~~   39 (88)
T d1wf0a_           3 SGSSGVFVGRCTGDMTEDELREFFSQYGDVMDVFIPK   39 (88)
T ss_dssp             SCCCEEEEESCCSSSCHHHHHHHSTTTSCCCEEECCS
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHHcCCceEEEEee
Confidence            3467999999999999999999999999999987765

>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=99.43  E-value=8.6e-14  Score=72.92  Aligned_cols=46  Identities=15%  Similarity=0.217  Sum_probs=37.7

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .++|||+|||+++++++|+++|++||+|.++.+.++ .-...+||||
T Consensus         2 ~t~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~-~~~g~~~g~a   47 (82)
T d1b7fa1           2 NTNLIVNYLPQDMTDRELYALFRAIGPINTCRIMRD-YKTGYSYGYA   47 (82)
T ss_dssp             CSEEEEECCCTTCCHHHHHHHHHTTSCEEEEECCEE-TTTTEECSEE
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHhCCcceeeeeee-cccCCccccc
Confidence            457999999999999999999999999999988873 2333456654

>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=99.42  E-value=8.9e-14  Score=72.70  Aligned_cols=44  Identities=20%  Similarity=0.249  Sum_probs=37.7

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .||||+|||+++++++|+++|++||+|.++.+..+..|  +++|||
T Consensus         1 grl~V~nLp~~~~~~~l~~~F~~~G~v~~~~i~~~~~g--~~~g~a   44 (78)
T d1no8a_           1 GKLLVSNLDFGVSDADIQELFAEFGTLKKAAVHYDRSG--RSLGTA   44 (78)
T ss_dssp             CEEEEESCCTTCCHHHHHHHHHHHSCEEEEEESCSSCC--CSCCEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeecc--ccceeE
Confidence            48999999999999999999999999999999875443  456664

>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=99.42  E-value=1.3e-13  Score=72.24  Aligned_cols=44  Identities=18%  Similarity=0.236  Sum_probs=37.1

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .|||||||+++++++|+++|++||+|.++.++++ ....+++|||
T Consensus         2 slfV~nL~~~~te~~l~~~F~~~G~i~~v~i~~d-~~tg~~~g~a   45 (80)
T d1cvja1           2 SLYVGDLHPDVTEAMLYEKFSPAGPILSIRVCRD-MITRRSLGYA   45 (80)
T ss_dssp             EEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             EEEEeCCCCcCCHHHHHHHHHHhCCEeEEEEEec-ccccCCCCce
Confidence            5899999999999999999999999999999973 3334556664

>d1u6fa1 d.58.7.1 (A:1-139) RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein UBP1
species: Trypanosoma cruzi [TaxId: 5693]

Probab=99.41  E-value=1.1e-13  Score=78.63  Aligned_cols=47  Identities=13%  Similarity=0.266  Sum_probs=38.1

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||||||+++++++|+++|++||+|.+|.|.++ .....+||||
T Consensus        41 ~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d-~~t~~~rg~a   87 (139)
T d1u6fa1          41 VLRNLMVNYIPTTVDEVQLRQLFERYGPIESVKIVCD-RETRQSRGYG   87 (139)
T ss_dssp             TTSEEEEESCSTTCCHHHHHHHHHHHSCEEEEEEEEE-TTTTEEEEEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhhccccccccccc-ccccccccee
Confidence            3457999999999999999999999999999998872 3333455554

>d2cpfa1 d.58.7.1 (A:362-446) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=1.5e-13  Score=72.44  Aligned_cols=44  Identities=23%  Similarity=0.298  Sum_probs=36.4

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCC--CCccccC
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI--SPVKNFG   60 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~--~~~k~fg   60 (60)
                      |||+|||+++++++|+++|++||+|.++.+.++...-  .++||||
T Consensus         1 LfV~nLp~~~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~a   46 (85)
T d2cpfa1           1 LFIKNLNFSTTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFG   46 (85)
T ss_dssp             EEEESCCTTCCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEE
T ss_pred             CEEcCCCCCCCHHHHHHHHHHhCCccccceecccccccccccceEE
Confidence            7999999999999999999999999999988754322  2456664

>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=99.41  E-value=1e-13  Score=71.42  Aligned_cols=44  Identities=52%  Similarity=0.675  Sum_probs=36.0

Q ss_pred             eEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          16 KIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        16 klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ||||||||+++++++|+++|++||.|.++.+.. .......++||
T Consensus         1 rlfV~nLp~~~te~~l~~~F~~~G~i~~~~~~~-~~~~~~~~~~a   44 (75)
T d2msta_           1 KIFVGGLSVNTTVEDVKHYFEQFGKVDDAMLMF-DKTTNRHRGFG   44 (75)
T ss_dssp             CEEEECCCSSCCHHHHHHHHHTTSCCSEECCBC-CTTCTTSCCEE
T ss_pred             CEEEeCCCCCCCHHHHHHHHHHhCCcceeeeee-eccccccCcee
Confidence            699999999999999999999999999887766 33334455554

>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=99.40  E-value=2.3e-13  Score=72.45  Aligned_cols=49  Identities=10%  Similarity=0.153  Sum_probs=39.1

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..+...|||+|||+++++++|+++|++||+|.++.+.++ .....+||||
T Consensus         4 s~~~~~l~V~nL~~~~t~~~l~~~F~~~G~i~~v~i~~d-~~tg~~~g~a   52 (88)
T d1rk8a_           4 SVEGWILFVTSIHEEAQEDEIQEKFCDYGEIKNIHLNLD-RRTGFSKGYA   52 (88)
T ss_dssp             CC-CEEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEC-TTTSSEEEEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHHHcCCccccccccc-ccccccccce
Confidence            344568999999999999999999999999999988873 3334556654

>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=99.39  E-value=1.1e-13  Score=74.68  Aligned_cols=46  Identities=13%  Similarity=0.189  Sum_probs=41.1

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCc-eeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGP-VYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~-V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||||||.++++++|+++|++||+ |.++.+.++..+..++||||
T Consensus         2 ~rLyV~nLp~~~te~~l~~~f~~~g~~i~~v~~~~~~~~~~~~rg~a   48 (96)
T d2disa1           2 CRLFIGGIPKMKKREEILEEIAKVTEGVLDVIVYASAADKMKNRGFA   48 (96)
T ss_dssp             EEEEEECCCTTSCHHHHHHHHHHHSTTEEEEECCSSSCTTTTTCCEE
T ss_pred             CEEEEcCCCCcCCHHHHHHHHHHhCCcceEEEEeeeccccccCCCeE
Confidence            58999999999999999999999996 89999988666777788876

>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=99.39  E-value=1e-13  Score=75.61  Aligned_cols=47  Identities=26%  Similarity=0.378  Sum_probs=37.7

