Psyllid ID: psy4383

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------9
Protein Sequence
MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPTT
Secondary Structure (PSIPRED)
ccccEEEEEEccccHHHHHHccccccEEEEEEEEEEEEccEEEEEEcccccHHHHHccccccEEEcEEccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEEEEccHHHHHHHHccccccEEEEEEEEEEEcccEEEEEEccHHHHHHHHccccccEEEEEEEcccccccccccccccccccc
Coil and Loop (DISEMBL)
mhkgyafiqfsnphdarsaclgedgrtvlGQTLGISMHKGYAfiqfsnphdarsaclgedgrtvLGQTLVSYKLQyyngcryvsptptt
Flexible Loop (DISEMBL)
MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYklqyyngcryvsptptt
Low Complexity Region (SEG)
MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPTT
Disordered region (IsUnstruct)
****YAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYV******
Disordered Region (DISOPRED)
*HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL***************
Disordered Region (DISEMBL)
MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPTT
Disordered Region (DISPRO)
**KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYY************
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPTT
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	89	2.2.26 [Sep-21-2011]
Q9UKM9	306	RNA-binding protein Raly	no	N/A	0.449	0.130	0.6	5e-08
P19600	282	Heterogeneous nuclear rib	N/A	N/A	0.449	0.141	0.575	8e-08
Q64012	312	RNA-binding protein Raly	no	N/A	0.449	0.128	0.575	2e-07
Q5RA82	306	Heterogeneous nuclear rib	no	N/A	0.449	0.130	0.525	5e-07
P07910	306	Heterogeneous nuclear rib	no	N/A	0.449	0.130	0.525	5e-07
Q9Z204	313	Heterogeneous nuclear rib	no	N/A	0.449	0.127	0.525	5e-07
O77768	306	Heterogeneous nuclear rib	no	N/A	0.449	0.130	0.525	5e-07
Q8BTF8	293	RNA-binding Raly-like pro	no	N/A	0.449	0.136	0.475	3e-05
Q08DJ0	293	RNA-binding Raly-like pro	no	N/A	0.449	0.136	0.475	3e-05
Q86SE5	291	RNA-binding Raly-like pro	no	N/A	0.449	0.137	0.475	4e-05

>sp|Q9UKM9|RALY_HUMAN RNA-binding protein Raly OS=Homo sapiens GN=RALY PE=1 SV=1

 Score = 56.6 bits (135), Expect = 5e-08,   Method: Composition-based stats.
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct: 46 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

Probable-RNA binding protein. Could be a heterogeneous nuclear ribonucleoprotein (hnRNP). May be involved in pre-mRNA splicing.
Homo sapiens (taxid: 9606)

>sp|P19600|HNRPC_XENLA Heterogeneous nuclear ribonucleoprotein C OS=Xenopus laevis GN=hnrnpc PE=2 SV=1

 Score = 55.8 bits (133), Expect = 8e-08,   Method: Composition-based stats.
 Identities = 23/40 (57%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+QFSN   AR+A  GEDGR + GQ L
Sbjct: 42 GKIVGCSVHKGFAFVQFSNERTARTAVAGEDGRMIAGQVL 81

May play a role in nucleosome assembly by neutralizing basic proteins such as A and B core hnRNPs.

Xenopus laevis (taxid: 8355)

>sp|Q64012|RALY_MOUSE RNA-binding protein Raly OS=Mus musculus GN=Raly PE=1 SV=3

 Score = 54.7 bits (130), Expect = 2e-07,   Method: Composition-based stats.
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  G S+HKGYAF+Q++N   AR+A LGE+GR + GQTL
Sbjct: 46 GRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLAGQTL 85

Probable-RNA binding protein. Could be a heterogeneous nuclear ribonucleoprotein (hnRNP). May be involved in pre-mRNA splicing.

Mus musculus (taxid: 10090)

>sp|Q5RA82|HNRPC_PONAB Heterogeneous nuclear ribonucleoprotein C OS=Pongo abelii GN=HNRNPC PE=2 SV=1

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

Binds pre-mRNA and nucleates the assembly of 40S hnRNP particles. Single HNRNPC tetramers bind 230-240 nucleotides. Trimers of HNRNPC tetramers bind 700 nucleotides. May play a role in the early steps of spliceosome assembly and pre-mRNA splicing. Interacts with poly-U tracts in the 3'-UTR or 5'-UTR of mRNA and modulates the stability and the level of translation of bound mRNA molecules.

Pongo abelii (taxid: 9601)

>sp|P07910|HNRPC_HUMAN Heterogeneous nuclear ribonucleoproteins C1/C2 OS=Homo sapiens GN=HNRNPC PE=1 SV=4

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

Binds pre-mRNA and nucleates the assembly of 40S hnRNP particles. Single HNRNPC tetramers bind 230-240 nucleotides. Trimers of HNRNPC tetramers bind 700 nucleotides. May play a role in the early steps of spliceosome assembly and pre-mRNA splicing. Interacts with poly-U tracts in the 3'-UTR or 5'-UTR of mRNA and modulates the stability and the level of translation of bound mRNA molecules.

Homo sapiens (taxid: 9606)

>sp|Q9Z204|HNRPC_MOUSE Heterogeneous nuclear ribonucleoproteins C1/C2 OS=Mus musculus GN=Hnrnpc PE=1 SV=1

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

Binds pre-mRNA and nucleates the assembly of 40S hnRNP particles. Single HNRNPC tetramers bind 230-240 nucleotides. Trimers of HNRNPC tetramers bind 700 nucleotides. May play a role in the early steps of spliceosome assembly and pre-mRNA splicing. Interacts with poly-U tracts in the 3'-UTR or 5'-UTR of mRNA and modulates the stability and the level of translation of bound mRNA molecules.

Mus musculus (taxid: 10090)

>sp|O77768|HNRPC_RABIT Heterogeneous nuclear ribonucleoprotein C OS=Oryctolagus cuniculus GN=HNRNPC PE=2 SV=1

 Score = 53.1 bits (126), Expect = 5e-07,   Method: Composition-based stats.
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

Binds pre-mRNA and nucleates the assembly of 40S hnRNP particles. Single HNRNPC tetramers bind 230-240 nucleotides. Trimers of HNRNPC tetramers bind 700 nucleotides. May play a role in the early steps of spliceosome assembly and pre-mRNA splicing. Interacts with poly-U tracts in the 3'-UTR or 5'-UTR of mRNA and modulates the stability and the level of translation of bound mRNA molecules.

Oryctolagus cuniculus (taxid: 9986)

>sp|Q8BTF8|RALYL_MOUSE RNA-binding Raly-like protein OS=Mus musculus GN=Ralyl PE=2 SV=1

 Score = 47.4 bits (111), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/40 (47%), Positives = 28/40 (70%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKGYAF+Q+ +   AR+A  GE+ R + GQ L
Sbjct: 46 GKIVGCSVHKGYAFVQYMSERHARAAVAGENARVIAGQPL 85

Mus musculus (taxid: 10090)

>sp|Q08DJ0|RALYL_BOVIN RNA-binding Raly-like protein OS=Bos taurus GN=RALYL PE=2 SV=1

 Score = 47.0 bits (110), Expect = 3e-05,   Method: Composition-based stats.
 Identities = 19/40 (47%), Positives = 28/40 (70%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKGYAF+Q+ +   AR+A  GE+ R + GQ L
Sbjct: 46 GKIVGCSVHKGYAFVQYMSERHARAAVAGENARIIAGQPL 85

Bos taurus (taxid: 9913)

>sp|Q86SE5|RALYL_HUMAN RNA-binding Raly-like protein OS=Homo sapiens GN=RALYL PE=1 SV=2

 Score = 47.0 bits (110), Expect = 4e-05,   Method: Composition-based stats.
 Identities = 19/40 (47%), Positives = 28/40 (70%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKGYAF+Q+ +   AR+A  GE+ R + GQ L
Sbjct: 46 GKIVGCSVHKGYAFVQYMSERHARAAVAGENARVIAGQPL 85

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	89
242023138	95	conserved hypothetical protein [Pediculu	0.449	0.421	0.825	6e-12
270004650	424	hypothetical protein TcasGA2_TC004021 [T	0.449	0.094	0.8	1e-11
328782001	394	PREDICTED: hypothetical protein LOC72615	0.449	0.101	0.8	2e-11
383848360	409	PREDICTED: uncharacterized protein LOC10	0.449	0.097	0.8	2e-11
340725200	394	PREDICTED: hypothetical protein LOC10064	0.449	0.101	0.8	2e-11
345485295	423	PREDICTED: hypothetical protein LOC10011	0.449	0.094	0.8	2e-11
380028205	388	PREDICTED: uncharacterized protein LOC10	0.449	0.103	0.8	2e-11
350416967	394	PREDICTED: hypothetical protein LOC10074	0.449	0.101	0.8	3e-11
332027259	86	Heterogeneous nuclear ribonucleoprotein	0.449	0.465	0.8	3e-11
195017979	433	GH14884 [Drosophila grimshawi] gi|193898	0.471	0.096	0.714	1e-10

>gi|242023138|ref|XP_002431993.1| conserved hypothetical protein [Pediculus humanus corporis] gi|212517344|gb|EEB19255.1| conserved hypothetical protein [Pediculus humanus corporis]

 Score = 74.7 bits (182), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 33/40 (82%), Positives = 36/40 (90%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVLGQ L
Sbjct: 45 GRIAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLGQIL 84

Source: Pediculus humanus corporis

Species: Pediculus humanus

Genus: Pediculus

Family: Pediculidae

Order: Phthiraptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270004650|gb|EFA01098.1| hypothetical protein TcasGA2_TC004021 [Tribolium castaneum]

 Score = 73.6 bits (179), Expect = 1e-11,   Method: Composition-based stats.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 45 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 84

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328782001|ref|XP_001121913.2| PREDICTED: hypothetical protein LOC726153 [Apis mellifera]

 Score = 73.2 bits (178), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 51 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 90

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383848360|ref|XP_003699819.1| PREDICTED: uncharacterized protein LOC100881697 [Megachile rotundata]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30  GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 66  GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 105

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340725200|ref|XP_003400961.1| PREDICTED: hypothetical protein LOC100649273 isoform 1 [Bombus terrestris] gi|340725202|ref|XP_003400962.1| PREDICTED: hypothetical protein LOC100649273 isoform 2 [Bombus terrestris]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 51 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 90

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|345485295|ref|XP_003425234.1| PREDICTED: hypothetical protein LOC100113835 [Nasonia vitripennis]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 57 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 96

Source: Nasonia vitripennis

Species: Nasonia vitripennis

Genus: Nasonia

Family: Pteromalidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380028205|ref|XP_003697798.1| PREDICTED: uncharacterized protein LOC100865280 [Apis florea]

 Score = 72.8 bits (177), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 45 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 84

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|350416967|ref|XP_003491192.1| PREDICTED: hypothetical protein LOC100746621 [Bombus impatiens]

 Score = 72.8 bits (177), Expect = 3e-11,   Method: Composition-based stats.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 51 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 90

Source: Bombus impatiens

Species: Bombus impatiens

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|332027259|gb|EGI67343.1| Heterogeneous nuclear ribonucleoprotein C [Acromyrmex echinatior]

 Score = 72.4 bits (176), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 32/40 (80%), Positives = 35/40 (87%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  GISMHKGYAF+QF+NP DARSACLGEDGRTVL Q L
Sbjct: 45 GRLAGISMHKGYAFVQFTNPFDARSACLGEDGRTVLSQIL 84

Source: Acromyrmex echinatior

Species: Acromyrmex echinatior

Genus: Acromyrmex

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|195017979|ref|XP_001984697.1| GH14884 [Drosophila grimshawi] gi|193898179|gb|EDV97045.1| GH14884 [Drosophila grimshawi]

 Score = 70.5 bits (171), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 30/42 (71%), Positives = 36/42 (85%)

Query: 28 VLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          + G+  GISMHKGYAF+QF+NP DAR+AC GEDG+TVL QTL
Sbjct: 43 IYGRLAGISMHKGYAFVQFTNPFDARNACHGEDGKTVLSQTL 84

Source: Drosophila grimshawi

Species: Drosophila grimshawi

Genus: Drosophila

Family: Drosophilidae

Order: Diptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	89
FB|FBgn0259935	711	CG42458 [Drosophila melanogast	0.471	0.059	0.714	2.2e-11
UNIPROTKB|E1BT73	179	RALY "Uncharacterized protein"	0.449	0.223	0.6	5.9e-09
UNIPROTKB|Q5QPM1	181	RALY "RNA-binding protein Raly	0.449	0.220	0.6	9.7e-09
UNIPROTKB|Q5QPM2	89	RALY "RNA-binding protein Raly	0.449	0.449	0.6	9.7e-09
UNIPROTKB|Q5QPL9	237	RALY "RNA-binding protein Raly	0.449	0.168	0.6	1.7e-08
UNIPROTKB|F1P0I8	285	RALY "Uncharacterized protein"	0.449	0.140	0.6	1.9e-08
ZFIN|ZDB-GENE-041010-127	273	raly "RNA binding protein, aut	0.449	0.146	0.575	3.6e-08
UNIPROTKB|Q9UKM9	306	RALY "RNA-binding protein Raly	0.449	0.130	0.6	3.7e-08
UNIPROTKB|E9PTI6	285	Raly "Protein Raly" [Rattus no	0.449	0.140	0.575	6.7e-08
UNIPROTKB|E2R552	293	RALY "Uncharacterized protein"	0.449	0.136	0.575	7.2e-08

FB|FBgn0259935 CG42458 [Drosophila melanogaster (taxid:7227)]

 Score = 167 (63.8 bits), Expect = 2.2e-11, P = 2.2e-11
 Identities = 30/42 (71%), Positives = 36/42 (85%)

Query:    28 VLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             + G+  GISMHKGYAF+QF+NP DAR+AC GEDG+TVL QTL
Sbjct:    43 IYGRLAGISMHKGYAFVQFTNPFDARNACHGEDGKTVLSQTL 84

GO:0003729 "mRNA binding" evidence=ISS

GO:0008150 "biological_process" evidence=ND

GO:0008270 "zinc ion binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

UNIPROTKB|E1BT73 RALY "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 133 (51.9 bits), Expect = 5.9e-09, P = 5.9e-09
 Identities = 24/40 (60%), Positives = 32/40 (80%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+ +G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    46 GRVVGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q5QPM1 RALY "RNA-binding protein Raly" [Homo sapiens (taxid:9606)]

 Score = 131 (51.2 bits), Expect = 9.7e-09, P = 9.7e-09
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q5QPM2 RALY "RNA-binding protein Raly" [Homo sapiens (taxid:9606)]

 Score = 131 (51.2 bits), Expect = 9.7e-09, P = 9.7e-09
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|Q5QPL9 RALY "RNA-binding protein Raly" [Homo sapiens (taxid:9606)]

 Score = 131 (51.2 bits), Expect = 1.7e-08, P = 1.7e-08
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

UNIPROTKB|F1P0I8 RALY "Uncharacterized protein" [Gallus gallus (taxid:9031)]

 Score = 133 (51.9 bits), Expect = 1.9e-08, P = 1.9e-08
 Identities = 24/40 (60%), Positives = 32/40 (80%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+ +G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    48 GRVVGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 87

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

ZFIN|ZDB-GENE-041010-127 raly "RNA binding protein, autoantigenic (hnRNP-associated with lethal yellow homolog (mouse))" [Danio rerio (taxid:7955)]

 Score = 130 (50.8 bits), Expect = 3.6e-08, P = 3.6e-08
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+ LG S+HKGYAF+Q++N   AR A +GE+GR + GQTL
Sbjct:    46 GRVLGCSVHKGYAFVQYANERHARGAVIGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0005575 "cellular_component" evidence=ND

UNIPROTKB|Q9UKM9 RALY "RNA-binding protein Raly" [Homo sapiens (taxid:9606)]

 Score = 131 (51.2 bits), Expect = 3.7e-08, P = 3.7e-08
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

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

GO:0071013 "catalytic step 2 spliceosome" evidence=IDA

GO:0005634 "nucleus" evidence=TAS

UNIPROTKB|E9PTI6 Raly "Protein Raly" [Rattus norvegicus (taxid:10116)]

 Score = 128 (50.1 bits), Expect = 6.7e-08, P = 6.7e-08
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q++N   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLAGQTL 85

GO:0000166 "nucleotide binding" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

UNIPROTKB|E2R552 RALY "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]

 Score = 128 (50.1 bits), Expect = 7.2e-08, P = 7.2e-08
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query:    30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+  G S+HKGYAF+Q++N   AR+A LGE+GR + GQTL
Sbjct:    46 GRVAGCSVHKGYAFVQYANERHARAAVLGENGRVLAGQTL 85

GO:0071013 "catalytic step 2 spliceosome" evidence=IEA

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	89
cd12341	68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	8e-18
cd12341	68	cd12341, RRM_hnRNPC_like, RNA recognition motif in	2e-15
cd12603	71	cd12603, RRM_hnRNPC, RNA recognition motif in vert	2e-12
cd12604	76	cd12604, RRM_RALY, RNA recognition motif in verteb	5e-12
cd12603	71	cd12603, RRM_hnRNPC, RNA recognition motif in vert	7e-11
cd12604	76	cd12604, RRM_RALY, RNA recognition motif in verteb	9e-11
cd12605	69	cd12605, RRM_RALYL, RNA recognition motif in verte	1e-08
cd12605	69	cd12605, RRM_RALYL, RNA recognition motif in verte	9e-07
cd12373	73	cd12373, RRM_SRSF3_like, RNA recognition motif in	3e-06
cd12373	73	cd12373, RRM_SRSF3_like, RNA recognition motif in	2e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	2e-05
smart00360	73	smart00360, RRM, RNA recognition motif	3e-05
smart00360	73	smart00360, RRM, RNA recognition motif	3e-05
cd00590	72	cd00590, RRM_SF, RNA recognition motif (RRM) super	7e-05
cd12646	77	cd12646, RRM_SRSF7, RNA recognition motif in verte	2e-04
cd12337	70	cd12337, RRM1_SRSF4_like, RNA recognition motif 1	2e-04
cd12324	88	cd12324, RRM_RBM8, RNA recognition motif in RNA-bi	4e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	6e-04
pfam00076	70	pfam00076, RRM_1, RNA recognition motif	6e-04
cd12355	80	cd12355, RRM_RBM18, RNA recognition motif in eukar	8e-04
cd12646	77	cd12646, RRM_SRSF7, RNA recognition motif in verte	0.001
cd12324	88	cd12324, RRM_RBM8, RNA recognition motif in RNA-bi	0.001
cd12342	71	cd12342, RRM_Nab3p, RNA recognition motif in yeast	0.001
cd12599	72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	0.001
cd12599	72	cd12599, RRM1_SF2_plant_like, RNA recognition moti	0.001
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	0.001
cd12284	73	cd12284, RRM2_RBM23_RBM39, RNA recognition motif 2	0.001
smart00361	70	smart00361, RRM_1, RNA recognition motif	0.001
smart00361	70	smart00361, RRM_1, RNA recognition motif	0.001
cd12337	70	cd12337, RRM1_SRSF4_like, RNA recognition motif 1	0.002
cd12594	74	cd12594, RRM1_SRSF4, RNA recognition motif 1 in ve	0.002
cd12312	84	cd12312, RRM_SRSF10_SRSF12, RNA recognition motif	0.002
cd12375	77	cd12375, RRM1_Hu_like, RNA recognition motif 1 in	0.002
cd12392	81	cd12392, RRM2_SART3, RNA recognition motif 2 in sq	0.002
cd12355	80	cd12355, RRM_RBM18, RNA recognition motif in eukar	0.003
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	0.003
pfam13893	56	pfam13893, RRM_5, RNA recognition motif	0.003
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	0.003
cd12347	73	cd12347, RRM_PPIE, RNA recognition motif in cyclop	0.003
cd12278	84	cd12278, RRM_eIF3B, RNA recognition motif in eukar	0.003
cd12290	80	cd12290, RRM1_LARP7, RNA recognition motif 1 in La	0.004
cd12290	80	cd12290, RRM1_LARP7, RNA recognition motif 1 in La	0.004
cd12230	82	cd12230, RRM1_U2AF65, RNA recognition motif 1 foun	0.004
cd12236	91	cd12236, RRM_snRNP70, RNA recognition motif in U1	0.004
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	0.004
cd12398	75	cd12398, RRM_CSTF2_RNA15_like, RNA recognition mot	0.004
cd12453	86	cd12453, RRM1_RIM4_like, RNA recognition motif 1 i	0.004
cd12414	76	cd12414, RRM2_RBM28_like, RNA recognition motif 2	0.004

>gnl|CDD|240787 cd12341, RRM_hnRNPC_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein C (hnRNP C)-related proteins

 Score = 69.9 bits (172), Expect = 8e-18
 Identities = 24/40 (60%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ LGIS+HKGY F+QF N  DAR+A  GE+GR + GQ L
Sbjct: 26 GKILGISLHKGYGFVQFDNEEDARAAVAGENGREIAGQKL 65

This subfamily corresponds to the RRM in the hnRNP C-related protein family, including hnRNP C proteins, Raly, and Raly-like protein (RALYL). hnRNP C proteins, C1 and C2, are produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex; they are involved in the packaging of the hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. Raly, also termed autoantigen p542, is an RNA-binding protein that may play a critical role in embryonic development. The biological role of RALYL remains unclear. It shows high sequence homology with hnRNP C proteins and Raly. Members of this family are characterized by an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. The Raly proteins contain a glycine/serine-rich stretch within the C-terminal regions, which is absent in the hnRNP C proteins. Thus, the Raly proteins represent a newly identified class of evolutionarily conserved autoepitopes. . Length = 68

>gnl|CDD|240787 cd12341, RRM_hnRNPC_like, RNA recognition motif in heterogeneous nuclear ribonucleoprotein C (hnRNP C)-related proteins

 Score = 63.8 bits (156), Expect = 2e-15
 Identities = 20/36 (55%), Positives = 26/36 (72%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
          +HKGY F+QF N  DAR+A  GE+GR + GQ L I+
Sbjct: 33 LHKGYGFVQFDNEEDARAAVAGENGREIAGQKLDIN 68

This subfamily corresponds to the RRM in the hnRNP C-related protein family, including hnRNP C proteins, Raly, and Raly-like protein (RALYL). hnRNP C proteins, C1 and C2, are produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex; they are involved in the packaging of the hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. Raly, also termed autoantigen p542, is an RNA-binding protein that may play a critical role in embryonic development. The biological role of RALYL remains unclear. It shows high sequence homology with hnRNP C proteins and Raly. Members of this family are characterized by an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. The Raly proteins contain a glycine/serine-rich stretch within the C-terminal regions, which is absent in the hnRNP C proteins. Thus, the Raly proteins represent a newly identified class of evolutionarily conserved autoepitopes. . Length = 68

>gnl|CDD|241047 cd12603, RRM_hnRNPC, RNA recognition motif in vertebrate heterogeneous nuclear ribonucleoprotein C1/C2 (hnRNP C1/C2)

 Score = 56.6 bits (136), Expect = 2e-12
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 27 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 66

This subgroup corresponds to the RRM of heterogeneous nuclear ribonucleoprotein C (hnRNP) proteins C1 and C2, produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex. They are involved in the packaging of hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. hnRNP C proteins contain two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain that includes the variable region, the basic region and the KSG box rich in repeated Lys-Ser-Gly sequences, the leucine zipper, and the acidic region. The RRM is capable of binding poly(U). The KSG box may bind to RNA. The leucine zipper may be involved in dimer formation. The acidic and hydrophilic C-teminus harbors a putative nucleoside triphosphate (NTP)-binding fold and a protein kinase phosphorylation site. . Length = 71

>gnl|CDD|241048 cd12604, RRM_RALY, RNA recognition motif in vertebrate RNA-binding protein Raly

 Score = 55.4 bits (133), Expect = 5e-12
 Identities = 23/40 (57%), Positives = 31/40 (77%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKGYAF+Q+SN   AR A +GE+GR + GQTL
Sbjct: 27 GRVVGCSVHKGYAFVQYSNERHARGAVIGENGRVLAGQTL 66

This subgroup corresponds to the RRM of Raly, also termed autoantigen p542, or heterogeneous nuclear ribonucleoprotein C-like 2, or hnRNP core protein C-like 2, or hnRNP associated with lethal yellow protein homolog, an RNA-binding protein that may play a critical role in embryonic development. It is encoded by Raly, a ubiquitously expressed gene of unknown function. Raly shows a high degree of identity with the 5' sequences of p542 gene encoding autoantigen, which can cross-react with EBNA-1 of the Epstein Barr virus. Raly contains two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain that includes a unique glycine/serine-rich stretch. . Length = 76

>gnl|CDD|241047 cd12603, RRM_hnRNPC, RNA recognition motif in vertebrate heterogeneous nuclear ribonucleoprotein C1/C2 (hnRNP C1/C2)

 Score = 52.3 bits (125), Expect = 7e-11
 Identities = 19/37 (51%), Positives = 28/37 (75%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
          +HKG+AF+Q+ N  +AR+A  GEDGR + GQ L I++
Sbjct: 34 VHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINL 70

This subgroup corresponds to the RRM of heterogeneous nuclear ribonucleoprotein C (hnRNP) proteins C1 and C2, produced by a single coding sequence. They are the major constituents of the heterogeneous nuclear RNA (hnRNA) ribonucleoprotein (hnRNP) complex in vertebrates. They bind hnRNA tightly, suggesting a central role in the formation of the ubiquitous hnRNP complex. They are involved in the packaging of hnRNA in the nucleus and in processing of pre-mRNA such as splicing and 3'-end formation. hnRNP C proteins contain two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain that includes the variable region, the basic region and the KSG box rich in repeated Lys-Ser-Gly sequences, the leucine zipper, and the acidic region. The RRM is capable of binding poly(U). The KSG box may bind to RNA. The leucine zipper may be involved in dimer formation. The acidic and hydrophilic C-teminus harbors a putative nucleoside triphosphate (NTP)-binding fold and a protein kinase phosphorylation site. . Length = 71

>gnl|CDD|241048 cd12604, RRM_RALY, RNA recognition motif in vertebrate RNA-binding protein Raly

 Score = 52.4 bits (125), Expect = 9e-11
 Identities = 22/37 (59%), Positives = 29/37 (78%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
          +HKGYAF+Q+SN   AR A +GE+GR + GQTL I+M
Sbjct: 34 VHKGYAFVQYSNERHARGAVIGENGRVLAGQTLDINM 70

This subgroup corresponds to the RRM of Raly, also termed autoantigen p542, or heterogeneous nuclear ribonucleoprotein C-like 2, or hnRNP core protein C-like 2, or hnRNP associated with lethal yellow protein homolog, an RNA-binding protein that may play a critical role in embryonic development. It is encoded by Raly, a ubiquitously expressed gene of unknown function. Raly shows a high degree of identity with the 5' sequences of p542 gene encoding autoantigen, which can cross-react with EBNA-1 of the Epstein Barr virus. Raly contains two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain that includes a unique glycine/serine-rich stretch. . Length = 76

>gnl|CDD|241049 cd12605, RRM_RALYL, RNA recognition motif in vertebrate RNA-binding Raly-like protein (RALYL)

 Score = 46.9 bits (111), Expect = 1e-08
 Identities = 19/40 (47%), Positives = 28/40 (70%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKGYAF+Q+ +   AR+A  GE+ R + GQ L
Sbjct: 27 GKIVGCSVHKGYAFVQYISERHARAAVAGENARIIAGQPL 66

This subgroup corresponds to the RRM of RALYL, also termed heterogeneous nuclear ribonucleoprotein C-like 3, or hnRNP core protein C-like 3, a putative RNA-binding protein that shows high sequence homology with Raly, an RNA-binding protein playing a critical role in embryonic development. The biological role of RALYL remains unclear. Like Raly, RALYL contains two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. . Length = 69

>gnl|CDD|241049 cd12605, RRM_RALYL, RNA recognition motif in vertebrate RNA-binding Raly-like protein (RALYL)

 Score = 41.9 bits (98), Expect = 9e-07
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
          +HKGYAF+Q+ +   AR+A  GE+ R + GQ L I+
Sbjct: 34 VHKGYAFVQYISERHARAAVAGENARIIAGQPLDIN 69

This subgroup corresponds to the RRM of RALYL, also termed heterogeneous nuclear ribonucleoprotein C-like 3, or hnRNP core protein C-like 3, a putative RNA-binding protein that shows high sequence homology with Raly, an RNA-binding protein playing a critical role in embryonic development. The biological role of RALYL remains unclear. Like Raly, RALYL contains two distinct domains, an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal auxiliary domain. . Length = 69

>gnl|CDD|240819 cd12373, RRM_SRSF3_like, RNA recognition motif in serine/arginine-rich splicing factor 3 (SRSF3) and similar proteins

 Score = 40.7 bits (96), Expect = 3e-06
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 4  GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          G+AF++F +P DA  A    DGR + G  + + + +G
Sbjct: 37 GFAFVEFEDPRDAEDAVRALDGRRICGNRVRVELSRG 73

This subfamily corresponds to the RRM of two serine/arginine (SR) proteins, serine/arginine-rich splicing factor 3 (SRSF3) and serine/arginine-rich splicing factor 7 (SRSF7). SRSF3, also termed pre-mRNA-splicing factor SRp20, modulates alternative splicing by interacting with RNA cis-elements in a concentration- and cell differentiation-dependent manner. It is also involved in termination of transcription, alternative RNA polyadenylation, RNA export, and protein translation. SRSF3 is critical for cell proliferation, and tumor induction and maintenance. It can shuttle between the nucleus and cytoplasm. SRSF7, also termed splicing factor 9G8, plays a crucial role in both constitutive splicing and alternative splicing of many pre-mRNAs. Its localization and functions are tightly regulated by phosphorylation. SRSF7 is predominantly present in the nuclear and can shuttle between nucleus and cytoplasm. It cooperates with the export protein, Tap/NXF1, helps mRNA export to the cytoplasm, and enhances the expression of unspliced mRNA. Moreover, SRSF7 inhibits tau E10 inclusion through directly interacting with the proximal downstream intron of E10, a clustering region for frontotemporal dementia with Parkinsonism (FTDP) mutations. Both SRSF3 and SRSF7 contain a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RS domain rich in serine-arginine dipeptides. The RRM domain is involved in RNA binding, and the RS domain has been implicated in protein shuttling and protein-protein interactions. . Length = 73

>gnl|CDD|240819 cd12373, RRM_SRSF3_like, RNA recognition motif in serine/arginine-rich splicing factor 3 (SRSF3) and similar proteins

 Score = 38.8 bits (91), Expect = 2e-05
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 40 GYAFIQFSNPHDARSACLGEDGRTVLGQ 67
          G+AF++F +P DA  A    DGR + G 
Sbjct: 37 GFAFVEFEDPRDAEDAVRALDGRRICGN 64

This subfamily corresponds to the RRM of two serine/arginine (SR) proteins, serine/arginine-rich splicing factor 3 (SRSF3) and serine/arginine-rich splicing factor 7 (SRSF7). SRSF3, also termed pre-mRNA-splicing factor SRp20, modulates alternative splicing by interacting with RNA cis-elements in a concentration- and cell differentiation-dependent manner. It is also involved in termination of transcription, alternative RNA polyadenylation, RNA export, and protein translation. SRSF3 is critical for cell proliferation, and tumor induction and maintenance. It can shuttle between the nucleus and cytoplasm. SRSF7, also termed splicing factor 9G8, plays a crucial role in both constitutive splicing and alternative splicing of many pre-mRNAs. Its localization and functions are tightly regulated by phosphorylation. SRSF7 is predominantly present in the nuclear and can shuttle between nucleus and cytoplasm. It cooperates with the export protein, Tap/NXF1, helps mRNA export to the cytoplasm, and enhances the expression of unspliced mRNA. Moreover, SRSF7 inhibits tau E10 inclusion through directly interacting with the proximal downstream intron of E10, a clustering region for frontotemporal dementia with Parkinsonism (FTDP) mutations. Both SRSF3 and SRSF7 contain a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal RS domain rich in serine-arginine dipeptides. The RRM domain is involved in RNA binding, and the RS domain has been implicated in protein shuttling and protein-protein interactions. . Length = 73

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

 Score = 38.4 bits (90), Expect = 2e-05
 Identities = 13/35 (37%), Positives = 22/35 (62%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
           KG+AF++F +P DA  A    +G+ + G+ L +S
Sbjct: 38 SKGFAFVEFESPEDAEKALEALNGKELDGRKLKVS 72

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

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

 Score = 38.3 bits (90), Expect = 3e-05
 Identities = 11/33 (33%), Positives = 19/33 (57%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
           KG+AF++F +  DA  A    +G+ + G+ L 
Sbjct: 40 SKGFAFVEFESEEDAEKALEALNGKELDGRPLK 72

Length = 73

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

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           KG+AF++F +  DA  A    +G+ + G+ L
Sbjct: 40 SKGFAFVEFESEEDAEKALEALNGKELDGRPL 71

Length = 73

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

 Score = 37.3 bits (87), Expect = 7e-05
 Identities = 12/32 (37%), Positives = 20/32 (62%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           KG+AF++F +P DA  A    +G+ + G+ L
Sbjct: 38 SKGFAFVEFESPEDAEKALEALNGKELDGRKL 69

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|241090 cd12646, RRM_SRSF7, RNA recognition motif in vertebrate serine/arginine-rich splicing factor 7 (SRSF7)

 Score = 36.1 bits (83), Expect = 2e-04
 Identities = 13/37 (35%), Positives = 22/37 (59%)

Query: 4  GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          G+AF++F +P DA  A  G DG+ + G  + + +  G
Sbjct: 37 GFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELSTG 73

This subgroup corresponds to the RRM of SRSF7, also termed splicing factor 9G8, is a splicing regulatory serine/arginine (SR) protein that plays a crucial role in both constitutive splicing and alternative splicing of many pre-mRNAs. Its localization and functions are tightly regulated by phosphorylation. SRSF7 is predominantly present in the nuclear and can shuttle between nucleus and cytoplasm. It cooperates with the export protein, Tap/NXF1, helps mRNA export to the cytoplasm, and enhances the expression of unspliced mRNA. SRSF7 inhibits tau E10 inclusion through directly interacting with the proximal downstream intron of E10, a clustering region for frontotemporal dementia with Parkinsonism (FTDP) mutations. SRSF7 contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a CCHC-type zinc knuckle motif in its median region, and a C-terminal RS domain rich in serine-arginine dipeptides. The RRM domain is involved in RNA binding, and the RS domain has been implicated in protein shuttling and protein-protein interactions. . Length = 77

>gnl|CDD|240783 cd12337, RRM1_SRSF4_like, RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins

 Score = 35.8 bits (83), Expect = 2e-04
 Identities = 11/41 (26%), Positives = 24/41 (58%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          G+   I++  G+ F++F +P DA  A    +G+ + G+ ++
Sbjct: 24 GRIREINLKNGFGFVEFEDPRDADDAVYELNGKELCGERVI 64

This subfamily corresponds to the RRM1 in three serine/arginine (SR) proteins: serine/arginine-rich splicing factor 4 (SRSF4 or SRp75 or SFRS4), serine/arginine-rich splicing factor 5 (SRSF5 or SRp40 or SFRS5 or HRS), serine/arginine-rich splicing factor 6 (SRSF6 or SRp55). SRSF4 plays an important role in both, constitutive and alternative, splicing of many pre-mRNAs. It can shuttle between the nucleus and cytoplasm. SRSF5 regulates both alternative splicing and basal splicing. It is the only SR protein efficiently selected from nuclear extracts (NE) by the splicing enhancer (ESE) and essential for enhancer activation. SRSF6 preferentially interacts with a number of purine-rich splicing enhancers (ESEs) to activate splicing of the ESE-containing exon. It is the only protein from HeLa nuclear extract or purified SR proteins that specifically binds B element RNA after UV irradiation. SRSF6 may also recognize different types of RNA sites. Members in this family contain two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a C-terminal RS domains rich in serine-arginine dipeptides. . Length = 70

>gnl|CDD|240770 cd12324, RRM_RBM8, RNA recognition motif in RNA-binding protein RBM8A, RBM8B nd similar proteins

 Score = 35.7 bits (83), Expect = 4e-04
 Identities = 15/43 (34%), Positives = 28/43 (65%), Gaps = 4/43 (9%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQ 45
          KGYA I++    +A++A  G +G+ +LGQT+ +     +AF++
Sbjct: 48 KGYALIEYETKKEAQAAIEGLNGKELLGQTISVD----WAFVK 86

This subfamily corresponds to the RRM of RBM8, also termed binder of OVCA1-1 (BOV-1), or RNA-binding protein Y14, which is one of the components of the exon-exon junction complex (EJC). It has two isoforms, RBM8A and RBM8B, both of which are identical except that RBM8B is 16 amino acids shorter at its N-terminus. RBM8, together with other EJC components (such as Magoh, Aly/REF, RNPS1, Srm160, and Upf3), plays critical roles in postsplicing processing, including nuclear export and cytoplasmic localization of the mRNA, and the nonsense-mediated mRNA decay (NMD) surveillance process. RBM8 binds to mRNA 20-24 nucleotides upstream of a spliced exon-exon junction. It is also involved in spliced mRNA nuclear export, and the process of nonsense-mediated decay of mRNAs with premature stop codons. RBM8 forms a specific heterodimer complex with the EJC protein Magoh which then associates with Aly/REF, RNPS1, DEK, and SRm160 on the spliced mRNA, and inhibits ATP turnover by eIF4AIII, thereby trapping the EJC core onto RNA. RBM8 contains an N-terminal putative bipartite nuclear localization signal, one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), in the central region, and a C-terminal serine-arginine rich region (SR domain) and glycine-arginine rich region (RG domain). . Length = 88