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||+++++++|+++|++||+|.+|.++++. -...+||||
T Consensus         7 ~~rtl~V~nLp~~~te~~l~~~f~~~G~i~~v~i~~~~-~tg~~~g~a   53 (104)
T d1p1ta_           7 SLRSVFVGNIPYEATEEQLKDIFSEVGPVVSFRLVYDR-ETGKPKGYG   53 (104)
T ss_dssp             HHSCEEEESCCTTSCHHHHHHHHHTTSCCSEEEEEEET-TTTEEEEEE
T ss_pred             CCCEEEEECCCCcCCHHHHHHhhhcccccccccccccc-ceeccCCce
Confidence            45689999999999999999999999999999988732 122345553

>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=99.39  E-value=3.9e-13  Score=73.29  Aligned_cols=48  Identities=21%  Similarity=0.173  Sum_probs=38.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +...+|||+|||+++++++|+++|++||.|.++.+..+ .-..++||||
T Consensus        16 p~~~~l~V~nLp~~~te~~l~~~F~~~G~i~~~~~~~~-~~~g~~kG~a   63 (102)
T d2cpza1          16 PEGANLFIYHLPQEFGDQDLLQMFMPFGNVVSAKVFID-KQTNLSKCFG   63 (102)
T ss_dssp             STTCCEEEESCCSSCCHHHHHHHHGGGSCCSEEEEEEC-SSSCSEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHHhhccccccceeee-cccCCCccce
Confidence            34578999999999999999999999999999988762 2233456654

>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=99.39  E-value=2.1e-13  Score=72.67  Aligned_cols=45  Identities=20%  Similarity=0.293  Sum_probs=38.0

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+++++++|+++|++||.|.++.+..+..+   +||||
T Consensus         7 ~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~i~~~~~~---~kg~a   51 (89)
T d1cvja2           7 GVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKVVCDENG---SKGYG   51 (89)
T ss_dssp             TTTEEEEESCCSSCCHHHHHHHHHTTSCEEEEEECCBTTB---CCSCE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEeecCC---Cccee
Confidence            4567999999999999999999999999999998884332   56664

>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=99.39  E-value=1e-13  Score=73.66  Aligned_cols=46  Identities=22%  Similarity=0.445  Sum_probs=38.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++|||+|||+++|+++|+++|++||+|.++.+.++..|  ++||||
T Consensus         5 ~~rtvfV~nlp~~~te~~l~~~F~~~G~v~~v~l~~~~~~--~~kG~a   50 (85)
T d1zh5a2           5 KNRSVYIKGFPTDATLDDIKEWLEDKGQVLNIQMRRTLHK--AFKGSI   50 (85)
T ss_dssp             HTTEEEEECCCTTCCHHHHHHHHTTSCCEEEEEEEECTTC--CEEEEE
T ss_pred             CcCEEEEECCCCCCCHHHHHHHHHHhcccccceeeeeccC--CcceEE
Confidence            4578999999999999999999999999999988774433  456665

>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=99.38  E-value=3.7e-13  Score=71.85  Aligned_cols=38  Identities=24%  Similarity=0.294  Sum_probs=34.5

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~   49 (60)
                      ...++|||||||+++++++|+++|++||+|.++.+.++
T Consensus         6 ~~~~tl~V~nLp~~~te~~l~~~F~~~G~i~~v~i~~d   43 (90)
T d2cqia1           6 GQPRTLYVGNLSRDVTEVLILQLFSQIGPCKSCKMITE   43 (90)
T ss_dssp             CCCCEEEEESCCTTCCHHHHHHHHHHHSCEEEEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHhcCCceeeeeecc
Confidence            44678999999999999999999999999999988774

>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=99.38  E-value=2.4e-13  Score=72.59  Aligned_cols=50  Identities=22%  Similarity=0.244  Sum_probs=40.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .....++|||+|||+++++++|+++|++||+|.++.+.++. -...+||||
T Consensus         4 ~~~~~~~i~V~nLp~~~t~~~l~~~f~~~G~v~~v~i~~d~-~t~~~rg~a   53 (90)
T d2cq0a1           4 RADDNATIRVTNLSEDTRETDLQELFRPFGSISRIYLAKDK-TTGQSKGFA   53 (90)
T ss_dssp             CCSSSEEEEEESCCTTCCHHHHHTTSTTTCCEEEEEEEECS-SSCSEEEEE
T ss_pred             CCCCCCEEEEECCCCCCCHHHHHHHHHHhcccccccccccc-cccccccce
Confidence            33456789999999999999999999999999999988732 233456654

>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=99.38  E-value=1.9e-13  Score=74.03  Aligned_cols=42  Identities=17%  Similarity=0.355  Sum_probs=37.5

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +..++|||+|||.++++++|+++|++||+|.+|.+.+       +||||
T Consensus        16 ~~~~~l~v~nL~~~~te~~L~~~F~~fG~i~~v~i~~-------~kg~a   57 (96)
T d1x4ga1          16 PKNCTVYCGGIASGLTDQLMRQTFSPFGQIMEIRVFP-------EKGYS   57 (96)
T ss_dssp             SSCCEEEEECCSSCCCHHHHHHHHHHHSCEEEEEEET-------TTTEE
T ss_pred             CCCCEEEEcCCCCCCCHHHHHHHHHHhCCceEEEEEe-------cceEE
Confidence            4457899999999999999999999999999999988       66664

>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=99.36  E-value=3.5e-13  Score=73.65  Aligned_cols=40  Identities=18%  Similarity=0.187  Sum_probs=35.7

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+.|||+|||+++++++|+++|++||+|.+|.+.+       .||||
T Consensus        10 ~~~l~V~nLp~~~t~~~L~~~F~~fG~I~~v~l~~-------~kg~a   49 (111)
T d1whxa_          10 KTVILAKNLPAGTLAAEIQETFSRFGSLGRVLLPE-------GGITA   49 (111)
T ss_dssp             EEEEEEESCCTTCCHHHHHHHHHTTSCEEEEECCS-------SSSCE
T ss_pred             CCEEEEECCCCCCCHHHHHhhhhccCCccEEEeec-------cCceE
Confidence            46799999999999999999999999999998876       66664

>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=99.36  E-value=6e-13  Score=72.34  Aligned_cols=47  Identities=17%  Similarity=0.304  Sum_probs=38.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...++|||+|||+++++++|+++|++||+|.++.+..+..  .+++|||
T Consensus        16 ~~~~~lfV~nLp~~~te~~L~~~F~~~G~i~~~~~~~~~~--~~~~g~a   62 (101)
T d1x5oa1          16 QDPTNLYISNLPLSMDEQELENMLKPFGQVISTRILRDSS--GTSRGVG   62 (101)
T ss_dssp             CCTTEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEEECSS--SCEEEEE
T ss_pred             CCCCEEEEeCCCCCCCHHHHHHHHhhcccccceeeecccc--cccccce
Confidence            3457899999999999999999999999998887776432  3556664