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

 Score = 34.5 bits (80), Expect = 6e-04
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           KG+AF++F +  DA  A    +G+ + G+ L
Sbjct: 38 SKGFAFVEFEDEEDAEKALEALNGKELGGREL 69

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

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

 Score = 34.5 bits (80), Expect = 6e-04
 Identities = 11/32 (34%), Positives = 19/32 (59%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           KG+AF++F +  DA  A    +G+ + G+ L
Sbjct: 38 SKGFAFVEFEDEEDAEKALEALNGKELGGREL 69

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

>gnl|CDD|240801 cd12355, RRM_RBM18, RNA recognition motif in eukaryotic RNA-binding protein 18 and similar proteins

 Score = 34.6 bits (80), Expect = 8e-04
 Identities = 12/31 (38%), Positives = 17/31 (54%)

Query: 40 GYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          GY F+ F    +A  A    +G+T LG+ LV
Sbjct: 45 GYCFVTFETKEEAEKALKSLNGKTALGKKLV 75

This subfamily corresponds to the RRM of RBM18, a putative RNA-binding protein containing a well-conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The biological role of RBM18 remains unclear. . Length = 80

>gnl|CDD|241090 cd12646, RRM_SRSF7, RNA recognition motif in vertebrate serine/arginine-rich splicing factor 7 (SRSF7)

 Score = 34.2 bits (78), Expect = 0.001
 Identities = 12/27 (44%), Positives = 18/27 (66%)

Query: 40 GYAFIQFSNPHDARSACLGEDGRTVLG 66
          G+AF++F +P DA  A  G DG+ + G
Sbjct: 37 GFAFVEFEDPRDAEDAVRGLDGKVICG 63

This subgroup corresponds to the RRM of SRSF7, also termed splicing factor 9G8, is a splicing regulatory serine/arginine (SR) protein that plays a crucial role in both constitutive splicing and alternative splicing of many pre-mRNAs. Its localization and functions are tightly regulated by phosphorylation. SRSF7 is predominantly present in the nuclear and can shuttle between nucleus and cytoplasm. It cooperates with the export protein, Tap/NXF1, helps mRNA export to the cytoplasm, and enhances the expression of unspliced mRNA. SRSF7 inhibits tau E10 inclusion through directly interacting with the proximal downstream intron of E10, a clustering region for frontotemporal dementia with Parkinsonism (FTDP) mutations. SRSF7 contains a single N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), followed by a CCHC-type zinc knuckle motif in its median region, and a C-terminal RS domain rich in serine-arginine dipeptides. The RRM domain is involved in RNA binding, and the RS domain has been implicated in protein shuttling and protein-protein interactions. . Length = 77

>gnl|CDD|240770 cd12324, RRM_RBM8, RNA recognition motif in RNA-binding protein RBM8A, RBM8B nd similar proteins

 Score = 34.5 bits (80), Expect = 0.001
 Identities = 13/31 (41%), Positives = 22/31 (70%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KGYA I++    +A++A  G +G+ +LGQT+
Sbjct: 48 KGYALIEYETKKEAQAAIEGLNGKELLGQTI 78

This subfamily corresponds to the RRM of RBM8, also termed binder of OVCA1-1 (BOV-1), or RNA-binding protein Y14, which is one of the components of the exon-exon junction complex (EJC). It has two isoforms, RBM8A and RBM8B, both of which are identical except that RBM8B is 16 amino acids shorter at its N-terminus. RBM8, together with other EJC components (such as Magoh, Aly/REF, RNPS1, Srm160, and Upf3), plays critical roles in postsplicing processing, including nuclear export and cytoplasmic localization of the mRNA, and the nonsense-mediated mRNA decay (NMD) surveillance process. RBM8 binds to mRNA 20-24 nucleotides upstream of a spliced exon-exon junction. It is also involved in spliced mRNA nuclear export, and the process of nonsense-mediated decay of mRNAs with premature stop codons. RBM8 forms a specific heterodimer complex with the EJC protein Magoh which then associates with Aly/REF, RNPS1, DEK, and SRm160 on the spliced mRNA, and inhibits ATP turnover by eIF4AIII, thereby trapping the EJC core onto RNA. RBM8 contains an N-terminal putative bipartite nuclear localization signal, one RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), in the central region, and a C-terminal serine-arginine rich region (SR domain) and glycine-arginine rich region (RG domain). . Length = 88

>gnl|CDD|240788 cd12342, RRM_Nab3p, RNA recognition motif in yeast nuclear polyadenylated RNA-binding protein 3 (Nab3p) and similar proteins

 Score = 34.3 bits (79), Expect = 0.001
 Identities = 12/40 (30%), Positives = 20/40 (50%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+   I +   Y F+QF +P    +A   E G+ + G+ L
Sbjct: 25 GELAQIVLKNAYGFVQFDSPESCANAINCEQGKMIRGRKL 64

This subfamily corresponds to the RRM of Nab3p, an acidic nuclear polyadenylated RNA-binding protein encoded by Saccharomyces cerevisiae NAB3 gene that is essential for cell viability. Nab3p is predominantly localized within the nucleoplasm and essential for growth in yeast. It may play an important role in packaging pre-mRNAs into ribonucleoprotein structures amenable to efficient nuclear RNA processing. Nab3p contains an N-terminal aspartic/glutamic acid-rich region, a central RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), and a C-terminal region rich in glutamine and proline residues. . Length = 71

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

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 15/30 (50%), Positives = 17/30 (56%)

Query: 4  GYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          GYAFI+F +  DA  A  G DG    GQ L
Sbjct: 39 GYAFIEFEDARDAEDAIRGRDGYDFDGQRL 68

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

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

 Score = 34.0 bits (78), Expect = 0.001
 Identities = 15/30 (50%), Positives = 17/30 (56%)

Query: 40 GYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          GYAFI+F +  DA  A  G DG    GQ L
Sbjct: 39 GYAFIEFEDARDAEDAIRGRDGYDFDGQRL 68

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

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

 Score = 33.8 bits (78), Expect = 0.001
 Identities = 10/17 (58%), Positives = 13/17 (76%)

Query: 3  KGYAFIQFSNPHDARSA 19
          KGY FIQF++  DA+ A
Sbjct: 40 KGYGFIQFADAEDAKKA 56

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

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

 Score = 33.8 bits (78), Expect = 0.001
 Identities = 10/17 (58%), Positives = 13/17 (76%)

Query: 39 KGYAFIQFSNPHDARSA 55
          KGY FIQF++  DA+ A
Sbjct: 40 KGYGFIQFADAEDAKKA 56

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

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

 Score = 33.5 bits (77), Expect = 0.001
 Identities = 9/33 (27%), Positives = 15/33 (45%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
            +G  +I F    DA  A +  +GR   G+ +
Sbjct: 35 HKRGNVYITFERSEDAARAIVDLNGRYFDGRLV 67

Length = 70

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

 Score = 33.5 bits (77), Expect = 0.001
 Identities = 9/33 (27%), Positives = 15/33 (45%)

Query: 37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
            +G  +I F    DA  A +  +GR   G+ +
Sbjct: 35 HKRGNVYITFERSEDAARAIVDLNGRYFDGRLV 67

Length = 70

>gnl|CDD|240783 cd12337, RRM1_SRSF4_like, RNA recognition motif 1 in serine/arginine-rich splicing factor 4 (SRSF4) and similar proteins

 Score = 33.1 bits (76), Expect = 0.002
 Identities = 10/40 (25%), Positives = 22/40 (55%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          +  G+ F++F +P DA  A    +G+ + G+ + +   +G
Sbjct: 31 LKNGFGFVEFEDPRDADDAVYELNGKELCGERVIVEHARG 70

This subfamily corresponds to the RRM1 in three serine/arginine (SR) proteins: serine/arginine-rich splicing factor 4 (SRSF4 or SRp75 or SFRS4), serine/arginine-rich splicing factor 5 (SRSF5 or SRp40 or SFRS5 or HRS), serine/arginine-rich splicing factor 6 (SRSF6 or SRp55). SRSF4 plays an important role in both, constitutive and alternative, splicing of many pre-mRNAs. It can shuttle between the nucleus and cytoplasm. SRSF5 regulates both alternative splicing and basal splicing. It is the only SR protein efficiently selected from nuclear extracts (NE) by the splicing enhancer (ESE) and essential for enhancer activation. SRSF6 preferentially interacts with a number of purine-rich splicing enhancers (ESEs) to activate splicing of the ESE-containing exon. It is the only protein from HeLa nuclear extract or purified SR proteins that specifically binds B element RNA after UV irradiation. SRSF6 may also recognize different types of RNA sites. Members in this family contain two N-terminal RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains), followed by a C-terminal RS domains rich in serine-arginine dipeptides. . Length = 70

>gnl|CDD|241038 cd12594, RRM1_SRSF4, RNA recognition motif 1 in vertebrate serine/arginine-rich splicing factor 4 (SRSF4)

 Score = 33.8 bits (77), Expect = 0.002
 Identities = 11/41 (26%), Positives = 23/41 (56%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          G+ L + +  GY F++F +  DA  A    +G+ + G+ ++
Sbjct: 24 GKILEVDLKNGYGFVEFDDLRDADDAVYELNGKDLCGERVI 64

This subgroup corresponds to the RRM1 of SRSF4, also termed pre-mRNA-splicing factor SRp75, or SRP001LB, or splicing factor, arginine/serine-rich 4 (SFRS4). SRSF4 is a splicing regulatory serine/arginine (SR) protein that plays an important role in both constitutive splicing and alternative splicing of many pre-mRNAs. For instance, it interacts with heterogeneous nuclear ribonucleoproteins, hnRNP G and hnRNP E2, and further regulates the 5' splice site of tau exon 10, whose misregulation causes frontotemporal dementia. SFSF4 also induces production of HIV-1 vpr mRNA through the inhibition of the 5'-splice site of exon 3. In addition, it activates splicing of the cardiac troponin T (cTNT) alternative exon by direct interactions with the cTNT exon 5 enhancer RNA. SRSF4 can shuttle between the nucleus and cytoplasm. It contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), a glycine-rich region, an internal region homologous to the RRM, and a very long, highly phosphorylated C-terminal SR domains rich in serine-arginine dipeptides. . Length = 74

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

 Score = 33.5 bits (77), Expect = 0.002
 Identities = 12/39 (30%), Positives = 20/39 (51%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY 41
          +G+A++QF +  DA  A    D    LG+ + I   +G 
Sbjct: 42 RGFAYVQFEDVRDAEDALYYLDRTRFLGREIEIQFAQGD 80

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

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

 Score = 33.5 bits (77), Expect = 0.002
 Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 3/40 (7%)

Query: 34 GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
          G S+  GY F+ + + +DA+ A    +G  +  + L VSY
Sbjct: 39 GQSL--GYGFVDYVDENDAQKAINTLNGFEIRNKRLKVSY 76

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

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

 Score = 33.5 bits (77), Expect = 0.002
 Identities = 13/47 (27%), Positives = 23/47 (48%), Gaps = 9/47 (19%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNP 49
          KG A++++ N   A  A L  DG  +  +T+ +++         SNP
Sbjct: 43 KGLAYVEYENESSASQAVLKMDGTEIKEKTISVAI---------SNP 80

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

>gnl|CDD|240801 cd12355, RRM_RBM18, RNA recognition motif in eukaryotic RNA-binding protein 18 and similar proteins

 Score = 33.0 bits (76), Expect = 0.003
 Identities = 11/30 (36%), Positives = 16/30 (53%)

Query: 4  GYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          GY F+ F    +A  A    +G+T LG+ L
Sbjct: 45 GYCFVTFETKEEAEKALKSLNGKTALGKKL 74

This subfamily corresponds to the RRM of RBM18, a putative RNA-binding protein containing a well-conserved RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain). The biological role of RBM18 remains unclear. . Length = 80

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

 Score = 32.5 bits (75), Expect = 0.003
 Identities = 10/37 (27%), Positives = 16/37 (43%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH 38
            G+AF++FS    A  A    +G    G+ L +   
Sbjct: 20 KPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDYS 56

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

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

 Score = 32.5 bits (75), Expect = 0.003
 Identities = 12/36 (33%), Positives = 17/36 (47%), Gaps = 1/36 (2%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
            G+AF++FS    A  A    +G    G+ L V Y
Sbjct: 20 KPGFAFVEFSTEEAAEKAVQYLNGVLFGGRPLRVDY 55

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

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

 Score = 33.0 bits (76), Expect = 0.003
 Identities = 11/35 (31%), Positives = 22/35 (62%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
          H+G+AF++F  P DA +A    +   + G+T+ ++
Sbjct: 39 HRGFAFVEFEEPEDAAAAIDNMNESELFGRTIRVN 73

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

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

 Score = 32.6 bits (75), Expect = 0.003
 Identities = 11/32 (34%), Positives = 20/32 (62%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          H+G+AF++F  P DA +A    +   + G+T+
Sbjct: 39 HRGFAFVEFEEPEDAAAAIDNMNESELFGRTI 70

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

>gnl|CDD|240724 cd12278, RRM_eIF3B, RNA recognition motif in eukaryotic translation initiation factor 3 subunit B (eIF-3B) and similar proteins

 Score = 32.9 bits (76), Expect = 0.003
 Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 11/41 (26%)

Query: 21 LGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDG 61
          + E G+T           KGYAF++F+ P +A+ A    +G
Sbjct: 43 VDETGKT-----------KGYAFVEFATPEEAKEAVKALNG 72

This subfamily corresponds to the RRM domain in eukaryotic translation initiation factor 3 (eIF-3), a large multisubunit complex that plays a central role in the initiation of translation by binding to the 40 S ribosomal subunit and promoting the binding of methionyl-tRNAi and mRNA. eIF-3B, also termed eIF-3 subunit 9, or Prt1 homolog, eIF-3-eta, eIF-3 p110, or eIF-3 p116, is the major scaffolding subunit of eIF-3. It interacts with eIF-3 subunits A, G, I, and J. eIF-3B contains an N-terminal RNA recognition motif (RRM), also termed RBD (RNA binding domain) or RNP (ribonucleoprotein domain), which is involved in the interaction with eIF-3J. The interaction between eIF-3B and eIF-3J is crucial for the eIF-3 recruitment to the 40 S ribosomal subunit. eIF-3B also binds directly to domain III of the internal ribosome-entry site (IRES) element of hepatitis-C virus (HCV) RNA through its N-terminal RRM, which may play a critical role in both cap-dependent and cap-independent translation. Additional research has shown that eIF-3B may function as an oncogene in glioma cells and can be served as a potential therapeutic target for anti-glioma therapy. This family also includes the yeast homolog of eIF-3 subunit B (eIF-3B, also termed PRT1 or eIF-3 p90) that interacts with the yeast homologs of eIF-3 subunits A(TIF32), G(TIF35), I(TIF34), J(HCR1), and E(Pci8). In yeast, eIF-3B (PRT1) contains an N-terminal RRM that is directly involved in the interaction with eIF-3A (TIF32) and eIF-3J (HCR1). In contrast to its human homolog, yeast eIF-3B (PRT1) may have potential to bind its total RNA through its RRM domain. . Length = 84

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

 Score = 32.7 bits (75), Expect = 0.004
 Identities = 10/19 (52%), Positives = 14/19 (73%)

Query: 2  HKGYAFIQFSNPHDARSAC 20
           KG+AFI+F  P +A+ AC
Sbjct: 40 IKGFAFIEFETPEEAQKAC 58

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

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

 Score = 32.7 bits (75), Expect = 0.004
 Identities = 10/19 (52%), Positives = 14/19 (73%)

Query: 38 HKGYAFIQFSNPHDARSAC 56
           KG+AFI+F  P +A+ AC
Sbjct: 40 IKGFAFIEFETPEEAQKAC 58

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

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

 Score = 32.9 bits (76), Expect = 0.004
 Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          I+  K +AF++F    +A +A L  DG    GQ L
Sbjct: 44 INPEKNFAFVEFRTVEEA-TAALALDGIIFKGQPL 77

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

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

 Score = 33.0 bits (76), Expect = 0.004
 Identities = 11/33 (33%), Positives = 21/33 (63%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
           +GYAFI+F +  D ++A    DG+ + G+ ++
Sbjct: 42 PRGYAFIEFEHERDMKAAYKYADGKKIDGRRVL 74

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

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

 Score = 32.6 bits (75), Expect = 0.004
 Identities = 11/31 (35%), Positives = 15/31 (48%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KGY F +F +   A SA    +G    G+ L
Sbjct: 40 KGYGFCEFEDIETAASAIRNLNGYEFNGRAL 70

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

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

 Score = 32.6 bits (75), Expect = 0.004
 Identities = 11/31 (35%), Positives = 15/31 (48%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KGY F +F +   A SA    +G    G+ L
Sbjct: 40 KGYGFCEFEDIETAASAIRNLNGYEFNGRAL 70

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

>gnl|CDD|240899 cd12453, RRM1_RIM4_like, RNA recognition motif 1 in yeast meiotic activator RIM4 and similar proteins

 Score = 32.8 bits (75), Expect = 0.004
 Identities = 12/36 (33%), Positives = 19/36 (52%)

Query: 5  YAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          YAF+QF+N  DA++A     G  + G+ +     K 
Sbjct: 47 YAFVQFTNDDDAKNALAKGQGTILDGRHIRCERAKV 82

This subfamily corresponds to the RRM1 of RIM4, also termed regulator of IME2 protein 4, a putative RNA binding protein that is expressed at elevated levels early in meiosis. It functions as a meiotic activator required for both the IME1- and IME2-dependent pathways of meiotic gene expression, as well as early events of meiosis, such as meiotic division and recombination, in Saccharomyces cerevisiae. RIM4 contains two RNA recognition motifs (RRMs), also termed RBDs (RNA binding domains) or RNPs (ribonucleoprotein domains). The family also includes a putative RNA-binding protein termed multicopy suppressor of sporulation protein Msa1. It is a putative RNA-binding protein encoded by a novel gene, msa1, from the fission yeast Schizosaccharomyces pombe. Msa1 may be involved in the inhibition of sexual differentiation by controlling the expression of Ste11-regulated genes, possibly through the pheromone-signaling pathway. Like RIM4, Msa1 also contains two RRMs, both of which are essential for the function of Msa1. . Length = 86

>gnl|CDD|240860 cd12414, RRM2_RBM28_like, RNA recognition motif 2 in RNA-binding protein 28 (RBM28) and similar proteins

 Score = 32.6 bits (75), Expect = 0.004
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGI 35
           KG+AF+QF++  DA  A  G +G+ + G+ + +
Sbjct: 39 KKGFAFVQFTSKADAEKAIKGVNGKKIKGRPVAV 72

This subfamily corresponds to the RRM2 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 = 76

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	89
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.74
KOG0148|consensus	321		99.68
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	99.67
KOG0131|consensus	203		99.64
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.63
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.58
TIGR01661	352	ELAV_HUD_SF ELAV/HuD family splicing factor. These	99.58
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.57
KOG0145|consensus	360		99.55
KOG0124|consensus	544		99.55
TIGR01628	562	PABP-1234 polyadenylate binding protein, human typ	99.54
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.54
TIGR01642	509	U2AF_lg U2 snRNP auxilliary factor, large subunit,	99.52
KOG0117|consensus	506		99.52
TIGR01622	457	SF-CC1 splicing factor, CC1-like family. A homolog	99.49
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.47
KOG0110|consensus	725		99.46
KOG0123|consensus	369		99.43
KOG0145|consensus	360		99.38
KOG0147|consensus	549		99.38
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.36
TIGR01648	578	hnRNP-R-Q heterogeneous nuclear ribonucleoprotein	99.36
TIGR01649	481	hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor	99.34
KOG0127|consensus	678		99.34
KOG0109|consensus	346		99.24
KOG0123|consensus	369		99.2
KOG0147|consensus	549		99.08
KOG0106|consensus	216		99.07
smart00361	70	RRM_1 RNA recognition motif.	99.04
KOG0125|consensus	376		99.02
TIGR01645	612	half-pint poly-U binding splicing factor, half-pin	99.01
KOG0144|consensus	510		99.0
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.95
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	98.93
KOG0127|consensus	678		98.93
KOG0120|consensus	500		98.91
KOG4207|consensus	256		98.89
KOG0148|consensus	321		98.86
smart00361	70	RRM_1 RNA recognition motif.	98.85
KOG0146|consensus	371		98.83
KOG0111|consensus	298		98.77
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.75
KOG0107|consensus	195		98.74
KOG0144|consensus	510		98.72
PLN03120	260	nucleic acid binding protein; Provisional	98.67
PLN03134	144	glycine-rich RNA-binding protein 4; Provisional	98.65
PF13893	56	RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or	98.64
KOG0125|consensus	376		98.62
TIGR01659	346	sex-lethal sex-lethal family splicing factor. This	98.6
KOG0111|consensus	298		98.52
smart00360	71	RRM RNA recognition motif.	98.49
KOG0105|consensus	241		98.48
KOG4207|consensus	256		98.47
PF00076	70	RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or	98.45
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.44
KOG0107|consensus	195		98.43
KOG0113|consensus	335		98.43
smart00362	72	RRM_2 RNA recognition motif.	98.42
KOG1548|consensus	382		98.41
KOG0131|consensus	203		98.35
PLN03213	759	repressor of silencing 3; Provisional	98.35
PLN03121	243	nucleic acid binding protein; Provisional	98.34
KOG0122|consensus	270		98.28
KOG0122|consensus	270		98.26
smart00360	71	RRM RNA recognition motif.	98.25
KOG0121|consensus	153		98.23
KOG0130|consensus	170		98.22
KOG0124|consensus	544		98.17
smart00362	72	RRM_2 RNA recognition motif.	98.17
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	98.14
KOG0121|consensus	153		98.12
KOG4208|consensus	214		98.12
COG0724	306	RNA-binding proteins (RRM domain) [General functio	98.11
KOG0110|consensus	725		98.1
KOG4206|consensus	221		98.1
PF14259	70	RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or	98.09
KOG0108|consensus	435		98.07
KOG4205|consensus	311		98.06
KOG0226|consensus	290		98.02
KOG0149|consensus	247		97.98
cd00590	74	RRM RRM (RNA recognition motif), also known as RBD	97.97
KOG4208|consensus	214		97.97
KOG4212|consensus	608		97.95
KOG0113|consensus	335		97.95
PLN03120	260	nucleic acid binding protein; Provisional	97.92
COG0724	306	RNA-binding proteins (RRM domain) [General functio	97.83
KOG0130|consensus	170		97.83
KOG0109|consensus	346		97.8
KOG0108|consensus	435		97.74
KOG4211|consensus	510		97.71
KOG0126|consensus	219		97.71
KOG0120|consensus	500		97.71
KOG0117|consensus	506		97.67
KOG0114|consensus	124		97.66
PLN03213	759	repressor of silencing 3; Provisional	97.62
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	97.62
KOG4206|consensus	221		97.59
KOG0126|consensus	219		97.59
KOG1190|consensus	492		97.55
KOG4661|consensus	940		97.54
KOG4212|consensus	608		97.53
KOG0226|consensus	290		97.51
KOG1457|consensus	284		97.45
KOG0105|consensus	241		97.39
KOG0146|consensus	371		97.35
KOG0149|consensus	247		97.26
PLN03121	243	nucleic acid binding protein; Provisional	97.21
KOG0114|consensus	124		97.03
KOG0106|consensus	216		97.02
KOG4209|consensus	231		96.86
KOG1190|consensus	492		96.75
KOG2202|consensus	260		96.65
KOG0132|consensus	894		96.61
KOG1456|consensus	494		96.54
KOG1457|consensus	284		96.52
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	96.42
KOG0415|consensus	479		96.41
KOG0132|consensus	894		96.39
KOG1996|consensus	378		96.27
PF11608	90	Limkain-b1: Limkain b1; InterPro: IPR024582 This e	96.27
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	96.14
KOG0415|consensus	479		95.91
KOG1456|consensus	494		95.86
KOG4209|consensus	231		95.83
KOG0153|consensus	377		95.7
KOG0533|consensus	243		95.46
KOG4661|consensus	940		95.41
PF04059	97	RRM_2: RNA recognition motif 2; InterPro: IPR00720	95.38
COG5175	480	MOT2 Transcriptional repressor [Transcription]	95.36
KOG0151|consensus	877		95.11
KOG2314|consensus	698		94.99
KOG1365|consensus	508		94.79
KOG4210|consensus	285		94.75
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	94.64
KOG4454|consensus	267		94.49
KOG4660|consensus	549		94.22
KOG4211|consensus	510		94.18
KOG4454|consensus	267		93.98
KOG2314|consensus	698		93.86
KOG1548|consensus	382		93.81
PF08952	146	DUF1866: Domain of unknown function (DUF1866) ; In	93.66
KOG0128|consensus	881		93.59
KOG4307|consensus	944		93.49
KOG4205|consensus	311		93.48
KOG4660|consensus	549		93.01
KOG0153|consensus	377		92.86
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	92.67
KOG0116|consensus	419		92.03
PF08777	105	RRM_3: RNA binding motif; InterPro: IPR014886 This	91.51
PF14605	53	Nup35_RRM_2: Nup53/35/40-type RNA recognition moti	91.3
KOG2193|consensus	584		90.66
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	90.48
KOG0533|consensus	243		89.37
COG5175	480	MOT2 Transcriptional repressor [Transcription]	89.3
KOG1996|consensus	378		89.01
PF05172	100	Nup35_RRM: Nup53/35/40-type RNA recognition motif;	88.88
KOG2202|consensus	260		88.35
PF11767	66	SET_assoc: Histone lysine methyltransferase SET as	87.57
KOG1995|consensus	351		87.13
PF03880	74	DbpA: DbpA RNA binding domain ; InterPro: IPR00558	86.73
KOG0151|consensus	877		86.45
PF11823	73	DUF3343: Protein of unknown function (DUF3343); In	85.51
KOG1365|consensus	508		85.24
PF11823	73	DUF3343: Protein of unknown function (DUF3343); In	84.77
PF04847	184	Calcipressin: Calcipressin; InterPro: IPR006931 Ca	81.88
KOG4307|consensus	944		81.25
KOG2068|consensus	327		80.58

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

Probab=99.74  E-value=2.1e-17  Score=125.55  Aligned_cols=84  Identities=26%  Similarity=0.377  Sum_probs=72.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|+.                                            
T Consensus       148 skGfAFVeF~s~e~A~~Ai~~lnG~~i~GR~IkV~rp~~~p~a~~~~~~~~~~~~~~~rLfVgnLp~~vteedLk~lFs~  227 (612)
T TIGR01645       148 HKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFEA  227 (612)
T ss_pred             cCCeEEEEeCcHHHHHHHHHhcCCeEEecceeeecccccccccccccccccccccccceEEeecCCCCCCHHHHHHHHhh
Confidence            689999999999999999999999999999888741                                            


Q ss_pred             -----------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCC
Q psy4383          38 -----------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSP   85 (89)
Q Consensus        38 -----------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~   85 (89)
                                       +||||||+|+++++|.+||.+|||..|+|+.|++...---+...+.|.
T Consensus       228 FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~kAi~pP~~~~~pa  292 (612)
T TIGR01645       228 FGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVGKCVTPPDALLQPA  292 (612)
T ss_pred             cCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEecCCCccccCCCC
Confidence                             689999999999999999999999999999998765543333444333

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

>KOG0148|consensus

Probab=99.68  E-value=2.4e-16  Score=109.57  Aligned_cols=69  Identities=29%  Similarity=0.487  Sum_probs=65.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      +||||||.|.+.++|+.||..|||.=|.+|.|+-+|                                            
T Consensus       103 sKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRTNWATRKp~e~n~~~ltfdeV~NQssp~NtsVY~G~I~~~lte~~mr  182 (321)
T KOG0148|consen  103 SKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRTNWATRKPSEMNGKPLTFDEVYNQSSPDNTSVYVGNIASGLTEDLMR  182 (321)
T ss_pred             ccceeEEeccchHHHHHHHHHhCCeeeccceeeccccccCccccCCCCccHHHHhccCCCCCceEEeCCcCccccHHHHH
Confidence            789999999999999999999999999999888764                                            


Q ss_pred             ----------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 ----------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ----------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                                      .+||+||+|++.|+|.+||.+|||.++.|+.++
T Consensus       183 ~~Fs~fG~I~EVRvFk~qGYaFVrF~tkEaAahAIv~mNntei~G~~Vk  231 (321)
T KOG0148|consen  183 QTFSPFGPIQEVRVFKDQGYAFVRFETKEAAAHAIVQMNNTEIGGQLVR  231 (321)
T ss_pred             HhcccCCcceEEEEecccceEEEEecchhhHHHHHHHhcCceeCceEEE
Confidence                            689999999999999999999999999999885

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=99.67  E-value=4.1e-16  Score=112.17  Aligned_cols=71  Identities=30%  Similarity=0.442  Sum_probs=64.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.++++|+.|+..|+|..+.+++|+|.+                                            
T Consensus       148 srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~~a~p~~~~~~~~~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~  227 (346)
T TIGR01659       148 SFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGQIVQKNILR  227 (346)
T ss_pred             cCcEEEEEEccHHHHHHHHHHcCCCccCCceeeeecccccccccccceeEEeCCCCcccHHHHHHHHHhcCCEEEEEEee
Confidence            679999999999999999999999999999998862                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecC--eEEEEE
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLVSY   72 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~~   72 (89)
                            ++|||||+|.++++|++||+.||+..+.+  ++|++.
T Consensus       228 d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~~~g~~~~l~V~  270 (346)
T TIGR01659       228 DKLTGTPRGVAFVRFNKREEAQEAISALNNVIPEGGSQPLTVR  270 (346)
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHHHhCCCccCCCceeEEEE
Confidence                  56999999999999999999999999977  566554

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).

>KOG0131|consensus

Probab=99.64  E-value=4.1e-16  Score=103.11  Aligned_cols=84  Identities=20%  Similarity=0.309  Sum_probs=73.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++||||++|.++++|+.|++-||+..|+||+|+|+.                                            
T Consensus        50 ~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i  129 (203)
T KOG0131|consen   50 HQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKI  129 (203)
T ss_pred             ccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecccccccccccccccccccCcchhHHHHHHHHHhccccccCCcc
Confidence            789999999999999999999999999999999972                                            


Q ss_pred             --------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee--eecceeccCC
Q psy4383          38 --------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ--YYNGCRYVSP   85 (89)
Q Consensus        38 --------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~--~~~~~~~~~~   85 (89)
                              ++|||||.|.+.+.+..||.+|||+.+..++|++-...  ...|.+++++
T Consensus       130 ~rd~~tg~~~~~g~i~~~sfeasd~ai~s~ngq~l~nr~itv~ya~k~~~kg~~~g~~  187 (203)
T KOG0131|consen  130 MRDPDTGNPKGFGFINYASFEASDAAIGSMNGQYLCNRPITVSYAFKKDTKGERHGTA  187 (203)
T ss_pred             cccccCCCCCCCeEEechhHHHHHHHHHHhccchhcCCceEEEEEEecCCCcccCCCH
Confidence                    68999999999999999999999999999999765553  3445555543

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.63  E-value=2.1e-15  Score=106.91  Aligned_cols=66  Identities=30%  Similarity=0.500  Sum_probs=61.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+                                            
T Consensus        44 s~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~i~v~~a~~~~~~~~~~~l~v~~l~~~~~~~~l~~~f~~~G~i~~~~~~~  123 (352)
T TIGR01661        44 SLGYGFVNYVRPEDAEKAVNSLNGLRLQNKTIKVSYARPSSDSIKGANLYVSGLPKTMTQHELESIFSPFGQIITSRILS  123 (352)
T ss_pred             cceEEEEEECcHHHHHHHHhhcccEEECCeeEEEEeecccccccccceEEECCccccCCHHHHHHHHhccCCEEEEEEEe
Confidence            679999999999999999999999999999998842                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCe
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQ   67 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr   67 (89)
                            ++|||||+|.+.++|++||..|||..+.|+
T Consensus       124 ~~~~~~~~g~~fv~f~~~~~A~~ai~~l~g~~~~g~  159 (352)
T TIGR01661       124 DNVTGLSKGVGFIRFDKRDEADRAIKTLNGTTPSGC  159 (352)
T ss_pred             cCCCCCcCcEEEEEECCHHHHHHHHHHhCCCccCCC
Confidence                  589999999999999999999999999884

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

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

Probab=99.58  E-value=1.6e-14  Score=106.87  Aligned_cols=78  Identities=24%  Similarity=0.456  Sum_probs=67.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+                                            
T Consensus       336 ~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~v~~l~  415 (509)
T TIGR01642       336 SKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRACVGANQATIDTSNGMAPVTLLAKALSQSILQIGGKPTKVVQLT  415 (509)
T ss_pred             cCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECccCCCCCCccccccccccccccccchhhhccccCCCceEEEec
Confidence            689999999999999999999999999998776521                                            


Q ss_pred             -----------------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 -----------------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 -----------------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                                                                     .+|++||+|.++++|++||.+|||.+++|+.|.
T Consensus       416 N~~~~~~l~~d~~~~~~~edl~~~f~~~G~v~~v~i~~~~~~~~~~~~~G~~fV~F~~~e~A~~A~~~lnGr~~~gr~v~  495 (509)
T TIGR01642       416 NLVTGDDLMDDEEYEEIYEDVKTEFSKYGPLINIVIPRPNGDRNSTPGVGKVFLEYADVRSAEKAMEGMNGRKFNDRVVV  495 (509)
T ss_pred             cCCchhHhcCcchHHHHHHHHHHHHHhcCCeeEEEeeccCcCCCcCCCcceEEEEECCHHHHHHHHHHcCCCEECCeEEE
Confidence                                                           248999999999999999999999999999995


Q ss_pred             EEeeeeecceec
Q psy4383          71 SYKLQYYNGCRY   82 (89)
Q Consensus        71 ~~~~~~~~~~~~   82 (89)
                         +.|+.-..|
T Consensus       496 ---~~~~~~~~~  504 (509)
T TIGR01642       496 ---AAFYGEDCY  504 (509)
T ss_pred             ---EEEeCHHHh
Confidence               455544444

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

>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor

Probab=99.58  E-value=1.7e-14  Score=102.28  Aligned_cols=34  Identities=32%  Similarity=0.468  Sum_probs=32.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +||||||+|.+.++|.+||.+|||..++||+|.+
T Consensus       310 skG~aFV~F~~~~~A~~Ai~~lnG~~~~gr~i~V  343 (352)
T TIGR01661       310 CKGYGFVSMTNYDEAAMAILSLNGYTLGNRVLQV  343 (352)
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence            6999999999999999999999999999999964

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

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

Probab=99.57  E-value=1.9e-14  Score=108.04  Aligned_cols=72  Identities=24%  Similarity=0.439  Sum_probs=66.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..+++..+.|+.|+|.+                                            
T Consensus        41 s~G~afV~F~~~~~A~~Al~~ln~~~i~gk~i~i~~s~~~~~~~~~~~~~vfV~nLp~~~~~~~L~~~F~~~G~i~~~~i  120 (562)
T TIGR01628        41 SLGYGYVNFQNPADAERALETMNFKRLGGKPIRIMWSQRDPSLRRSGVGNIFVKNLDKSVDNKALFDTFSKFGNILSCKV  120 (562)
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCeeEEeecccccccccccCCCceEEcCCCccCCHHHHHHHHHhcCCcceeEe
Confidence            579999999999999999999999999999988852                                            


Q ss_pred             -------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 -------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 -------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                             ++|||||+|++.++|++||..|||..+.|+.|.+..
T Consensus       121 ~~~~~g~skg~afV~F~~~e~A~~Ai~~lng~~~~~~~i~v~~  163 (562)
T TIGR01628       121 ATDENGKSRGYGFVHFEKEESAKAAIQKVNGMLLNDKEVYVGR  163 (562)
T ss_pred             eecCCCCcccEEEEEECCHHHHHHHHHHhcccEecCceEEEec
Confidence                   689999999999999999999999999999997643

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

>KOG0145|consensus

Probab=99.55  E-value=1.6e-14  Score=100.48  Aligned_cols=73  Identities=26%  Similarity=0.443  Sum_probs=66.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      +-|||||.|-+++||++|+..+||-.|..+.|+|+.                                            
T Consensus        82 SLGYGFVNYv~p~DAe~AintlNGLrLQ~KTIKVSyARPSs~~Ik~aNLYvSGlPktMtqkelE~iFs~fGrIItSRiL~  161 (360)
T KOG0145|consen   82 SLGYGFVNYVRPKDAEKAINTLNGLRLQNKTIKVSYARPSSDSIKDANLYVSGLPKTMTQKELEQIFSPFGRIITSRILV  161 (360)
T ss_pred             ccccceeeecChHHHHHHHhhhcceeeccceEEEEeccCChhhhcccceEEecCCccchHHHHHHHHHHhhhhhhhhhhh
Confidence            569999999999999999999999999999999973                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCe--EEEEEee
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQ--TLVSYKL   74 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr--~i~~~~~   74 (89)
                            +||.|||+|+.++||++||+.|||++..|.  +|+++..
T Consensus       162 dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P~g~tepItVKFa  206 (360)
T KOG0145|consen  162 DQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKPSGCTEPITVKFA  206 (360)
T ss_pred             hcccceecceeEEEecchhHHHHHHHhccCCCCCCCCCCeEEEec
Confidence                  899999999999999999999999999885  6765443