>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=99.35  E-value=1.6e-13  Score=72.79  Aligned_cols=48  Identities=17%  Similarity=0.090  Sum_probs=36.9

Q ss_pred             CcceEEEeCCCCCCC-HHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTT-LEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~-e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      +.++|||+|||++++ +++|+++|++||+|.++.+.+......++||||
T Consensus         3 e~~~l~V~nLp~~~t~ed~l~~~F~~~G~i~~v~i~~~~~~~~~~kg~a   51 (86)
T d2ghpa3           3 EGREIMIRNLSTELLDENLLRESFEGFGSIEKINIPAGQKEHSFNNCCA   51 (86)
T ss_dssp             TTTEEEEEEECTTTCCHHHHHHHHGGGSCEEEEECCSCCC---CCCEEE
T ss_pred             CCCEEEEECCCCCcccHHHHHHHHHhhhhccceeeecccCCccccceee
Confidence            467899999999976 566999999999999998876444445667664

>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=99.35  E-value=2.9e-13  Score=78.57  Aligned_cols=48  Identities=33%  Similarity=0.507  Sum_probs=39.4

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+.++|||||||+.+++++|+++|++||.|.++.+.+ .....+++|||
T Consensus         4 ~~~r~lfV~nLp~~~te~~L~~~F~~~G~v~~~~~~~-~~~~~~~~g~a   51 (183)
T d1u1qa_           4 EQLRKLFIGGLSFETTDESLRSHFEQWGTLTDCVVMR-DPNTKRSRGFG   51 (183)
T ss_dssp             HHHHEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE-CTTTCCEEEEE
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHHHcCCEEEEEeee-cccCCCccCce
Confidence            3568999999999999999999999999999998887 33344555553

>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=99.35  E-value=1.1e-12  Score=72.20  Aligned_cols=36  Identities=17%  Similarity=0.417  Sum_probs=33.2

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+.|||+|||+++++++|+++|++||+|.+|.+..
T Consensus         6 ~~r~l~V~nLp~~~te~~l~~~F~~~G~v~~i~~~~   41 (114)
T d2f9da1           6 VNRILYIRNLPYKITAEEMYDIFGKYGPIRQIRVGN   41 (114)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHHTTSCEEEEEEEC
T ss_pred             CCCEEEEECCCCCCCHHHHHHHHhhcCCeEeecccc
Confidence            356899999999999999999999999999998875

>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=99.34  E-value=1.1e-12  Score=69.29  Aligned_cols=42  Identities=17%  Similarity=0.356  Sum_probs=36.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+.++|||+|||+.+++++|+++|++||.|..+.+.+       +||||
T Consensus         6 ~~~k~l~V~nLp~~~te~~l~~~F~~~g~i~~~~~~~-------~rg~a   47 (86)
T d2cpda1           6 SSVKILYVRNLMLSTSEEMIEKEFNNIKPGAVERVKK-------IRDYA   47 (86)
T ss_dssp             SCCCEEEEESCCTTCCHHHHHHHHHTTSTTCEEEEEE-------CSSEE
T ss_pred             cCCCEEEEcCCCCCCCHHHHHHhhcccceeeeEEEcc-------ccEEE
Confidence            3457899999999999999999999999998888877       66664

>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=99.33  E-value=1.8e-13  Score=71.88  Aligned_cols=34  Identities=21%  Similarity=0.312  Sum_probs=31.6

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+|||||||+++++++|+++|++||.|.++.+.+
T Consensus         2 n~l~V~nLp~~~te~~L~~~F~~~G~i~~~~~~~   35 (80)
T d2cqha1           2 NKLYIGNLSPAVTADDLRQLFGDRKLPLAGQVLL   35 (80)
T ss_dssp             CCEEEECCCTTCCHHHHHHHHHHTTCCCSSCEEE
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHhCcEEEeEEec
Confidence            5799999999999999999999999998877777

>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=99.33  E-value=3e-13  Score=71.91  Aligned_cols=39  Identities=26%  Similarity=0.445  Sum_probs=34.1

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGI   53 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~   53 (60)
                      .+|||||||+.+++++|+++|++||+|.++.+.++.+||
T Consensus         1 nrvfV~nlp~~~~~~~l~~~F~~~G~v~~~~i~~~g~af   39 (87)
T d3begb1           1 NRVVVSGLPPSGSWQDLKDHMREAGDVCYADVYRDGTGV   39 (87)
T ss_dssp             CCEEEEECCSSCCTTHHHHHHGGGSCEEEEEECTTSEEE
T ss_pred             CeEEEECCCCcCCHHHHHHHHhhhcccccccccccceee
Confidence            479999999999999999999999999999887743443

>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=99.32  E-value=6.8e-13  Score=68.00  Aligned_cols=43  Identities=21%  Similarity=0.335  Sum_probs=36.4

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      |||+|||+++++++|+++|++||.|.++.+.+ ......++|||
T Consensus         1 lyV~nLp~~~te~~l~~~F~~~G~v~~~~~~~-~~~~~~~~g~a   43 (72)
T d1x4ea1           1 LYIRGLQPGTTDQDLVKLCQPYGKIVSTKAIL-DKTTNKCKGYG   43 (72)
T ss_dssp             EEEESCCTTCCHHHHHTTSTTTSCEEEEEEEC-CSSSCSCCSEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhhhcccccccccc-cccccccccee
Confidence            79999999999999999999999999988877 33445566664

>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=99.31  E-value=1.9e-12  Score=69.88  Aligned_cols=36  Identities=28%  Similarity=0.557  Sum_probs=33.7

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..++|||+|||+++++++|+++|++||+|.++.+.+
T Consensus        16 Ps~tl~V~nLp~~~t~~~l~~~f~~~G~i~~~~~~~   51 (97)
T d1whya_          16 PTTRLWVGGLGPNTSLAALAREFDRFGSIRTIDHVK   51 (97)
T ss_dssp             CCSCEEEECCCSSCCHHHHHHHHHTTSCEEEEEECS
T ss_pred             CCCEEEEcCCCCCCCHHHHHHHHHhhcccceEeeec
Confidence            457899999999999999999999999999998887

>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=99.29  E-value=1.3e-12  Score=72.45  Aligned_cols=37  Identities=24%  Similarity=0.318  Sum_probs=33.8

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ......||||||+.+|+++|+++|++||+|.+|.|++
T Consensus         9 ~g~~~~fvgnL~~~~tee~Lk~~F~~fG~V~~v~i~~   45 (113)
T d1owxa_           9 IGCLLKFSGDLDDQTCREDLHILFSNHGEIKWIDFVR   45 (113)
T ss_dssp             CCCEEEEEESCCSSCCHHHHHHHTCSSCCEEEEECCT
T ss_pred             CCCeEEEECCCCCCCCHHHHHHHHHhcCChheEEEec
Confidence            3455679999999999999999999999999999998