>KOG0124|consensus

Probab=99.55  E-value=6.5e-15  Score=106.28  Aligned_cols=72  Identities=29%  Similarity=0.470  Sum_probs=67.7

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------   37 (89)
                      .||||+||+|+-++.|+-|+..|||.++.||.|+|..                                           
T Consensus       153 kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPsNmpQAQpiID~vqeeAk~fnRiYVaSvHpDLSe~DiKSVFE  232 (544)
T KOG0124|consen  153 KHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPSNMPQAQPIIDMVQEEAKKFNRIYVASVHPDLSETDIKSVFE  232 (544)
T ss_pred             cccceEEEEEeCcHHHHHHHHHhccccccCccccccCCCCCcccchHHHHHHHHHHhhheEEeeecCCCccHHHHHHHHH
Confidence            3899999999999999999999999999999999962                                           


Q ss_pred             ------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 ------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                                        |||||||+|.+..+..+||.+||-..|+|+-+++-
T Consensus       233 AFG~I~~C~LAr~pt~~~HkGyGfiEy~n~qs~~eAiasMNlFDLGGQyLRVG  285 (544)
T KOG0124|consen  233 AFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG  285 (544)
T ss_pred             hhcceeeEEeeccCCCCCccceeeEEeccccchHHHhhhcchhhcccceEecc
Confidence                              89999999999999999999999999999988753

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

Probab=99.54  E-value=5.2e-14  Score=105.72  Aligned_cols=74  Identities=31%  Similarity=0.546  Sum_probs=66.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec----CeEeEEEc----------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL----GQTLGISM----------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~----g~~i~v~~----------------------------------------   37 (89)
                      ++|||||+|.+.++|..|+..|+|..+.    |+.+.|..                                        
T Consensus       218 ~~G~afV~F~~~e~A~~Av~~l~g~~i~~~~~g~~l~v~~a~~k~er~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~  297 (562)
T TIGR01628       218 SRGFAFVNFEKHEDAAKAVEEMNGKKIGLAKEGKKLYVGRAQKRAEREAELRRKFEELQQERKMKAQGVNLYVKNLDDTV  297 (562)
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCcEecccccceeeEeecccChhhhHHHHHhhHHhhhhhhhcccCCCEEEEeCCCCcc
Confidence            5799999999999999999999999998    77666631                                        


Q ss_pred             ---------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 ---------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ---------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                                                 ++|||||+|.+.++|++||.+|||..+.|++|.+..++
T Consensus       298 ~~~~L~~~F~~~G~i~~~~i~~d~~g~~~g~gfV~f~~~~~A~~A~~~~~g~~~~gk~l~V~~a~  362 (562)
T TIGR01628       298 TDEKLRELFSECGEITSAKVMLDEKGVSRGFGFVCFSNPEEANRAVTEMHGRMLGGKPLYVALAQ  362 (562)
T ss_pred             CHHHHHHHHHhcCCeEEEEEEECCCCCcCCeEEEEeCCHHHHHHHHHHhcCCeeCCceeEEEecc
Confidence                                       68999999999999999999999999999999775543

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

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

Probab=99.54  E-value=7.4e-14  Score=102.28  Aligned_cols=71  Identities=25%  Similarity=0.430  Sum_probs=64.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+. |+|..+.|++|.|..                                            
T Consensus       130 skg~afVeF~~~e~A~~Al~-l~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~p~~~~l~v~nl~~~~te~~l~~~f~  208 (457)
T TIGR01622       130 SKGVAYVEFYDVESVIKALA-LTGQMLLGRPIIVQSSQAEKNRAAKAATHQPGDIPNFLKLYVGNLHFNITEQELRQIFE  208 (457)
T ss_pred             cceEEEEEECCHHHHHHHHH-hCCCEECCeeeEEeecchhhhhhhhcccccCCCCCCCCEEEEcCCCCCCCHHHHHHHHH
Confidence            58999999999999999996 999999998877631                                            


Q ss_pred             ------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 ------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                                        ++|||||+|.+.++|.+|+..|||..|.|++|.+..
T Consensus       209 ~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~~i~g~~i~v~~  262 (457)
T TIGR01622       209 PFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGFELAGRPIKVGY  262 (457)
T ss_pred             hcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCcEECCEEEEEEE
Confidence                              579999999999999999999999999999997655

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

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

Probab=99.52  E-value=7.4e-14  Score=103.33  Aligned_cols=72  Identities=25%  Similarity=0.366  Sum_probs=63.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE---------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS---------------------------------------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---------------------------------------------   36 (89)
                      .+|||||+|.+.++|..|+. |+|..+.|+.|+|.                                             
T Consensus       222 ~kg~afVeF~~~e~A~~Al~-l~g~~~~g~~l~v~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v  300 (509)
T TIGR01642       222 EKNFAFLEFRTVEEATFAMA-LDSIIYSNVFLKIRRPHDYIPVPQITPEVSQKNPDDNAKNVEKLVNSTTVLDSKDRIYI  300 (509)
T ss_pred             CCCEEEEEeCCHHHHhhhhc-CCCeEeeCceeEecCccccCCccccCCCCCCCCCcccccccccccccccCCCCCCEEEE
Confidence            47999999999999999995 99999988877652                                             


Q ss_pred             ----------------------------------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 ----------------------------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ----------------------------------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                                                        .++|||||+|.+.++|+.||..|||..|.|++|.+..+
T Consensus       301 ~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g~~~g~afv~f~~~~~a~~A~~~l~g~~~~~~~l~v~~a  372 (509)
T TIGR01642       301 GNLPLYLGEDQIKELLESFGDLKAFNLIKDIATGLSKGYAFCEYKDPSVTDVAIAALNGKDTGDNKLHVQRA  372 (509)
T ss_pred             eCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence                                              06899999999999999999999999999999976544

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

>KOG0117|consensus

Probab=99.52  E-value=6.7e-14  Score=102.50  Aligned_cols=37  Identities=24%  Similarity=0.417  Sum_probs=34.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .|-||||+|.++++|-+|++.|||..|+|..|.+.-+
T Consensus       292 ~rDYaFVHf~eR~davkAm~~~ngkeldG~~iEvtLA  328 (506)
T KOG0117|consen  292 PRDYAFVHFAEREDAVKAMKETNGKELDGSPIEVTLA  328 (506)
T ss_pred             ccceeEEeecchHHHHHHHHHhcCceecCceEEEEec
Confidence            5789999999999999999999999999999987655

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

Probab=99.49  E-value=2.2e-13  Score=99.78  Aligned_cols=43  Identities=21%  Similarity=0.314  Sum_probs=35.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceecc
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYV   83 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~   83 (89)
                      ..|++||+|.++++|++|+++|||++++|+.|.+   .|+....|-
T Consensus       409 ~~G~~fV~F~~~e~A~~A~~~lnGr~f~gr~i~~---~~~~~~~~~  451 (457)
T TIGR01622       409 SAGKIYLKFSSVDAALAAFQALNGRYFGGKMITA---AFVVNDVYD  451 (457)
T ss_pred             CceeEEEEECCHHHHHHHHHHhcCcccCCeEEEE---EEEcHHHHH
Confidence            4699999999999999999999999999999964   444444443

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.

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

Probab=99.47  E-value=4.4e-13  Score=101.76  Aligned_cols=73  Identities=21%  Similarity=0.364  Sum_probs=63.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCC--ceecCeEeEEEc------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDG--RTVLGQTLGISM------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g--~~l~g~~i~v~~------------------------------------------   37 (89)
                      ++|||||+|.++++|..|+.+|+.  ..+.|+.|.|.+                                          
T Consensus       181 nRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~VdwA~p~~~~d~~~~~~~k~LfVgNL~~~~tee~L~~~F~~f~~G  260 (578)
T TIGR01648       181 NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVDWAEPEEEVDEDVMAKVKILYVRNLMTTTTEEIIEKSFSEFKPG  260 (578)
T ss_pred             cCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEEeecccccccccccccccEEEEeCCCCCCCHHHHHHHHHhcCCC
Confidence            589999999999999999988753  346777777652                                          


Q ss_pred             -------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 -------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 -------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                             .++||||+|+++++|++||.+|||..|.|+.|.+...
T Consensus       261 ~I~rV~~~rgfAFVeF~s~e~A~kAi~~lnG~~i~Gr~I~V~~A  304 (578)
T TIGR01648       261 KVERVKKIRDYAFVHFEDREDAVKAMDELNGKELEGSEIEVTLA  304 (578)
T ss_pred             ceEEEEeecCeEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence                   5899999999999999999999999999999976544

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.

>KOG0110|consensus

Probab=99.46  E-value=1.6e-13  Score=104.61  Aligned_cols=70  Identities=27%  Similarity=0.630  Sum_probs=66.0

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------   37 (89)
                      +|.|||||+|.++++|+.|+..|+|+.|.|+.|.|.+                                           
T Consensus       558 lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aF  637 (725)
T KOG0110|consen  558 LSMGFGFVEFAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAF  637 (725)
T ss_pred             cccceeEEEecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHhcc
Confidence            5779999999999999999999999999999888862                                           


Q ss_pred             ----------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 ----------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ----------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                                      ++|||||.|.+.++|.+|+.+|.++.|.||.+.
T Consensus       638 GqlksvRlPKK~~k~a~rGF~Fv~f~t~~ea~nA~~al~STHlyGRrLV  686 (725)
T KOG0110|consen  638 GQLKSVRLPKKIGKGAHRGFGFVDFLTPREAKNAFDALGSTHLYGRRLV  686 (725)
T ss_pred             cceeeeccchhhcchhhccceeeeccCcHHHHHHHHhhcccceechhhh
Confidence                            799999999999999999999999999999985

>KOG0123|consensus

Probab=99.43  E-value=5.5e-13  Score=96.78  Aligned_cols=69  Identities=29%  Similarity=0.480  Sum_probs=65.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------c
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------H   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------~   38 (89)
                      +-|||||.|.++++|++|+.+||-..+.|++|++.|                                           +
T Consensus        36 slgy~yvnf~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~g~  115 (369)
T KOG0123|consen   36 SLGYAYVNFQQPADAERALDTMNFDVLKGKPIRIMWSQRDPSLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDENGS  115 (369)
T ss_pred             ccceEEEecCCHHHHHHHHHHcCCcccCCcEEEeehhccCCceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCCCc
Confidence            469999999999999999999999999999999974                                           7


Q ss_pred             cCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        39 rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +|| ||+|+++++|++||..|||..+.|++|-+
T Consensus       116 kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~v  147 (369)
T KOG0123|consen  116 KGY-FVQFESEESAKKAIEKLNGMLLNGKKIYV  147 (369)
T ss_pred             eee-EEEeCCHHHHHHHHHHhcCcccCCCeeEE
Confidence            999 99999999999999999999999999954

>KOG0145|consensus

Probab=99.38  E-value=2.3e-12  Score=89.81  Aligned_cols=34  Identities=24%  Similarity=0.359  Sum_probs=32.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +||||||.+.+.+||..||.+|||..+++|.+.+
T Consensus       319 CKGfgFVtMtNYdEAamAi~sLNGy~lg~rvLQV  352 (360)
T KOG0145|consen  319 CKGFGFVTMTNYDEAAMAIASLNGYRLGDRVLQV  352 (360)
T ss_pred             ccceeEEEecchHHHHHHHHHhcCccccceEEEE
Confidence            8999999999999999999999999999998853

>KOG0147|consensus

Probab=99.38  E-value=1.6e-12  Score=96.95  Aligned_cols=48  Identities=23%  Similarity=0.361  Sum_probs=43.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCCC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPT   88 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~~   88 (89)
                      +-|+.||.|.+.+.|..|+.+|||+|+.|+.|+   +.|.+-..|.+.+|+
T Consensus       489 s~g~VYvrc~s~~~A~~a~~alhgrWF~gr~It---a~~~~~~~Y~~~FP~  536 (549)
T KOG0147|consen  489 SAGCVYVRCPSAEAAGTAVKALHGRWFAGRMIT---AKYLPLERYHSKFPD  536 (549)
T ss_pred             CCceEEEecCcHHHHHHHHHHHhhhhhccceeE---EEEeehhhhhhhCCC
Confidence            559999999999999999999999999999995   778888889888886

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

Probab=99.36  E-value=4.2e-12  Score=94.46  Aligned_cols=77  Identities=17%  Similarity=0.277  Sum_probs=65.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+                                            
T Consensus       312 ~~g~afV~f~~~~~A~~Ai~~lng~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~d~~~~~~~r~~~~~~~~~~~~~  391 (481)
T TIGR01649       312 KKETALIEMADPYQAQLALTHLNGVKLFGKPLRVCPSKQQNVQPPREGQLDDGLTSYKDYSSSRNHRFKKPGSANKNNIQ  391 (481)
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEcccccccCCCCCcCcCCCcccccccCCccccCCCcccccccccC
Confidence            479999999999999999999999999998776630                                            


Q ss_pred             -------------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeE---EEE
Q psy4383          38 -------------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQT---LVS   71 (89)
Q Consensus        38 -------------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~---i~~   71 (89)
                                                                 .+|+|||+|++.++|.+||..|||..|.++.   ...
T Consensus       392 ~ps~~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~~~~~  471 (481)
T TIGR01649       392 PPSATLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKDNERSKMGLLEWESVEDAVEALIALNHHQLNEPNGSAPYH  471 (481)
T ss_pred             CCCcEEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCCCCcceeEEEEcCCHHHHHHHHHHhcCCccCCCCCCccce
Confidence                                                       2699999999999999999999999999885   112


Q ss_pred             Eeeeeec
Q psy4383          72 YKLQYYN   78 (89)
Q Consensus        72 ~~~~~~~   78 (89)
                      +++.|+.
T Consensus       472 lkv~fs~  478 (481)
T TIGR01649       472 LKVSFST  478 (481)
T ss_pred             EEEEecc
Confidence            3466654

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

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

Probab=99.36  E-value=2.5e-12  Score=97.64  Aligned_cols=71  Identities=23%  Similarity=0.427  Sum_probs=59.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec-CeEeEEE--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLGIS--------------------------------------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~-g~~i~v~--------------------------------------------   36 (89)
                      +||||||+|.+.++|+.|+..||+..+. ++.+.|.                                            
T Consensus        98 sRGfaFV~F~~~e~A~~Ai~~lng~~i~~Gr~l~V~~S~~~~rLFVgNLP~~~TeeeL~eeFskv~egvv~vIv~~~~~~  177 (578)
T TIGR01648        98 NRGYAFVTFCGKEEAKEAVKLLNNYEIRPGRLLGVCISVDNCRLFVGGIPKNKKREEILEEFSKVTEGVVDVIVYHSAAD  177 (578)
T ss_pred             ccceEEEEeCCHHHHHHHHHHcCCCeecCCccccccccccCceeEeecCCcchhhHHHHHHhhcccCCceEEEEeccccc
Confidence            7899999999999999999999998874 5554332                                            


Q ss_pred             --cccCeEEEEeCCHHHHHHHHHhcCC--ceecCeEEEEE
Q psy4383          37 --MHKGYAFIQFSNPHDARSACLGEDG--RTVLGQTLVSY   72 (89)
Q Consensus        37 --~~rG~afV~F~~~~~a~~Ai~~l~g--~~l~gr~i~~~   72 (89)
                        .++|||||+|.++++|++|++.|+.  ..+.|+.|.+.
T Consensus       178 kgKnRGFAFVeF~s~edAa~AirkL~~gki~l~Gr~I~Vd  217 (578)
T TIGR01648       178 KKKNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHVIAVD  217 (578)
T ss_pred             cCccCceEEEEcCCHHHHHHHHHHhhccceEecCceEEEE
Confidence              1589999999999999999998864  35789988653

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

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

Probab=99.34  E-value=8.2e-12  Score=92.93  Aligned_cols=70  Identities=19%  Similarity=0.178  Sum_probs=59.3

Q ss_pred             cceeEEEEecCHHHHHHHHhh--cCCceecCeEeEEEc------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLG--EDGRTVLGQTLGISM------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~--l~g~~l~g~~i~v~~------------------------------------------   37 (89)
                      +||||||+|.+.++|+.|+..  +++..+.|++|.|++                                          
T Consensus        37 ~k~~afVef~~~e~A~~Ai~~~~~~~~~l~g~~l~v~~s~~~~~~~~~~~~~~~~~~~~~~~v~v~nl~~~vt~~~L~~~  116 (481)
T TIGR01649        37 GKRQALVEFEDEESAKACVNFATSVPIYIRGQPAFFNYSTSQEIKRDGNSDFDSAGPNKVLRVIVENPMYPITLDVLYQI  116 (481)
T ss_pred             CCCEEEEEeCchHHHHHHHHHhhcCCceEcCeEEEEEecCCcccccCCCCcccCCCCCceEEEEEcCCCCCCCHHHHHHH
Confidence            579999999999999999986  478889998877741                                          


Q ss_pred             ----------------ccCeEEEEeCCHHHHHHHHHhcCCceecCe--EEEE
Q psy4383          38 ----------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQ--TLVS   71 (89)
Q Consensus        38 ----------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr--~i~~   71 (89)
                                      .+|+|||+|.+.++|.+|+..|||..|.+.  .|.+
T Consensus       117 F~~~G~V~~v~i~~~~~~~~afVef~~~~~A~~A~~~Lng~~i~~~~~~l~v  168 (481)
T TIGR01649       117 FNPYGKVLRIVTFTKNNVFQALVEFESVNSAQHAKAALNGADIYNGCCTLKI  168 (481)
T ss_pred             HhccCCEEEEEEEecCCceEEEEEECCHHHHHHHHHHhcCCcccCCceEEEE
Confidence                            346999999999999999999999999753  5543

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

>KOG0127|consensus

Probab=99.34  E-value=2.4e-12  Score=96.47  Aligned_cols=70  Identities=24%  Similarity=0.441  Sum_probs=65.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      +||||||.|.-.+|++.|+....+..+.|+.|.|.+                                            
T Consensus        46 ~RGfgfVtFam~ED~qrA~~e~~~~kf~Gr~l~v~~A~~R~r~e~~~~~e~~~veK~~~q~~~~k~~v~~~k~rLIIRNL  125 (678)
T KOG0127|consen   46 KRGFGFVTFAMEEDVQRALAETEQSKFEGRILNVDPAKKRARSEEVEKGENKAVEKPIEQKRPTKAKVDLPKWRLIIRNL  125 (678)
T ss_pred             ccCccceeeehHhHHHHHHHHhhcCcccceecccccccccccchhcccccchhhhcccccCCcchhhccCccceEEeecC
Confidence            689999999999999999999999999999988862                                            


Q ss_pred             -------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 -------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 -------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                                                     -+|||||+|.+..+|.+||..+||..|+||+|.+
T Consensus       126 Pf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAV  190 (678)
T KOG0127|consen  126 PFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNKIDGRPVAV  190 (678)
T ss_pred             CcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCceecCceeEE
Confidence                                           3599999999999999999999999999999964

>KOG0109|consensus

Probab=99.24  E-value=1.5e-11  Score=86.51  Aligned_cols=69  Identities=28%  Similarity=0.470  Sum_probs=64.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE----------------------------------------cccCe
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS----------------------------------------MHKGY   41 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~----------------------------------------~~rG~   41 (89)
                      -|.||||..++...+++||.+|+|-+|+|..|.|.                                        +-|+|
T Consensus        35 vKNYgFVHiEdktaaedairNLhgYtLhg~nInVeaSksKsk~stkl~vgNis~tctn~ElRa~fe~ygpviecdivkdy  114 (346)
T KOG0109|consen   35 VKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEASKSKSKASTKLHVGNISPTCTNQELRAKFEKYGPVIECDIVKDY  114 (346)
T ss_pred             ecccceEEeecccccHHHHhhcccceecceEEEEEeccccCCCccccccCCCCccccCHHHhhhhcccCCceeeeeecce
Confidence            36899999999999999999999999999999996                                        26899


Q ss_pred             EEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          42 AFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        42 afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      +||.|+-.++|..||+.|||+.+.|+++.
T Consensus       115 ~fvh~d~~eda~~air~l~~~~~~gk~m~  143 (346)
T KOG0109|consen  115 AFVHFDRAEDAVEAIRGLDNTEFQGKRMH  143 (346)
T ss_pred             eEEEEeeccchHHHHhcccccccccceee
Confidence            99999999999999999999999999993

>KOG0123|consensus

Probab=99.20  E-value=4.8e-11  Score=86.74  Aligned_cols=73  Identities=30%  Similarity=0.536  Sum_probs=66.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|| ||+|++++.|+.|+..|||..+.++.|.|..                                            
T Consensus       115 ~kg~-FV~f~~e~~a~~ai~~~ng~ll~~kki~vg~~~~~~er~~~~~~~~~~~t~v~vk~~~~~~~~~~l~~~f~~~g~  193 (369)
T KOG0123|consen  115 SKGY-FVQFESEESAKKAIEKLNGMLLNGKKIYVGLFERKEEREAPLGEYKKRFTNVYVKNLEEDSTDEELKDLFSAYGS  193 (369)
T ss_pred             ceee-EEEeCCHHHHHHHHHHhcCcccCCCeeEEeeccchhhhcccccchhhhhhhhheeccccccchHHHHHhhcccCc
Confidence            5899 9999999999999999999999999998841                                            


Q ss_pred             -------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 -------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 -------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                                   ++||+||.|.++++|..|+..|||....+..+-+...+
T Consensus       194 i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aq  244 (369)
T KOG0123|consen  194 ITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQ  244 (369)
T ss_pred             ceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCccceeecccc
Confidence                         68999999999999999999999999998887665544

>KOG0147|consensus

Probab=99.08  E-value=4.9e-10  Score=83.84  Aligned_cols=74  Identities=27%  Similarity=0.449  Sum_probs=67.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      +||.|||+|.+.+....||. |.|..+.|-+|.|+.                                            
T Consensus       220 skgi~Yvef~D~~sVp~aia-LsGqrllg~pv~vq~sEaeknr~a~~s~a~~~k~~~~p~~rl~vgnLHfNite~~lr~i  298 (549)
T KOG0147|consen  220 SKGIAYVEFCDEQSVPLAIA-LSGQRLLGVPVIVQLSEAEKNRAANASPALQGKGFTGPMRRLYVGNLHFNITEDMLRGI  298 (549)
T ss_pred             hcceeEEEEecccchhhHhh-hcCCcccCceeEecccHHHHHHHHhccccccccccccchhhhhhcccccCchHHHHhhh
Confidence            68999999999999999995 999999999999972                                            


Q ss_pred             --------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeee
Q psy4383          38 --------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY   76 (89)
Q Consensus        38 --------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~   76 (89)
                                          ++|||||+|.+.++|.+|+..|||..|.||.|+|--+.+
T Consensus       299 fepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lngfelAGr~ikV~~v~~  357 (549)
T KOG0147|consen  299 FEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNGFELAGRLIKVSVVTE  357 (549)
T ss_pred             ccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhccceecCceEEEEEeee
Confidence                                799999999999999999999999999999998765555

>KOG0106|consensus

Probab=99.07  E-value=1.1e-10  Score=79.37  Aligned_cols=71  Identities=31%  Similarity=0.639  Sum_probs=64.4

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------   37 (89)
                      +..||+||+|++..+|++|+..+||..+.+..+.|.+                                           
T Consensus        33 mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~vve~~r~~~~~~g~~~~g~r~~~~~~~~~p~~s~~r~~~~~~~~r~~  112 (216)
T KOG0106|consen   33 MKNGFGFVEFEDPRDADDAVHDLDGKELCGERLVVEHARGKRRGRGRPRGGDRRSDSRRYRPPSRTHFRLIVRNLSLRVS  112 (216)
T ss_pred             eecccceeccCchhhhhcccchhcCceecceeeeeecccccccccCCCCCCCccchhhccCCcccccceeeeccchhhhh
Confidence            4679999999999999999999999999998755531                                           


Q ss_pred             -------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 -------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 -------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                                         ..+++||+|...++|.+||..|+|..+.++.|++
T Consensus       113 ~qdl~d~~~~~g~~~~~~~~~~~~~v~Fs~~~da~ra~~~l~~~~~~~~~l~~  165 (216)
T KOG0106|consen  113 WQDLKDHFRPAGEVTYVDARRNFAFVEFSEQEDAKRALEKLDGKKLNGRRISV  165 (216)
T ss_pred             HHHHhhhhcccCCCchhhhhccccceeehhhhhhhhcchhccchhhcCceeee
Confidence                               4699999999999999999999999999999976

>smart00361 RRM_1 RNA recognition motif

Probab=99.04  E-value=4.8e-10  Score=63.63  Aligned_cols=34  Identities=29%  Similarity=0.513  Sum_probs=32.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.++++|++|+..|||+.+.||+|.+
T Consensus        36 ~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~   69 (70)
T smart00361       36 KRGNVYITFERSEDAARAIVDLNGRYFDGRTVKA   69 (70)
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEe
Confidence            6899999999999999999999999999999963

>KOG0125|consensus

Probab=99.02  E-value=3.9e-10  Score=80.46  Aligned_cols=61  Identities=21%  Similarity=0.252  Sum_probs=52.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +-..++|+...|++++-.+|.- +-+||||||+|++.+||++|=.+|+|..+.||+|+|+-+
T Consensus       110 dpDL~aMF~kfG~VldVEIIfNERGSKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn~A  171 (376)
T KOG0125|consen  110 DPDLRAMFEKFGKVLDVEIIFNERGSKGFGFVTMENPADADRARAELHGTVVEGRKIEVNNA  171 (376)
T ss_pred             CccHHHHHHhhCceeeEEEEeccCCCCccceEEecChhhHHHHHHHhhcceeeceEEEEecc
Confidence            3456788888888888887763 459999999999999999999999999999999988654

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

Probab=99.01  E-value=2.9e-09  Score=81.52  Aligned_cols=35  Identities=31%  Similarity=0.479  Sum_probs=32.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      +||||||+|.+.++|..|+..|||..+.|+.|+|.
T Consensus       245 sKGfGFVeFe~~e~A~kAI~amNg~elgGr~LrV~  279 (612)
T TIGR01645       245 HKGYGFIEYNNLQSQSEAIASMNLFDLGGQYLRVG  279 (612)
T ss_pred             cCCeEEEEECCHHHHHHHHHHhCCCeeCCeEEEEE
Confidence            68999999999999999999999999999999986

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.

>KOG0144|consensus

Probab=99.00  E-value=7.1e-10  Score=81.45  Aligned_cols=73  Identities=26%  Similarity=0.396  Sum_probs=58.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc-eecCe--EeEEE------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR-TVLGQ--TLGIS------------------------------------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~-~l~g~--~i~v~------------------------------------------   36 (89)
                      ++|+|||.|.+.++|++|+..|+.. ++-|-  +|.|.                                          
T Consensus        75 s~gcCFv~~~trk~a~~a~~Alhn~ktlpG~~~pvqvk~Ad~E~er~~~e~KLFvg~lsK~~te~evr~iFs~fG~Ied~  154 (510)
T KOG0144|consen   75 SKGCCFVKYYTRKEADEAINALHNQKTLPGMHHPVQVKYADGERERIVEERKLFVGMLSKQCTENEVREIFSRFGHIEDC  154 (510)
T ss_pred             ccceEEEEeccHHHHHHHHHHhhcccccCCCCcceeecccchhhhccccchhhhhhhccccccHHHHHHHHHhhCccchh
Confidence            6899999999999999999988764 35443  44443                                          


Q ss_pred             --------cccCeEEEEeCCHHHHHHHHHhcCCce-ecC--eEEEEEee
Q psy4383          37 --------MHKGYAFIQFSNPHDARSACLGEDGRT-VLG--QTLVSYKL   74 (89)
Q Consensus        37 --------~~rG~afV~F~~~~~a~~Ai~~l~g~~-l~g--r~i~~~~~   74 (89)
                              .+||+|||.|.+.+.|..||++|||.. +.|  .+|.|..+
T Consensus       155 ~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~tmeGcs~PLVVkFA  203 (510)
T KOG0144|consen  155 YILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQTMEGCSQPLVVKFA  203 (510)
T ss_pred             hheecccccccceeEEEEehHHHHHHHHHhhccceeeccCCCceEEEec
Confidence                    189999999999999999999999984 445  46655444

>PF13893 RRM_5: RNA recognition motif

Probab=98.95  E-value=5.1e-09  Score=56.66  Aligned_cols=42  Identities=33%  Similarity=0.545  Sum_probs=34.4

Q ss_pred             CeEeEEE--ccc-CeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          30 GQTLGIS--MHK-GYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        30 g~~i~v~--~~r-G~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      |....+.  ..+ |+|||+|.+.++|++|++.|||..+.|++|.+
T Consensus         9 G~V~~i~~~~~~~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V   53 (56)
T PF13893_consen    9 GEVKKIKIFKKKRGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKV   53 (56)
T ss_dssp             S-EEEEEEETTSTTEEEEEESSHHHHHHHHHHHTTSEETTEEEEE
T ss_pred             ccEEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEE
Confidence            4344444  344 99999999999999999999999999999964

(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 ....

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

Probab=98.93  E-value=7.9e-09  Score=66.37  Aligned_cols=64  Identities=16%  Similarity=0.258  Sum_probs=45.6

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+..-+.+...   .++|||||+|.++++|++||+.|||..|+|++|.+...
T Consensus        45 ~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a  111 (144)
T PLN03134         45 GTDDASLRDAFAHFGDVVDAKVIVDRETGRSRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPA  111 (144)
T ss_pred             CCCHHHHHHHHhcCCCeEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeC
Confidence            33344444444445554444333322   36899999999999999999999999999999976544

>KOG0127|consensus

Probab=98.93  E-value=7.6e-09  Score=78.00  Aligned_cols=34  Identities=29%  Similarity=0.519  Sum_probs=33.0

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      |||||.|....+|..|+..+||.++.||+|.|+|
T Consensus       159 GFaFV~fk~~~dA~~Al~~~N~~~i~gR~VAVDW  192 (678)
T KOG0127|consen  159 GFAFVQFKEKKDAEKALEFFNGNKIDGRPVAVDW  192 (678)
T ss_pred             ceEEEEEeeHHHHHHHHHhccCceecCceeEEee
Confidence            9999999999999999999999999999999985

>KOG0120|consensus

Probab=98.91  E-value=2.8e-09  Score=79.79  Aligned_cols=81  Identities=26%  Similarity=0.485  Sum_probs=71.9

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------   37 (89)
                      +++||+|.+|.++...+.|+..|||..+.++.+.|+.                                           
T Consensus       329 ~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvvq~A~~g~~~~~~~~~~~~~~~~~i~~~~~q~~g~~t~Vl~L~n~V  408 (500)
T KOG0120|consen  329 NSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVVQRAIVGASNANVNFNISQSQVPGIPLLMTQMAGIPTEVLCLTNVV  408 (500)
T ss_pred             cccceeeeeeeCCcchhhhhcccchhhhcCceeEeehhhccchhccccCCccccccccchhhhcccCCCcchhhhhhhcC
Confidence            4799999999999999999999999999999888861                                           


Q ss_pred             --------------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 --------------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 --------------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                                                                  ..|-.||+|.+.+++++|+.+|+|++++||.+.   
T Consensus       409 t~deLkdd~EyeeIlEdvr~ec~k~g~v~~v~ipr~~~~~~~~~G~GkVFVefas~ed~qrA~~~L~GrKF~nRtVv---  485 (500)
T KOG0120|consen  409 TPDELKDDEEYEEILEDVRTECAKFGAVRSVEIPRPYPDENPVPGTGKVFVEFADTEDSQRAMEELTGRKFANRTVV---  485 (500)
T ss_pred             CHHHhcchHHHHHHHHHHHHHhcccCceeEEecCCCCCCCCcCCCcccEEEEecChHHHHHHHHHccCceeCCcEEE---
Confidence                                                        568899999999999999999999999999884   


Q ss_pred             eeeecceeccC
Q psy4383          74 LQYYNGCRYVS   84 (89)
Q Consensus        74 ~~~~~~~~~~~   84 (89)
                      ..||..-.|..
T Consensus       486 tsYydeDkY~~  496 (500)
T KOG0120|consen  486 ASYYDEDKYHA  496 (500)
T ss_pred             EEecCHHHhhc
Confidence            67776665543

>KOG4207|consensus

Probab=98.89  E-value=1.7e-09  Score=73.32  Aligned_cols=70  Identities=21%  Similarity=0.281  Sum_probs=56.6

Q ss_pred             EEEecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeee
Q psy4383           7 FIQFSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY   76 (89)
Q Consensus         7 fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~   76 (89)
                      -+.|.+.-+....+++..|.+-+..+....   -++|||||.|-+..+|++|+.+|||..|+|+.|+|--+.|
T Consensus        20 NLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ary   92 (256)
T KOG4207|consen   20 NLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMARY   92 (256)
T ss_pred             ceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhcceeeccceeeehhhhc
Confidence            367888888899999888876555544433   3799999999999999999999999999999997544433

>KOG0148|consensus

Probab=98.86  E-value=5.1e-09  Score=73.32  Aligned_cols=51  Identities=24%  Similarity=0.332  Sum_probs=43.4

Q ss_pred             hhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          21 LGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        21 ~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +.--|.+-+.|+|+..   .+||||||.|.+.++|++||.+|||.+|++|.|+-
T Consensus        83 F~pFGevS~akvirD~~T~KsKGYgFVSf~~k~dAEnAI~~MnGqWlG~R~IRT  136 (321)
T KOG0148|consen   83 FAPFGEVSDAKVIRDMNTGKSKGYGFVSFPNKEDAENAIQQMNGQWLGRRTIRT  136 (321)
T ss_pred             hccccccccceEeecccCCcccceeEEeccchHHHHHHHHHhCCeeeccceeec
Confidence            3456776677777653   48999999999999999999999999999999964

>smart00361 RRM_1 RNA recognition motif

Probab=98.85  E-value=6.7e-09  Score=58.87  Aligned_cols=35  Identities=29%  Similarity=0.488  Sum_probs=33.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|..|+..|||+.+.|++|.++
T Consensus        36 ~rG~~fV~f~~~~dA~~A~~~l~g~~~~gr~l~~~   70 (70)
T smart00361       36 KRGNVYITFERSEDAARAIVDLNGRYFDGRTVKAE   70 (70)
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEeC
Confidence            68999999999999999999999999999999763

>KOG0146|consensus

Probab=98.83  E-value=4.3e-09  Score=73.90  Aligned_cols=33  Identities=27%  Similarity=0.436  Sum_probs=31.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      +|.||||.|++..+|+.||.+|||..|+-+.|+
T Consensus       326 SKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLK  358 (371)
T KOG0146|consen  326 SKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLK  358 (371)
T ss_pred             ccceeeEecCCchhHHHHHHHhcchhhhhhhhh
Confidence            899999999999999999999999999998884

>KOG0111|consensus

Probab=98.77  E-value=3.8e-09  Score=72.39  Aligned_cols=37  Identities=24%  Similarity=0.500  Sum_probs=35.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +||||||+|+..|+|..||..||+..|-||.|+++.+
T Consensus        51 HRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~A   87 (298)
T KOG0111|consen   51 HRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNLA   87 (298)
T ss_pred             ccceeEEEeeccchhHHHhhcCchhhhcceeEEEeec
Confidence            8999999999999999999999999999999988665

>PF00076 RRM_1: RNA recognition motif

Probab=98.75  E-value=1.5e-08  Score=56.04  Aligned_cols=33  Identities=33%  Similarity=0.631  Sum_probs=31.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++|+|||+|.++++|++|+..|||..++|++|+
T Consensus        38 ~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen   38 SKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             ccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            689999999999999999999999999999984

(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 ....