>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=99.29  E-value=4e-12  Score=66.82  Aligned_cols=36  Identities=17%  Similarity=0.118  Sum_probs=33.4

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ..+.|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         7 P~~tl~V~nLp~~~t~~~l~~~f~~~G~i~~v~~~~   42 (83)
T d2b0ga1           7 PNQILFLTNLPEETNEMMLSMLFNQFPGFKEVRLVP   42 (83)
T ss_dssp             CCSEEEEESCCTTCCHHHHHHHHTTSTTEEEEEECT
T ss_pred             CCCEEEEECCCCCCCHHHHHhhhccCccEEEeeeec
Confidence            357899999999999999999999999999998876

>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=99.29  E-value=4e-12  Score=68.98  Aligned_cols=40  Identities=20%  Similarity=0.416  Sum_probs=35.0

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .......+|||+|||++++++||+++|++||+|.++.+.+
T Consensus        10 ~~~~~~~~i~V~Nlp~~~~~~~L~~~F~~~G~v~~~~i~~   49 (98)
T d1wg4a_          10 PTRRSDFRVLVSGLPPSGSWQDLKDHMREAGDVCYADVQK   49 (98)
T ss_dssp             CCCSCSCEEEEECCCSSCCHHHHHHHHTTSSCEEEEEEET
T ss_pred             CCCCCCCEEEEECCCCCCCHHHHHHHHHhhcccccccccc
Confidence            3344566899999999999999999999999999998876

>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=99.29  E-value=2.4e-12  Score=68.28  Aligned_cols=38  Identities=16%  Similarity=0.100  Sum_probs=34.8

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..+.|||+|||+++++++|+++|++||.|.++.+.+
T Consensus         5 ~~Ps~~l~V~nLp~~~t~~~L~~~f~~~G~i~~v~~~~   42 (88)
T d2cq1a1           5 GAPSRVLHIRKLPGEVTETEVIALGLPFGKVTNILMLK   42 (88)
T ss_dssp             SSCCSEEEEESCCTTCCHHHHHHTTTTTSCEEEEEEET
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHHHhcccccccccccc
Confidence            34567899999999999999999999999999998887

>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=99.28  E-value=4.9e-12  Score=68.61  Aligned_cols=47  Identities=23%  Similarity=0.330  Sum_probs=36.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+|||+|||+++++++|+++|++|| |.++.+.++..-....||||
T Consensus        14 p~~~v~V~nLp~~~te~~l~~~f~~~g-~~~~~~~~~~~~~g~~~g~a   60 (104)
T d1wi8a_          14 PPYTAFLGNLPYDVTEESIKEFFRGLN-ISAVRLPREPSNPERLKGFG   60 (104)
T ss_dssp             SCEEEEEESCCSSCCHHHHHHHTTTSC-EEEEECCBCSSCTTSBCSCE
T ss_pred             CCCEEEEeCCCCcCCHHHHHHHHHHhc-cccceeeeeeccCCCcceee
Confidence            457899999999999999999999999 66676666443344566664

>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=99.28  E-value=1.5e-12  Score=67.98  Aligned_cols=45  Identities=7%  Similarity=0.200  Sum_probs=33.1

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ++|||+|||+++++++|+++|++||+|..+.+..+. -...+||||
T Consensus         2 ~tl~v~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~-~~~~~~g~a   46 (81)
T d2ghpa1           2 CTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSL-RFNTSRRFA   46 (81)
T ss_dssp             CEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC--------CCEE
T ss_pred             cEEEEECCCCcCCHHHHHHHHHHhCcEEeeeeeccc-cccccccee
Confidence            589999999999999999999999999877665422 222455554

>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=99.27  E-value=1.1e-12  Score=68.82  Aligned_cols=43  Identities=23%  Similarity=0.325  Sum_probs=34.5

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEE-EEeeeecCCCCccccC
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYT-ACDRFIFGISPVKNFG   60 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v-~i~~~~~g~~~~k~fg   60 (60)
                      |||+|||+++++++|+++|++||.|.++ .+.+ ......++|||
T Consensus         1 lfV~nLp~~~te~~l~~~F~~~G~i~~~~~i~~-~~~~g~~~g~a   44 (83)
T d1x5ta1           1 IFIGNLDPEIDEKLLYDTFSAFGVILQTPKIMR-DPDTGNSKGYA   44 (83)
T ss_dssp             EEEECCCTTCCHHHHHHHHHTTSCBSSCCEECC-CTTTCSCCSEE
T ss_pred             CEEcCCCCcCcHHHHHHHHHHhCceeeeEEEEe-eccccccCceE
Confidence            7999999999999999999999999664 5555 33344567765

>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=99.27  E-value=3.4e-13  Score=72.39  Aligned_cols=49  Identities=18%  Similarity=0.253  Sum_probs=38.9

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ......+|||+|||+++++++|+++|++||.|.++.+.....|  ++||||
T Consensus         9 ~~~~~~~ifV~nL~~~~te~~l~~~F~~~G~i~~~~v~~~~~g--~~kg~a   57 (91)
T d1fjeb1           9 ESTTPFNLFIGNLNPNKSVAELKVAISELFAKNDLAVVDVRTG--TNRKFG   57 (91)
T ss_dssp             SCSSSEEEEEECCCTTSCHHHHHHHHHHHHHHHTCCCCEEEEE--TTTTEE
T ss_pred             CCCCCcEEEEeCccCcchHHHHHHHHhcCCcEEEeeeeecCCC--CccEEe
Confidence            3345568999999999999999999999999988877654444  456664

>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=99.27  E-value=5.7e-12  Score=68.66  Aligned_cols=43  Identities=23%  Similarity=0.362  Sum_probs=37.7

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .+..+.|||+|||++++|++|+++|++||.|.++.+.+       .|+||
T Consensus        12 ~~ps~~l~v~nlp~~~te~~l~~~F~~fG~I~~~~~~~-------~k~~A   54 (104)
T d1wexa_          12 VSVSPVVHVRGLCESVVEADLVEALEKFGTICYVMMMP-------FKRQA   54 (104)
T ss_dssp             CCCCSEEEEESCCSSCCHHHHHHHHTTTSCEEEEEEET-------TTTEE
T ss_pred             CCCCCEEEEeCCCCCCCHHHHHHhhhhcccceEEEEEe-------cceeE
Confidence            34567899999999999999999999999999998887       66654

>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=99.25  E-value=9.1e-12  Score=66.82  Aligned_cols=37  Identities=19%  Similarity=0.434  Sum_probs=33.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...++|||+|||+++++++|+++|++||.|..+.+..
T Consensus        12 ~~~~~l~V~nLp~~~t~~~l~~~F~~~G~v~~~~~~~   48 (95)
T d1x4aa1          12 NNDCRIYVGNLPPDIRTKDIEDVFYKYGAIRDIDLKN   48 (95)
T ss_dssp             CCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEECC
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhcCCceEEEEecc
Confidence            4456899999999999999999999999998887765

>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=99.25  E-value=2.8e-12  Score=69.65  Aligned_cols=42  Identities=17%  Similarity=0.150  Sum_probs=36.2

Q ss_pred             CCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ...+.|||+|||.+ +|+++|+++|++||.|.++.+.+       +||||
T Consensus        16 ~~~~~l~v~nLp~~~~te~~l~~~F~~fG~V~~v~~~~-------~k~~a   58 (99)
T d1x4fa1          16 ELGRVIHLSNLPHSGYSDSAVLKLAEPYGKIKNYILMR-------MKSQA   58 (99)
T ss_dssp             CCCCEEEEESCCCSSCCSHHHHTTTTTTSCCSEEEEET-------TTTEE
T ss_pred             CCCCEEEEeCCcCCccCHHHHHhhhccccceeEEEEee-------cCCcE
Confidence            34567999999986 89999999999999999999988       66664

>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=99.24  E-value=3.4e-12  Score=66.26  Aligned_cols=36  Identities=19%  Similarity=0.397  Sum_probs=32.9

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      ..+||+|||+++++++|+++|++||+|.+|.+..+.
T Consensus         1 Ttv~V~nlp~~~t~~~l~~~F~~~G~I~~v~~~~~~   36 (75)
T d2ghpa2           1 TTVLVKNLPKSYNQNKVYKYFKHCGPIIHVDVADSL   36 (75)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHGGGSCEEEEEEEECT
T ss_pred             CEEEEECCCCCCCHHHHHHHHhcCCceEEEEEEeec
Confidence            368999999999999999999999999999988744

>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=99.23  E-value=2.2e-12  Score=70.69  Aligned_cols=37  Identities=27%  Similarity=0.376  Sum_probs=33.7

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+|||+.+|+++|+++|++||.|.++.+.+
T Consensus         5 s~~~~v~V~NL~~~vte~~L~~~F~~~G~i~~~~i~~   41 (108)
T d2adba1           5 SPVLRIIVENLFYPVTLDVLHQIFSKFGTVLKIITFT   41 (108)
T ss_dssp             CCEEEEESCSCCSTTHHHHHHHHHTTTSCEEEEEEEE
T ss_pred             CCeEEEEEeCcCCCCCHHHHHHHHccCCcEEEEEEEe
Confidence            3467899999999999999999999999999988875

>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=99.22  E-value=5.2e-12  Score=65.91  Aligned_cols=35  Identities=20%  Similarity=0.326  Sum_probs=31.6

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+.++|||+||+  +|+++|+++|++||+|.++.+.+
T Consensus         3 ~~~~ti~V~~~~--~te~~L~~~F~~~G~I~~v~~~~   37 (79)
T d2bz2a1           3 RKGNTLYVYGED--MTPTLLRGAFSPFGNIIDLSMDP   37 (79)
T ss_dssp             CCCCEEEEECSS--CCHHHHHHHHSTTCCCSCEEEET
T ss_pred             CCCCEEEEECCC--CCHHHHHHHHhccCccceeeecc
Confidence            456789999996  89999999999999999999887

>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=99.21  E-value=4.7e-12  Score=68.07  Aligned_cols=39  Identities=21%  Similarity=0.266  Sum_probs=32.8

Q ss_pred             cccccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEE
Q psy7530           7 ISQMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTA   45 (60)
Q Consensus         7 ~~~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~   45 (60)
                      .++.....++|||+|||+++++++|+++|++||.|..+.
T Consensus         9 ~~~~~~~~~~l~V~nL~~~~te~~l~~~F~~~g~v~~~~   47 (96)
T d1fjca_           9 TSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVS   47 (96)
T ss_dssp             TTSTTTGGGEEEEESCCSSCCHHHHHHHHCSEEEECCEE
T ss_pred             ccCcCCCCCEEEEeCCCCCCCHHHHHHHHHhcccceeee
Confidence            344455678899999999999999999999999986654

>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=99.20  E-value=1.1e-11  Score=66.58  Aligned_cols=35  Identities=31%  Similarity=0.563  Sum_probs=31.0

Q ss_pred             cccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeE
Q psy7530           9 QMVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY   43 (60)
Q Consensus         9 ~~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~   43 (60)
                      .......+|||+|||+.+++++|+++|++||+|..
T Consensus         3 ~~~~~~~~i~V~nLp~~~te~~l~~~F~~~G~i~~   37 (101)
T d2cpea1           3 DEDSDNSAIYVQGLNDSVTLDDLADFFKQCGVVKM   37 (101)
T ss_dssp             CCCCCCCEEEEECCCTTCCHHHHHHHHTTTSCBCB
T ss_pred             CCCCCCCEEEEECCCCcCCHHHHHHHHHHCceEEE
Confidence            44566789999999999999999999999999854

>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=99.19  E-value=7.8e-12  Score=66.49  Aligned_cols=35  Identities=20%  Similarity=0.442  Sum_probs=29.5

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...+|||+|||++++++||+++|++|| +..+.+.+
T Consensus         4 ~s~~i~V~nLp~~~t~~~l~~lF~~~G-~~~~~~~~   38 (88)
T d1wg1a_           4 GSSGILVKNLPQDSNCQEVHDLLKDYD-LKYCYVDR   38 (88)
T ss_dssp             CCCCEEEESCCSSCCHHHHHHHTCSSC-CCCEEEEG
T ss_pred             CCCEEEEeCCCCccChHHHHHHHHhcC-ceeeeeec
Confidence            357899999999999999999999999 33356665

>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=99.19  E-value=1.1e-11  Score=67.33  Aligned_cols=37  Identities=16%  Similarity=0.110  Sum_probs=32.6

Q ss_pred             cceEEEeCCCC-CCCHHHHHHHHhcCCceeEEEEeeee
Q psy7530          14 TKKIFVGGLSA-PTTLEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        14 ~~klfVg~L~~-~~~e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      .+.|||+||++ .+++++|+++|++||+|.+|.|+++.
T Consensus         2 ~~~l~V~nL~p~~~te~~L~~~F~~fG~I~~v~i~~~~   39 (109)
T d2adca1           2 NSVLLVSNLNPERVTPQSLFILFGVYGDVQRVKILFNK   39 (109)
T ss_dssp             CSEEEEESCCTTTCCHHHHHHHHHHHTCEEEEEECCTT
T ss_pred             CCEEEEeCCCcccCCHHHHHHHHhhccccceEEEEecc
Confidence            46799999965 59999999999999999999998743