>KOG0107|consensus

Probab=98.74  E-value=8.9e-09  Score=68.15  Aligned_cols=36  Identities=31%  Similarity=0.559  Sum_probs=31.6

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .+-|||||+|+++.+|+.|+..|||+.|.|..|+|.
T Consensus        45 nPPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rVE   80 (195)
T KOG0107|consen   45 NPPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRVE   80 (195)
T ss_pred             cCCCceEEeccCcccHHHHHhhcCCccccCceEEEE
Confidence            367999999999999999999999999999888653

>KOG0144|consensus

Probab=98.72  E-value=2.7e-08  Score=73.33  Aligned_cols=34  Identities=21%  Similarity=0.372  Sum_probs=32.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++.|+||.|++..+|.+||..|||..|+++++++
T Consensus       465 skcfgfvSyen~~sa~~aI~amngfQig~KrlkV  498 (510)
T KOG0144|consen  465 SKCFGFVSYENAQSAQNAISAMNGFQIGSKRLKV  498 (510)
T ss_pred             hhhcCcccccchhhhHHHHHHhcchhhccccceE
Confidence            7899999999999999999999999999999853

>PLN03120 nucleic acid binding protein; Provisional

Probab=98.67  E-value=9.3e-08  Score=66.72  Aligned_cols=66  Identities=15%  Similarity=0.228  Sum_probs=51.6

Q ss_pred             EecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383           9 QFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus         9 ~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      .+...++.....+...|.+..-+.+....++|||||+|.++++|+.||. |||..|.||+|.+....
T Consensus        13 s~~tTE~dLrefFS~~G~I~~V~I~~d~~~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~   78 (260)
T PLN03120         13 SLKATERDIKEFFSFSGDIEYVEMQSENERSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAE   78 (260)
T ss_pred             CCCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEecc
Confidence            3455566666666677766555554444478999999999999999996 99999999999888874

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

Probab=98.65  E-value=6.4e-08  Score=62.17  Aligned_cols=38  Identities=21%  Similarity=0.501  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|.+.+
T Consensus        75 ~kGfaFV~F~~~e~A~~Al~~lng~~i~Gr~l~V~~a~  112 (144)
T PLN03134         75 SRGFGFVNFNDEGAATAAISEMDGKELNGRHIRVNPAN  112 (144)
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEeCC
Confidence            68999999999999999999999999999999998743

>PF13893 RRM_5: RNA recognition motif

Probab=98.64  E-value=8.9e-08  Score=51.71  Aligned_cols=35  Identities=34%  Similarity=0.633  Sum_probs=33.1

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +++|||+|.+.++|+.|+..|||..+.|++|+|++
T Consensus        21 ~~~a~V~f~~~~~A~~a~~~l~~~~~~g~~l~V~~   55 (56)
T PF13893_consen   21 RGFAFVEFASVEDAQKAIEQLNGRQFNGRPLKVSY   55 (56)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTSEETTEEEEEEE
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            38999999999999999999999999999999975

(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 ....

>KOG0125|consensus

Probab=98.62  E-value=3.5e-08  Score=70.59  Aligned_cols=35  Identities=31%  Similarity=0.584  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      |||||||.|++++||++|..+|+|+++.||+|.|+
T Consensus       135 SKGFGFVTmen~~dadRARa~LHgt~VEGRkIEVn  169 (376)
T KOG0125|consen  135 SKGFGFVTMENPADADRARAELHGTVVEGRKIEVN  169 (376)
T ss_pred             CCccceEEecChhhHHHHHHHhhcceeeceEEEEe
Confidence            79999999999999999999999999999999997

>TIGR01659 sex-lethal sex-lethal family splicing factor

Probab=98.60  E-value=1e-07  Score=68.87  Aligned_cols=63  Identities=21%  Similarity=0.174  Sum_probs=47.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +...++....++...|.+..-+.+...   .++|||||+|.++++|++||..|||..+.+++|.+.
T Consensus       117 ~~~te~~L~~lF~~~G~V~~v~i~~d~~tg~srGyaFVeF~~~e~A~~Ai~~LnG~~l~gr~i~V~  182 (346)
T TIGR01659       117 QDMTDRELYALFRTIGPINTCRIMRDYKTGYSFGYAFVDFGSEADSQRAIKNLNGITVRNKRLKVS  182 (346)
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEEecCCCCccCcEEEEEEccHHHHHHHHHHcCCCccCCceeeee
Confidence            344455566666666665555444321   378999999999999999999999999999999754

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).

>KOG0111|consensus

Probab=98.52  E-value=7e-08  Score=66.24  Aligned_cols=36  Identities=25%  Similarity=0.638  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      |||||||+|+..+||..||.+||+.+|+||.|+|++
T Consensus        51 HRgFgFVefe~aEDAaaAiDNMnesEL~GrtirVN~   86 (298)
T KOG0111|consen   51 HRGFGFVEFEEAEDAAAAIDNMNESELFGRTIRVNL   86 (298)
T ss_pred             ccceeEEEeeccchhHHHhhcCchhhhcceeEEEee
Confidence            799999999999999999999999999999999985

>smart00360 RRM RNA recognition motif

Probab=98.49  E-value=3.4e-07  Score=49.43  Aligned_cols=34  Identities=32%  Similarity=0.579  Sum_probs=31.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|+|||+|.+.++|..|+..|++..+.|++|.+
T Consensus        37 ~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v   70 (71)
T smart00360       37 SKGFAFVEFESEEDAEKALEALNGKELDGRPLKV   70 (71)
T ss_pred             CCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEe
Confidence            4789999999999999999999999999998864

>KOG0105|consensus

Probab=98.48  E-value=2.9e-07  Score=61.81  Aligned_cols=64  Identities=25%  Similarity=0.460  Sum_probs=58.3

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc---------------------------------------------
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM---------------------------------------------   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~---------------------------------------------   37 (89)
                      ..||||+|+++.+|++||..-+|--+.|..++|.+                                             
T Consensus        45 ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfprggr~s~~~~G~y~gggrgGgg~gg~rgppsrrSe~RVvVsGLp  124 (241)
T KOG0105|consen   45 PPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFPRGGRSSSDRRGSYSGGGRGGGGGGGRRGPPSRRSEYRVVVSGLP  124 (241)
T ss_pred             CCeeEEEecCccchhhhhhcccccccCcceEEEEeccCCCcccccccccCCCCCCCCCCCcccCCcccccceeEEEecCC
Confidence            47999999999999999999999999999999873                                             


Q ss_pred             ------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecC
Q psy4383          38 ------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLG   66 (89)
Q Consensus        38 ------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~g   66 (89)
                                              ..|.+.|+|.+.|+++=|+..|+.+++..
T Consensus       125 ~SgSWQDLKDHmReaGdvCfadv~rDg~GvV~~~r~eDMkYAvr~ld~~~~~s  177 (241)
T KOG0105|consen  125 PSGSWQDLKDHMREAGDVCFADVQRDGVGVVEYLRKEDMKYAVRKLDDQKFRS  177 (241)
T ss_pred             CCCchHHHHHHHHhhCCeeeeeeecccceeeeeeehhhHHHHHHhhccccccC
Confidence                                    57899999999999999999999987754

>KOG4207|consensus

Probab=98.47  E-value=1.2e-07  Score=64.50  Aligned_cols=38  Identities=32%  Similarity=0.611  Sum_probs=35.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||-|.+..+|++|+..|+|.+|+|+.|.|++.+
T Consensus        54 sRgFaFVrf~~k~daedA~damDG~~ldgRelrVq~ar   91 (256)
T KOG4207|consen   54 SRGFAFVRFHDKRDAEDALDAMDGAVLDGRELRVQMAR   91 (256)
T ss_pred             ccceeEEEeeecchHHHHHHhhcceeeccceeeehhhh
Confidence            68999999999999999999999999999999998743

>PF00076 RRM_1: RNA recognition motif

Probab=98.45  E-value=3.7e-07  Score=50.27  Aligned_cols=33  Identities=33%  Similarity=0.641  Sum_probs=31.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLG   34 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~   34 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|+
T Consensus        38 ~~~~a~V~F~~~~~a~~a~~~l~g~~~~~~~ir   70 (70)
T PF00076_consen   38 SKGYAFVEFESEEDAEKALEELNGKKINGRKIR   70 (70)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             ccceEEEEEcCHHHHHHHHHHcCCCEECccCcC
Confidence            579999999999999999999999999999874

(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 ....

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.44  E-value=3.5e-07  Score=51.02  Aligned_cols=33  Identities=33%  Similarity=0.602  Sum_probs=30.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++|+|||+|.++++|++|+..++|..+.|+.|.
T Consensus        38 ~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen   38 SRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            479999999999999999999999999999884

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 ....

>KOG0107|consensus

Probab=98.43  E-value=2e-07  Score=61.84  Aligned_cols=34  Identities=32%  Similarity=0.689  Sum_probs=32.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      ..|||||+|+++.||++|+..|+|+.++|..|.|
T Consensus        46 PPGfAFVEFed~RDA~DAvr~LDG~~~cG~r~rV   79 (195)
T KOG0107|consen   46 PPGFAFVEFEDPRDAEDAVRYLDGKDICGSRIRV   79 (195)
T ss_pred             CCCceEEeccCcccHHHHHhhcCCccccCceEEE
Confidence            5799999999999999999999999999988876

>KOG0113|consensus

Probab=98.43  E-value=1.5e-06  Score=61.71  Aligned_cols=64  Identities=19%  Similarity=0.332  Sum_probs=48.2

Q ss_pred             EEecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383           8 IQFSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus         8 V~f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +.|.+.++-..-.+...|-+-.-+.+.-   ..++|||||+|+++.++..|-++.+|.+|+|+.|.|
T Consensus       109 LnydT~EskLrreF~~YG~IkrirlV~d~vTgkskGYAFIeye~erdm~~AYK~adG~~Idgrri~V  175 (335)
T KOG0113|consen  109 LNYDTSESKLRREFEKYGPIKRIRLVRDKVTGKSKGYAFIEYEHERDMKAAYKDADGIKIDGRRILV  175 (335)
T ss_pred             ccccccHHHHHHHHHhcCcceeEEEeeecccCCccceEEEEeccHHHHHHHHHhccCceecCcEEEE
Confidence            4566666666666656665444444432   248999999999999999999999999999999853

>smart00362 RRM_2 RNA recognition motif

Probab=98.42  E-value=7.7e-07  Score=48.24  Aligned_cols=34  Identities=32%  Similarity=0.550  Sum_probs=31.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|+|||+|.+.++|++|+..++|..+.|++|.+
T Consensus        38 ~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v   71 (72)
T smart00362       38 SKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRV   71 (72)
T ss_pred             CCceEEEEeCCHHHHHHHHHHhCCcEECCEEEee
Confidence            3599999999999999999999999999999864

>KOG1548|consensus

Probab=98.41  E-value=1.7e-06  Score=62.42  Aligned_cols=72  Identities=22%  Similarity=0.233  Sum_probs=65.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      .||=|.|.|-..+..+-|+.-|++..+.|+.|+|+.                                            
T Consensus       182 lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~~~k~k~k~~~~kk~~k~q~k~~dw~pd~~~~sk  261 (382)
T KOG1548|consen  182 LKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGEYDASKKEKGKCKDKKKLKKQQQKLLDWRPDRDDPSK  261 (382)
T ss_pred             ccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccCcCcccccccccccHHHHHHHHHhhcccCCCcccccc
Confidence            367799999999999999999999999999999972                                            


Q ss_pred             ---------------------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecC
Q psy4383          38 ---------------------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLG   66 (89)
Q Consensus        38 ---------------------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~g   66 (89)
                                                                         +.|.+-|.|.+.++|..+|+.|+|++++|
T Consensus       262 ~r~~~tVi~kn~Ftp~~~~~~~~l~~dlkedl~eec~K~G~v~~vvv~d~hPdGvvtV~f~n~eeA~~ciq~m~GR~fdg  341 (382)
T KOG1548|consen  262 ARADRTVILKNMFTPEDFEKNPDLLNDLKEDLTEECEKFGQVRKVVVYDRHPDGVVTVSFRNNEEADQCIQTMDGRWFDG  341 (382)
T ss_pred             ccCCcEEEeeecCCHHHhccCHHHHHHHHHHHHHHHHHhCCcceEEEeccCCCceeEEEeCChHHHHHHHHHhcCeeecc
Confidence                                                               68999999999999999999999999999


Q ss_pred             eEEEEEe
Q psy4383          67 QTLVSYK   73 (89)
Q Consensus        67 r~i~~~~   73 (89)
                      |.|..--
T Consensus       342 Rql~A~i  348 (382)
T KOG1548|consen  342 RQLTASI  348 (382)
T ss_pred             eEEEEEE
Confidence            9996543

>KOG0131|consensus

Probab=98.35  E-value=9.1e-07  Score=59.03  Aligned_cols=39  Identities=26%  Similarity=0.346  Sum_probs=36.9

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      .++||||++|.++++|+=||+-||+.+|.||+|++.++.
T Consensus        49 ~~qGygF~Ef~~eedadYAikiln~VkLYgrpIrv~kas   87 (203)
T KOG0131|consen   49 KHQGYGFAEFRTEEDADYAIKILNMVKLYGRPIRVNKAS   87 (203)
T ss_pred             cccceeEEEEechhhhHHHHHHHHHHHhcCceeEEEecc
Confidence            389999999999999999999999999999999998876

>PLN03213 repressor of silencing 3; Provisional

Probab=98.35  E-value=1e-06  Score=66.45  Aligned_cols=67  Identities=16%  Similarity=0.110  Sum_probs=55.2

Q ss_pred             EEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCH--HHHHHHHHhcCCceecCeEEEEEeee
Q psy4383           8 IQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNP--HDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus         8 V~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~--~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      +.|...++-..+++.-.|.+..-..++-. .||||||+|.+.  .++.+||..|||..++||.|++.++.
T Consensus        18 LSydVTEDDLravFSeFGsVkdVEIpRET-GRGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK   86 (759)
T PLN03213         18 LGESVGRDDLLKIFSPMGTVDAVEFVRTK-GRSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK   86 (759)
T ss_pred             CCCCCCHHHHHHHHHhcCCeeEEEEeccc-CCceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence            45666777788888888887777666332 499999999987  78999999999999999999988773

>PLN03121 nucleic acid binding protein; Provisional

Probab=98.34  E-value=2.1e-06  Score=59.40  Aligned_cols=62  Identities=13%  Similarity=0.132  Sum_probs=47.3

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      .++-..-.+...|.+.+-+.+.....+|||||+|.++++++.||. |||..|.+++|.+-++.
T Consensus        18 TE~dLrefFS~~G~I~~V~I~~D~et~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~~~   79 (243)
T PLN03121         18 TEKDVYDFFSHCGAIEHVEIIRSGEYACTAYVTFKDAYALETAVL-LSGATIVDQRVCITRWG   79 (243)
T ss_pred             CHHHHHHHHHhcCCeEEEEEecCCCcceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEeCc
Confidence            344444445556665555555554567999999999999999996 99999999999887764

>KOG0122|consensus

Probab=98.28  E-value=9.7e-07  Score=61.13  Aligned_cols=35  Identities=29%  Similarity=0.395  Sum_probs=32.2

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .+||||||+|.++++|++||..|||.-++.-.|++
T Consensus       229 ~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrv  263 (270)
T KOG0122|consen  229 LSKGFAFVTFESRDDAARAIADLNGYGYDNLILRV  263 (270)
T ss_pred             cccceEEEEEecHHHHHHHHHHccCcccceEEEEE
Confidence            38999999999999999999999999999888754

>KOG0122|consensus

Probab=98.26  E-value=1.5e-06  Score=60.20  Aligned_cols=39  Identities=28%  Similarity=0.417  Sum_probs=36.4

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++||||||.|.+.++|..||..|||.-++.=.++|.|++
T Consensus       229 ~~kGFAFVtF~sRddA~rAI~~LnG~gyd~LILrvEwsk  267 (270)
T KOG0122|consen  229 LSKGFAFVTFESRDDAARAIADLNGYGYDNLILRVEWSK  267 (270)
T ss_pred             cccceEEEEEecHHHHHHHHHHccCcccceEEEEEEecC
Confidence            579999999999999999999999999999899998876

>smart00360 RRM RNA recognition motif

Probab=98.25  E-value=2.5e-06  Score=45.97  Aligned_cols=35  Identities=31%  Similarity=0.608  Sum_probs=32.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|+|||+|.+.++|..|+..+++..+.|+.+.|+
T Consensus        37 ~~~~a~v~f~~~~~a~~a~~~~~~~~~~~~~~~v~   71 (71)
T smart00360       37 SKGFAFVEFESEEDAEKALEALNGKELDGRPLKVK   71 (71)
T ss_pred             CCceEEEEeCCHHHHHHHHHHcCCCeeCCcEEEeC
Confidence            47899999999999999999999999999988763

>KOG0121|consensus

Probab=98.23  E-value=1.4e-06  Score=55.46  Aligned_cols=66  Identities=15%  Similarity=0.224  Sum_probs=51.8

Q ss_pred             EEEEecCHHHHHHHHhhcCC---ceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383           6 AFIQFSNPHDARSACLGEDG---RTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g---~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +-+.|.+.++-...++..-|   +++.|=.-.-.-++||.||+|-+.++|+.|++-++|..++.++|++
T Consensus        42 gNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~  110 (153)
T KOG0121|consen   42 GNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRI  110 (153)
T ss_pred             eeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccceee
Confidence            56788888888888888877   3355522222237899999999999999999999999999999964

>KOG0130|consensus

Probab=98.22  E-value=3.5e-06  Score=54.12  Aligned_cols=46  Identities=24%  Similarity=0.408  Sum_probs=38.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVS   84 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~   84 (89)
                      .+|||.|+|++.++|+.||.+|||..|.|++|. +-|-|..|+.=++
T Consensus       113 ~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~-VDw~Fv~gp~~g~  158 (170)
T KOG0130|consen  113 VKGYALVEYETLKEAQAAIDALNGAELLGQNVS-VDWCFVKGPERGK  158 (170)
T ss_pred             ccceeeeehHhHHHHHHHHHhccchhhhCCcee-EEEEEecCCccCc
Confidence            799999999999999999999999999999994 4455665554333

>KOG0124|consensus

Probab=98.17  E-value=3.2e-06  Score=61.79  Aligned_cols=67  Identities=22%  Similarity=0.358  Sum_probs=48.6

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEEc------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGISM------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      |-|.|+-.+|..+-.+.-.|-   .+.|..+|      |||||||+|+=+|.|+-|+++|||..++||.|.+..-+
T Consensus       119 GSIsfEl~EDtiR~AF~PFGP---IKSInMSWDp~T~kHKgFAFVEYEvPEaAqLAlEqMNg~mlGGRNiKVgrPs  191 (544)
T KOG0124|consen  119 GSISFELREDTIRRAFDPFGP---IKSINMSWDPATGKHKGFAFVEYEVPEAAQLALEQMNGQMLGGRNIKVGRPS  191 (544)
T ss_pred             eeeEEEechHHHHhhccCCCC---cceeecccccccccccceEEEEEeCcHHHHHHHHHhccccccCccccccCCC
Confidence            556676666665544433332   12333333      89999999999999999999999999999999775433

>smart00362 RRM_2 RNA recognition motif

Probab=98.17  E-value=5.2e-06  Score=44.87  Aligned_cols=35  Identities=31%  Similarity=0.584  Sum_probs=32.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|+|||+|.+.++|+.|+..++|..+.|+.+.|+
T Consensus        38 ~~~~~~v~f~~~~~a~~a~~~~~~~~~~~~~i~v~   72 (72)
T smart00362       38 SKGFAFVEFESEEDAEKAIEALNGTKLGGRPLRVE   72 (72)
T ss_pred             CCceEEEEeCCHHHHHHHHHHhCCcEECCEEEeeC
Confidence            46999999999999999999999999999988763

>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=98.14  E-value=7.1e-06  Score=44.55  Aligned_cols=34  Identities=32%  Similarity=0.585  Sum_probs=31.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|++||+|.+.++|+.|+..+++..+.|+.+.+
T Consensus        39 ~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v   72 (74)
T cd00590          39 SKGFAFVEFEDEEDAEKALEALNGKELGGRPLRV   72 (74)
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            3799999999999999999999999999999864

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).