>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=99.18  E-value=4.3e-11  Score=64.99  Aligned_cols=50  Identities=10%  Similarity=-0.015  Sum_probs=37.3

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .......|||+|||++++++||+++|+++|.|..+.+.. .......||||
T Consensus        11 ~~~~~~~v~v~nLP~~~te~dI~~~F~~~g~v~~~v~~~-~~~~~~~kG~a   60 (104)
T d1wg5a_          11 DTANDGFVRLRGLPFGCSKEEIVQFFSGLEIVPNGMTLP-VDFQGRSTGEA   60 (104)
T ss_dssp             SCSCCCEEEEESCCTTCCHHHHHHHTTTCCEEEEEEECC-BCSSSCBCSEE
T ss_pred             CCCCCcEEEEeCCCCCCCHHHHHHHHHhcCCceEEEEEE-eCCCCCcceEE
Confidence            344556799999999999999999999999998754444 22233556654

>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=99.14  E-value=1.6e-11  Score=65.53  Aligned_cols=38  Identities=11%  Similarity=0.099  Sum_probs=33.7

Q ss_pred             cCCcceEEEeCCCCC-CCHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGLSAP-TTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L~~~-~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+..+.|||+|||.. +|++||+++|++||+|.++.+.+
T Consensus         5 ~~~sr~v~v~nl~~~~~t~~eL~~lF~~fG~I~~i~i~~   43 (89)
T d1x4da1           5 VETRRVVHIMDFQRGKNLRYQLLQLVEPFGVISNHLILN   43 (89)
T ss_dssp             CCCCCEEEEESCCCSSSHHHHHHTTTGGGSCEEEEEECS
T ss_pred             CCCCcEEEEECCCCCcCCHHHHHHHHHhhCCeEEEEeec
Confidence            345677999999986 78999999999999999999887

>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=99.13  E-value=9.4e-12  Score=66.30  Aligned_cols=37  Identities=27%  Similarity=0.446  Sum_probs=33.1

Q ss_pred             CcceEEEeCCCCCCCHHHH---HHHHhcCCceeEEEEeee
Q psy7530          13 RTKKIFVGGLSAPTTLEDV---KNYFEQFGPVYYTACDRF   49 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l---~~~F~~fG~V~~v~i~~~   49 (60)
                      +.+.|||+|||+++++++|   +++|++||+|.+|.+.++
T Consensus         7 q~n~vyV~nLp~~~t~~~l~~~~e~F~~~G~I~~v~i~~~   46 (89)
T d2cpia1           7 QKNLVFVVGLSQRLADPEVLKRPEYFGKFGKIHKVVINNS   46 (89)
T ss_dssp             CSSCEEEEEECTTTCCHHHHHSTTTTTTTSCEEEEEEECC
T ss_pred             ecCEEEEECCCCccCHHHHHHHHHHhcccCCceEEEEeec
Confidence            4567999999999999999   778999999999999873

>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=99.13  E-value=3e-11  Score=62.59  Aligned_cols=36  Identities=22%  Similarity=0.457  Sum_probs=30.5

Q ss_pred             EEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          17 IFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        17 lfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      |||+|||+++++++|+++|++|| +..+.+.+       .||||
T Consensus         1 i~V~nLp~~~t~~~l~~~F~~~g-~~~~~~~~-------~~g~a   36 (75)
T d1wi6a1           1 ILIRGLPGDVTNQEVHDLLSDYE-LKYCFVDK-------YKGTA   36 (75)
T ss_dssp             EEEECCCTTCCHHHHHHHTTTSC-EEEEEEET-------TTTEE
T ss_pred             CEEeCCCCcCCHHHHHHHHhccc-ccceeecc-------cceeE
Confidence            79999999999999999999999 55566666       66664

>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=99.13  E-value=6.8e-11  Score=62.37  Aligned_cols=35  Identities=17%  Similarity=0.174  Sum_probs=30.9

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      .++.|||+|||+++++++|+++|++||.|.++.+.
T Consensus         9 Ps~tL~V~NLp~~~te~~l~~~F~~~G~v~~~~~~   43 (88)
T d2adca2           9 PSATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKF   43 (88)
T ss_dssp             SCSEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEE
T ss_pred             CCCEEEEECCCCCCCHHHHHHHhhccCCEEEEEEe
Confidence            35689999999999999999999999999776544

>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=99.09  E-value=4.1e-11  Score=64.83  Aligned_cols=40  Identities=18%  Similarity=0.415  Sum_probs=33.2

Q ss_pred             cccCCcceEEEeCCC-CCCCHHHHHHHHhcCCceeEEEEee
Q psy7530           9 QMVTRTKKIFVGGLS-APTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus         9 ~~~~~~~klfVg~L~-~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .......+|||+||| +.+++++|+++|++||+|.++.+.+
T Consensus        10 ~~~~~~~~lfV~nL~~~~~~~~~L~~~F~~~G~i~~~~i~r   50 (98)
T d1wf2a_          10 DPRSMNSRVFIGNLNTLVVKKSDVEAIFSKYGKIVGCSVHK   50 (98)
T ss_dssp             CCSSCCCCEEEEEECTTTCCHHHHHHSSTTSSCEEEEEEET
T ss_pred             CCCCCCcEEEEeCCCcccCCHHHHHHHHhhcCCEEEEEEeC
Confidence            344456789999996 5788999999999999999887755

>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=99.06  E-value=1.3e-11  Score=66.50  Aligned_cols=47  Identities=15%  Similarity=0.158  Sum_probs=36.6

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|||+|||.++++++|+++|++||.|.++.+..+. .....+|||
T Consensus        17 ps~tl~V~nLp~~~t~~~l~~~f~~~G~v~~~~~~~~~-~~g~~~g~~   63 (102)
T d2cpxa1          17 PNKVLYLKNLSPRVTERDLVSLFARFQEKKGPPIQFRM-MTGRMRGQA   63 (102)
T ss_dssp             CCSEEEEECCCTTCCHHHHHHHTHHHHHSSSSCCEEEE-ECSSSCSEE
T ss_pred             CCCEEEEeCCCCCCCHHHHHHHHhhccceeeEEeeccc-ccccccccc
Confidence            45789999999999999999999999999887666522 223455553

>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=99.06  E-value=6e-11  Score=64.59  Aligned_cols=37  Identities=22%  Similarity=0.240  Sum_probs=32.5

Q ss_pred             CCcceEEE--eCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFV--GGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfV--g~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ...+.+||  ||||+++|+++|+++|++||.|.++.+.+
T Consensus        16 ~pt~~l~V~ng~L~~~vte~~L~~~F~~~G~i~~i~~~~   54 (101)
T d2cq2a1          16 YATQSLVVANGGLGNGVSRNQLLPVLEKCGLVDALLMPP   54 (101)
T ss_dssp             SCCSEEEEETCTGGGTCCHHHHHHHHHHHSCEEEEECCT
T ss_pred             CCCceEEEECCCCCCCCCHHHHHHHHHhhCcccEEeecc
Confidence            34567888  55999999999999999999999998887

>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=99.06  E-value=4.7e-12  Score=67.26  Aligned_cols=33  Identities=15%  Similarity=0.244  Sum_probs=29.5

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEe
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACD   47 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~   47 (60)
                      ++|||||||+++++++|+++|++||.|.++.+.
T Consensus         2 RrlyVgNLp~~~te~~l~~~F~~~g~~~~~~~~   34 (90)
T d1u2fa_           2 RRLYVGNIPFGITEEAMMDFFNAQMRLGGLTQA   34 (90)
T ss_dssp             CEEEECSCCTTCCTTHHHHHHHHHHTTTTSCCS
T ss_pred             CEEEEcCCCCccchHHHHHHHHhhCcEEEEEEe
Confidence            689999999999999999999999998766443

>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=99.06  E-value=1.8e-10  Score=66.46  Aligned_cols=49  Identities=31%  Similarity=0.492  Sum_probs=39.2

Q ss_pred             cCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          11 VTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        11 ~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ....++|||+|||+.+++++|+++|++||.|..+.+.++ .....+||||
T Consensus        94 ~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~~~~i~~~-~~~~~~~g~~  142 (183)
T d1u1qa_          94 HLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTD-RGSGKKRGFA  142 (183)
T ss_dssp             TCCCSEEEEECCCTTCCHHHHHHHHGGGSCEEEEEEEEC-TTTCCEEEEE
T ss_pred             ccccceeEEccCCCcCCHHHHhhhhccCCceeeeeeecc-cccCccceeE
Confidence            345678999999999999999999999999999988873 2233455553

>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=99.02  E-value=1.8e-10  Score=62.37  Aligned_cols=48  Identities=21%  Similarity=0.234  Sum_probs=36.1

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      .......|||+|||+++|++||+++|++||.+ +|.+.++..|  ..+|||
T Consensus        11 ~~~~~~~v~v~nLp~~~te~dl~~~F~~~~~~-~v~~~~~~~g--~~~G~a   58 (102)
T d1weza_          11 QSTTGHCVHMRGLPYRATENDIYNFFSPLNPM-RVHIEIGPDG--RVTGEA   58 (102)
T ss_dssp             CCSSSCEEEEESCCTTCCHHHHHHSSCSCCCS-EEEEEESSSS--CEEEEE
T ss_pred             cCCCCCEEEEeCCCCcCCHHHHHHHHhccCcc-eeeeEEecCC--cceEEE
Confidence            34455679999999999999999999999854 5766664443  345553

>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=99.02  E-value=1.3e-10  Score=62.84  Aligned_cols=47  Identities=11%  Similarity=-0.095  Sum_probs=35.0

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeE-EEEeeeecCCCCccccC
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYY-TACDRFIFGISPVKNFG   60 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~-v~i~~~~~g~~~~k~fg   60 (60)
                      .....|||+|||+++++++|+++|++||.|.. +.+..+..|  .+||||
T Consensus         6 ~~~~~v~v~nLp~~~t~~~l~~~F~~~g~i~~~~~~~~~~~g--~~~G~a   53 (103)
T d2cpya1           6 SAKVCAHITNIPFSITKMDVLQFLEGIPVDENAVHVLVDNNG--QGLGQA   53 (103)
T ss_dssp             SCCCEEEEESCCTTSCHHHHHHHTTTSCCCSTTEEECCCTTS--SCSSCE
T ss_pred             CCceEEEEeCCCCCCCHHHHhhhhcccceEEEEEEEEeCCCC--CcCccE
Confidence            33455999999999999999999999999876 344332333  456664

>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=99.00  E-value=1.8e-10  Score=61.19  Aligned_cols=35  Identities=20%  Similarity=0.498  Sum_probs=30.3

Q ss_pred             cceEEEeCCCCCCCHHHHHH----HHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKN----YFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~----~F~~fG~V~~v~i~~   48 (60)
                      .++|||||||++++++||++    +|++||+|.+|.+.+
T Consensus         3 ~~tl~V~nLp~~~t~~dl~~~l~~~f~~~G~i~~i~~~~   41 (91)
T d1nu4a_           3 NHTIYINNLNEKIKKDELKKSLHAIFSRFGQILDILVSR   41 (91)
T ss_dssp             CSEEEEESCCTTSCHHHHHHHHHHHHGGGSCEEEEECCH
T ss_pred             CCEEEEeCCCCCCCHHHHHHHHHHHhcccccccceEEee
Confidence            46899999999999999864    689999998887764

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.93  E-value=2.3e-10  Score=59.95  Aligned_cols=33  Identities=9%  Similarity=0.232  Sum_probs=29.2

Q ss_pred             CCcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          12 TRTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        12 ~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      +....|||+|||++++++||+++|++||.|.+.
T Consensus         7 p~~~~l~v~nLp~~~~~~di~~~F~~~~~~~~~   39 (86)
T d2cqpa1           7 PGPTIIKVQNMPFTVSIDEILDFFYGYQVIPGS   39 (86)
T ss_dssp             CSSEEEEEESCCTTCCHHHHHHHTTTSCCCTTT
T ss_pred             CCCCEEEEECCCCCCCHHHHHHHHhhcccceeE
Confidence            345679999999999999999999999999763

>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=98.93  E-value=2.8e-10  Score=62.54  Aligned_cols=32  Identities=16%  Similarity=0.268  Sum_probs=28.7

Q ss_pred             CcceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          13 RTKKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        13 ~~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      ....|||+|||+++|++||+++|++||.|.++
T Consensus        17 ~~~~i~v~nLp~~~t~~di~~~F~~~g~~~~~   48 (112)
T d1wela1          17 AGFCVYLKGLPFEAENKHVIDFFKKLDIVEDS   48 (112)
T ss_dssp             CCCEEEEECCCTTCCHHHHHHHSCSSCBCTTT
T ss_pred             CCeEEEEecCCCcCcHHHHhhHHhhccccccc
Confidence            45579999999999999999999999998764

>d1wwha1 d.58.7.1 (A:169-249) Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleoporin 35
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.78  E-value=2e-09  Score=56.59  Aligned_cols=34  Identities=15%  Similarity=0.165  Sum_probs=28.9

Q ss_pred             cceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEee
Q psy7530          14 TKKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        14 ~~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      .+.++|+|+|++.+++.| ++|++||+|.++.+.+
T Consensus         4 ~~wV~V~G~p~~~~~~il-~~F~~~G~I~~~~~~~   37 (81)
T d1wwha1           4 DTWVTVFGFPQASASYIL-LQFAQYGNILKHVMSN   37 (81)
T ss_dssp             GGEEEEECCCGGGHHHHH-HHHHTTSCEEEEEECS
T ss_pred             ccEEEEECCChHHHHHHH-HHHHhhhhhheEEecC
Confidence            456999999999887655 5899999999998876

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.76  E-value=1.2e-09  Score=59.53  Aligned_cols=37  Identities=3%  Similarity=0.005  Sum_probs=31.1

Q ss_pred             CCcceEEEeCCCCCC-CH----HHHHHHHhcCCceeEEEEee
Q psy7530          12 TRTKKIFVGGLSAPT-TL----EDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        12 ~~~~klfVg~L~~~~-~e----~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+|||+||+.++ ++    ++|+++|++||.|.++.+.+
T Consensus         3 ~~~~~L~v~nl~~~v~~~d~~k~~l~~lF~~~G~i~~~~~~k   44 (104)
T d1weya_           3 SGSSGLIACVANDDVFSESETRAKFESLFRTYDKDTTFQYFK   44 (104)
T ss_dssp             SCCCEEEEECCCGGGGSTTTHHHHHHHHHHTTCSSCEEEEET
T ss_pred             CCCceEEEEeCCchhcCcHHHHHHHHHHhcccccceEEEEec
Confidence            346789999999876 33    56999999999999998887

>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=97.98  E-value=4.1e-08  Score=53.32  Aligned_cols=44  Identities=9%  Similarity=-0.126  Sum_probs=35.8

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEEEEeeeecCCCCccccC
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYTACDRFIFGISPVKNFG   60 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v~i~~~~~g~~~~k~fg   60 (60)
                      ..++|.+++.+++|++|+++|++||+|.+|.|.++..|  .+||||
T Consensus        28 ~~~~v~~~~~~~~ed~l~e~f~k~G~I~~v~I~~~~~~--~~~G~~   71 (104)
T d1jmta_          28 SDVEMQEHYDEFFEEVFTEMEEKYGEVEEMNVCDNLGD--HLVGNV   71 (104)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHTCCEEEEEECCSSSS--SSEEEE
T ss_pred             chHHhhhhhhhhhHHHHHHHhccCCCEEEEEeecCCCC--CEeeEE
Confidence            45788889999999999999999999999999875443  455553

>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=97.50  E-value=4.5e-05  Score=40.38  Aligned_cols=38  Identities=11%  Similarity=0.167  Sum_probs=29.6

Q ss_pred             cCCcceEEEeCC--CCCC---------CHHHHHHHHhcCCceeEEEEee
Q psy7530          11 VTRTKKIFVGGL--SAPT---------TLEDVKNYFEQFGPVYYTACDR   48 (60)
Q Consensus        11 ~~~~~klfVg~L--~~~~---------~e~~l~~~F~~fG~V~~v~i~~   48 (60)
                      ....+.|+|.||  |.++         .++||++.|++||.|.+|.+.+
T Consensus         5 ~~~~r~v~l~nmf~~~~~~~~~~~~~~i~edv~~~~~~~G~V~~v~~~~   53 (99)
T d2dita1           5 MRHERVVIIKNMFHPMDFEDDPLVLNEIREDLRVECSKFGQIRKLLLFD   53 (99)
T ss_dssp             CCSCCEEEEESSCCTTHHHHCSHHHHHHHHHHHHHGGGTSCCSEEEEET
T ss_pred             CCCccEEEEccCCCHHHhhcchHHHHHHHHHHHHHhcCcccEEEEeccC
Confidence            345677999998  5442         2378999999999999998766

>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=96.83  E-value=0.00019  Score=38.01  Aligned_cols=37  Identities=19%  Similarity=0.270  Sum_probs=28.5

Q ss_pred             cceEEEeCC--CCCCC--------HHHHHHHHhcCCceeEEEEeeee
Q psy7530          14 TKKIFVGGL--SAPTT--------LEDVKNYFEQFGPVYYTACDRFI   50 (60)
Q Consensus        14 ~~klfVg~L--~~~~~--------e~~l~~~F~~fG~V~~v~i~~~~   50 (60)
                      ++-|.+.||  +.++.        .+||++.|++||.|.+|.|.+..
T Consensus         4 s~vl~l~N~~~~~~l~~~~~~~~i~edi~~e~~k~G~v~~v~I~~~~   50 (104)
T d1o0pa_           4 TEVLCLMNMVLPEELLDDEEYEEIVEDVRDECSKYGLVKSIEIPRPV   50 (104)
T ss_dssp             CSEEEEESSCCTTTTTSHHHHHHHHHHHHHHHTTTSCEEEEECCCCT
T ss_pred             CcEEEEeCCCCHHHcCCchhHHHHHHHHHHHhcccCceEEEEEeecC
Confidence            456888998  44432        36799999999999999887643

>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=94.80  E-value=0.015  Score=30.39  Aligned_cols=30  Identities=17%  Similarity=0.244  Sum_probs=27.0

Q ss_pred             ceEEEeCCCCCCCHHHHHHHHhcCCceeEE
Q psy7530          15 KKIFVGGLSAPTTLEDVKNYFEQFGPVYYT   44 (60)
Q Consensus        15 ~klfVg~L~~~~~e~~l~~~F~~fG~V~~v   44 (60)
                      .|+-|..||+..||+++.+.+...|++.-.
T Consensus         2 tKvVvRrLPP~Lte~~F~~~l~~~~~~d~~   31 (91)
T d1uw4a_           2 SKVVIRRLPPTLTKEQLQEHLQPMPEHDYF   31 (91)
T ss_dssp             CEEEEEEECTTCCHHHHHHHHCSCCCEEEE
T ss_pred             ceEEEecCCCCCCHHHHHHHhCCcCceEEE
Confidence            689999999999999999999999987654

>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=94.46  E-value=0.032  Score=29.71  Aligned_cols=33  Identities=12%  Similarity=0.273  Sum_probs=28.5

Q ss_pred             ccCCcceEEEeCCCCCCCHHHHHHHHhcCCcee
Q psy7530          10 MVTRTKKIFVGGLSAPTTLEDVKNYFEQFGPVY   42 (60)
Q Consensus        10 ~~~~~~klfVg~L~~~~~e~~l~~~F~~fG~V~   42 (60)
                      ..+....+|.-..|......||.++|++||.|.
T Consensus        11 ~~p~RdHVf~~tFP~~Wk~~dI~~lFSpfG~V~   43 (100)
T d1whva_          11 LQPKRDHVLHVTFPKEWKTSDLYQLFSAFGNIQ   43 (100)
T ss_dssp             CCCCCCSEEEEECCTTCCHHHHHHHHTTTCSCC
T ss_pred             CCCCcceeEEEeCCcccchhHHHHHhcCCCceE
Confidence            344556699999999999999999999999985