>KOG0121|consensus

Probab=98.12  E-value=8.9e-06  Score=51.80  Aligned_cols=38  Identities=21%  Similarity=0.447  Sum_probs=36.1

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCe
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY   41 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~   41 (89)
                      |||||+|.+.++|+.|++-++|+.|..++|.+.+.-||
T Consensus        79 GFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF  116 (153)
T KOG0121|consen   79 GFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGF  116 (153)
T ss_pred             ceEEEEEecchhHHHHHHHhccCcccccceeeeccccc
Confidence            99999999999999999999999999999999887764

>KOG4208|consensus

Probab=98.12  E-value=5e-06  Score=56.27  Aligned_cols=37  Identities=24%  Similarity=0.373  Sum_probs=34.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|++++.|+-|-..||+..+.++.|....+
T Consensus        91 SKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~vm  127 (214)
T KOG4208|consen   91 SKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHVM  127 (214)
T ss_pred             cCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEEe
Confidence            8999999999999999999999999999999965544

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

Probab=98.11  E-value=1.3e-05  Score=52.91  Aligned_cols=62  Identities=18%  Similarity=0.248  Sum_probs=44.9

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++...|....-+....   ..++|||||+|.++++|..|+..++|..+.|++|.+...
T Consensus       128 ~~~~l~~~F~~~g~~~~~~~~~d~~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~  192 (306)
T COG0724         128 TEEDLRELFKKFGPVKRVRLVRDRETGKSRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKA  192 (306)
T ss_pred             CHHHHHHHHHhcCceeEEEeeeccccCccCceEEEEecCHHHHHHHHHHcCCCeECCceeEeecc
Confidence            34444444545555433333222   247899999999999999999999999999999977664

>KOG0110|consensus

Probab=98.10  E-value=7.9e-06  Score=63.26  Aligned_cols=64  Identities=17%  Similarity=0.352  Sum_probs=46.2

Q ss_pred             EEecCHHHHHHHHhhcCCceecCeEeEEE------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383           8 IQFSNPHDARSACLGEDGRTVLGQTLGIS------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus         8 V~f~~~~~a~~Ai~~l~g~~l~g~~i~v~------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +.|.+..+-..-.+...|.++.-.+....      ++.|||||+|.+.++|+.|++.|+|+.|+|++|.+
T Consensus       523 lnf~Tt~e~l~~~F~k~G~VlS~~I~kkkd~~~k~lSmGfgFVEF~~~e~A~~a~k~lqgtvldGH~l~l  592 (725)
T KOG0110|consen  523 LNFDTTLEDLEDLFSKQGTVLSIEISKKKDPANKYLSMGFGFVEFAKPESAQAALKALQGTVLDGHKLEL  592 (725)
T ss_pred             CCcccchhHHHHHHHhcCeEEEEEEeccccccccccccceeEEEecCHHHHHHHHHHhcCceecCceEEE
Confidence            34555555455555556665554333222      36699999999999999999999999999999953

>KOG4206|consensus

Probab=98.10  E-value=1.4e-05  Score=54.64  Aligned_cols=35  Identities=26%  Similarity=0.419  Sum_probs=28.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      .+|-|||.|.+.+.|..|+.+|+|..++|++++++
T Consensus        51 mRGQA~VvFk~~~~As~A~r~l~gfpFygK~mriq   85 (221)
T KOG4206|consen   51 MRGQAFVVFKETEAASAALRALQGFPFYGKPMRIQ   85 (221)
T ss_pred             ccCceEEEecChhHHHHHHHHhcCCcccCchhhee
Confidence            36778888888888888888888888888877665

>PF14259 RRM_6: RNA recognition motif (a

Probab=98.09  E-value=7.3e-06  Score=45.56  Aligned_cols=33  Identities=33%  Similarity=0.613  Sum_probs=30.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLG   34 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~   34 (89)
                      .+|+|||+|.+.++|+.|+..++|..+.|+.|+
T Consensus        38 ~~~~a~v~f~~~~~a~~al~~~~~~~~~g~~l~   70 (70)
T PF14259_consen   38 SRGFAFVEFSSEEDAKRALELLNGKEIDGRKLR   70 (70)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             cCCEEEEEeCCHHHHHHHHHHCCCcEECCEEcC
Confidence            479999999999999999999999999999874

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 ....

>KOG0108|consensus

Probab=98.07  E-value=6.9e-06  Score=61.13  Aligned_cols=69  Identities=16%  Similarity=0.188  Sum_probs=50.7

Q ss_pred             EEEecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383           7 FIQFSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus         7 fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      =+-|.-.++...-+..--|-++.-|.+...   ..+||||++|.+.++|+.|++.|||.++.||+|++....
T Consensus        25 nip~~~se~~l~~~~~~~g~v~s~~~v~D~~tG~~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~   96 (435)
T KOG0108|consen   25 NIPYEGSEEQLLSIFSGVGPVLSFRLVYDRETGKPKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS   96 (435)
T ss_pred             CCCCcccHHHHHHHHhccCccceeeecccccCCCcCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence            344555556555555445555555444332   379999999999999999999999999999999876553

>KOG4205|consensus

Probab=98.06  E-value=1.6e-06  Score=61.98  Aligned_cols=36  Identities=14%  Similarity=0.348  Sum_probs=32.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++||+||.|+++++.++++. +.-+.|.|+++.+..+
T Consensus       138 ~rgFgfv~~~~e~sVdkv~~-~~f~~~~gk~vevkrA  173 (311)
T KOG4205|consen  138 PRGFGFVTFDSEDSVDKVTL-QKFHDFNGKKVEVKRA  173 (311)
T ss_pred             cccceeeEeccccccceecc-cceeeecCceeeEeec
Confidence            79999999999999999988 8999999999988666

>KOG0226|consensus

Probab=98.02  E-value=5.9e-06  Score=57.67  Aligned_cols=33  Identities=30%  Similarity=0.531  Sum_probs=31.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++||+||.|.+..++..|+++|||.-.+.|+|.
T Consensus       231 SkgygfVSf~~pad~~rAmrem~gkyVgsrpik  263 (290)
T KOG0226|consen  231 SKGYGFVSFRDPADYVRAMREMNGKYVGSRPIK  263 (290)
T ss_pred             cccceeeeecCHHHHHHHHHhhcccccccchhH
Confidence            799999999999999999999999999999885

>KOG0149|consensus

Probab=97.98  E-value=1.5e-05  Score=54.95  Aligned_cols=63  Identities=17%  Similarity=0.322  Sum_probs=49.7

Q ss_pred             EEecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383           8 IQFSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus         8 V~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +.|++..+...--++--|.++..-+|...   .+||||||+|.|.++|.+|.+.. .-.|+||+...
T Consensus        20 L~w~T~~~~l~~yFeqfGeI~eavvitd~~t~rskGyGfVTf~d~~aa~rAc~dp-~piIdGR~aNc   85 (247)
T KOG0149|consen   20 LAWETHKETLRRYFEQFGEIVEAVVITDKNTGRSKGYGFVTFRDAEAATRACKDP-NPIIDGRKANC   85 (247)
T ss_pred             cccccchHHHHHHHHHhCceEEEEEEeccCCccccceeeEEeecHHHHHHHhcCC-CCccccccccc
Confidence            35777778777778888888887777553   58999999999999999999854 45688887643

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

Probab=97.97  E-value=2.7e-05  Score=42.18  Aligned_cols=35  Identities=31%  Similarity=0.619  Sum_probs=32.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|+|||+|.+.++|..|+..+++..+.|+.+.|.
T Consensus        39 ~~~~~~v~f~s~~~a~~a~~~~~~~~~~~~~~~v~   73 (74)
T cd00590          39 SKGFAFVEFEDEEDAEKALEALNGKELGGRPLRVE   73 (74)
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEe
Confidence            37999999999999999999999999999998875

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).

>KOG4208|consensus

Probab=97.97  E-value=6.9e-06  Score=55.60  Aligned_cols=37  Identities=24%  Similarity=0.375  Sum_probs=34.5

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .|||||||+|++++.|.-|...||+..+.++.+.|.+
T Consensus        90 NSKgYAFVEFEs~eVA~IaAETMNNYLl~e~lL~c~v  126 (214)
T KOG4208|consen   90 NSKGYAFVEFESEEVAKIAAETMNNYLLMEHLLECHV  126 (214)
T ss_pred             CcCceEEEEeccHHHHHHHHHHhhhhhhhhheeeeEE
Confidence            3799999999999999999999999999999998874

>KOG4212|consensus

Probab=97.95  E-value=3.7e-05  Score=57.36  Aligned_cols=35  Identities=23%  Similarity=0.403  Sum_probs=32.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      +||.|.|+|.+++.+++|+..||...+.||+|+|.
T Consensus        85 ~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vK  119 (608)
T KOG4212|consen   85 ARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVK  119 (608)
T ss_pred             cCCceEEEeeCHHHHHHHHHHhhhccccCceEEEe
Confidence            57999999999999999999999999999999885

>KOG0113|consensus

Probab=97.95  E-value=1.7e-05  Score=56.49  Aligned_cols=36  Identities=31%  Similarity=0.615  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.++.++..|.+.-+|.+|.|+.|.|.+
T Consensus       142 skGYAFIeye~erdm~~AYK~adG~~Idgrri~VDv  177 (335)
T KOG0113|consen  142 SKGYAFIEYEHERDMKAAYKDADGIKIDGRRILVDV  177 (335)
T ss_pred             ccceEEEEeccHHHHHHHHHhccCceecCcEEEEEe
Confidence            689999999999999999999999999999999986

>PLN03120 nucleic acid binding protein; Provisional

Probab=97.92  E-value=2e-05  Score=55.18  Aligned_cols=39  Identities=28%  Similarity=0.552  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCe
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY   41 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~   41 (89)
                      ++|||||+|.++++|+.|+. |||..+.|+.|.|.+...|
T Consensus        42 ~~GfAFVtF~d~eaAe~All-LnG~~l~gr~V~Vt~a~~~   80 (260)
T PLN03120         42 RSQIAYVTFKDPQGAETALL-LSGATIVDQSVTITPAEDY   80 (260)
T ss_pred             CCCEEEEEeCcHHHHHHHHH-hcCCeeCCceEEEEeccCC
Confidence            47999999999999999996 9999999999999875543

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

Probab=97.83  E-value=3.8e-05  Score=50.73  Aligned_cols=38  Identities=24%  Similarity=0.517  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.+++..|+..++|..+.|+.+.|....
T Consensus       156 ~~g~~~v~f~~~~~~~~a~~~~~~~~~~~~~~~v~~~~  193 (306)
T COG0724         156 SRGFAFVEFESEESAEKAIEELNGKELEGRPLRVQKAQ  193 (306)
T ss_pred             cCceEEEEecCHHHHHHHHHHcCCCeECCceeEeeccc
Confidence            68999999999999999999999999999999998854

>KOG0130|consensus

Probab=97.83  E-value=1.3e-05  Score=51.54  Aligned_cols=36  Identities=28%  Similarity=0.557  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .|||++|+|++.++|+.|+..+||..|.|.+|.|.|
T Consensus       113 ~KGYaLvEYet~keAq~A~~~~Ng~~ll~q~v~VDw  148 (170)
T KOG0130|consen  113 VKGYALVEYETLKEAQAAIDALNGAELLGQNVSVDW  148 (170)
T ss_pred             ccceeeeehHhHHHHHHHHHhccchhhhCCceeEEE
Confidence            589999999999999999999999999999999976

>KOG0109|consensus

Probab=97.80  E-value=1.9e-05  Score=56.19  Aligned_cols=47  Identities=21%  Similarity=0.318  Sum_probs=41.8

Q ss_pred             eecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          27 TVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        27 ~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +-.|+++.+++-|.||||+.++...|+.||..|+|.+|.|..|.+..
T Consensus        24 e~ygkVlECDIvKNYgFVHiEdktaaedairNLhgYtLhg~nInVea   70 (346)
T KOG0109|consen   24 EQYGKVLECDIVKNYGFVHIEDKTAAEDAIRNLHGYTLHGVNINVEA   70 (346)
T ss_pred             HhhCceEeeeeecccceEEeecccccHHHHhhcccceecceEEEEEe
Confidence            34677888999999999999999999999999999999999996543

>KOG0108|consensus

Probab=97.74  E-value=3.4e-05  Score=57.48  Aligned_cols=38  Identities=24%  Similarity=0.451  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      .+||||++|.+.++|+.|++.|||.++.|++++|.+..
T Consensus        59 ~~G~~f~~~~~~~~~~~a~~~lNg~~~~gr~l~v~~~~   96 (435)
T KOG0108|consen   59 PKGFGFCEFTDEETAERAIRNLNGAEFNGRKLRVNYAS   96 (435)
T ss_pred             cCceeeEecCchhhHHHHHHhcCCcccCCceEEeeccc
Confidence            58999999999999999999999999999999998743

>KOG4211|consensus

Probab=97.71  E-value=7.9e-05  Score=55.91  Aligned_cols=70  Identities=19%  Similarity=0.288  Sum_probs=56.4

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE----------------------------------------------
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS----------------------------------------------   36 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~----------------------------------------------   36 (89)
                      .|=|||+|.++++.+.|++ .+...+..+=|.|-                                              
T Consensus        49 sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~~~~e~d~~~~~~g~~s~~~d~vVRLRGLPfscte~dI~~FFaGL  127 (510)
T KOG4211|consen   49 SGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTAGGAEADWVMRPGGPNSSANDGVVRLRGLPFSCTEEDIVEFFAGL  127 (510)
T ss_pred             CcceEEEeechHHHHHHHH-hhHHHhCCceEEEEccCCccccccccCCCCCCCCCCceEEecCCCccCcHHHHHHHhcCC
Confidence            5779999999999999997 55555555544442                                              


Q ss_pred             ---------------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 ---------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ---------------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                                     .+.|-|||+|++.+.|++||. -|...|+.|-|.+.+.
T Consensus       128 ~Iv~~gi~l~~d~rgR~tGEAfVqF~sqe~ae~Al~-rhre~iGhRYIEvF~S  179 (510)
T KOG4211|consen  128 EIVPDGILLPMDQRGRPTGEAFVQFESQESAEIALG-RHRENIGHRYIEVFRS  179 (510)
T ss_pred             cccccceeeeccCCCCcccceEEEecCHHHHHHHHH-HHHHhhccceEEeehh
Confidence                           067899999999999999998 7888999999987554

>KOG0126|consensus

Probab=97.71  E-value=1.7e-05  Score=53.19  Aligned_cols=43  Identities=23%  Similarity=0.403  Sum_probs=37.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecce
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGC   80 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~   80 (89)
                      ++||||..|++-.+---|+..|||.+|.||.|++--+.+|..+
T Consensus        76 SKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDHv~~Yk~p  118 (219)
T KOG0126|consen   76 SKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDHVSNYKKP  118 (219)
T ss_pred             ccceEEEEecCccceEEEEeccCCceecceeEEeeecccccCC
Confidence            8999999999999999999999999999999988777665544

>KOG0120|consensus

Probab=97.71  E-value=2.6e-05  Score=58.85  Aligned_cols=69  Identities=32%  Similarity=0.501  Sum_probs=60.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE---------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS---------------------------------------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---------------------------------------------   36 (89)
                      .+.|+|++|.+.++|..++. +++....|.++.+.                                             
T Consensus       222 ~~nfa~ie~~s~~~at~~~~-~~~~~f~g~~~~~~r~~d~~~~p~~~~~~~~~~~~~~~~~~t~~~~~~~ki~v~~lp~~  300 (500)
T KOG0120|consen  222 EKNFAFIEFRSISEATEAMA-LDGIIFEGRPLKIRRPHDYQPVPGITLSPSQLGKVGLLPASTDVPDSPNKIFVGGLPLY  300 (500)
T ss_pred             cccceeEEecCCCchhhhhc-ccchhhCCCCceecccccccCCccchhhhccccccCCcccccCcccccchhhhccCcCc
Confidence            46899999999999999886 78877788766553                                             


Q ss_pred             ----------------------------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          37 ----------------------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        37 ----------------------------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                                                  .++||+|.+|.+..-...|+..|||..+++++|.+
T Consensus       301 l~~~q~~Ell~~fg~lk~f~lv~d~~~g~skg~af~ey~dpsvtd~A~agLnGm~lgd~~lvv  363 (500)
T KOG0120|consen  301 LTEDQVKELLDSFGPLKAFRLVKDSATGNSKGFAFCEYCDPSVTDQAIAGLNGMQLGDKKLVV  363 (500)
T ss_pred             cCHHHHHHHHHhcccchhheeecccccccccceeeeeeeCCcchhhhhcccchhhhcCceeEe
Confidence                                        08999999999999999999999999999999964

>KOG0117|consensus

Probab=97.67  E-value=0.00022  Score=53.24  Aligned_cols=54  Identities=19%  Similarity=0.268  Sum_probs=39.6

Q ss_pred             HHHhhcCCceecCeEeEEEc---ccCeEEEEeCCHHHHHHHHHhcCCceec-CeEEEE
Q psy4383          18 SACLGEDGRTVLGQTLGISM---HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLVS   71 (89)
Q Consensus        18 ~Ai~~l~g~~l~g~~i~v~~---~rG~afV~F~~~~~a~~Ai~~l~g~~l~-gr~i~~   71 (89)
                      .-++.--|.++.-|.+...+   +||||||+|.+.++|++||+.||+..|. |+.|.+
T Consensus       101 vplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir~GK~igv  158 (506)
T KOG0117|consen  101 VPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIRPGKLLGV  158 (506)
T ss_pred             HHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCccccCCCEeEE
Confidence            33444455555555443322   7999999999999999999999999885 676643

>KOG0114|consensus

Probab=97.66  E-value=0.00016  Score=44.69  Aligned_cols=38  Identities=32%  Similarity=0.446  Sum_probs=34.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      .+|-|||.|++..+|++|...|+|..+.++.+.+...|
T Consensus        56 TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vlyyq   93 (124)
T KOG0114|consen   56 TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVLYYQ   93 (124)
T ss_pred             cCceEEEEehHhhhHHHHHHHhcccccCCceEEEEecC
Confidence            68999999999999999999999999999999765443

>PLN03213 repressor of silencing 3; Provisional

Probab=97.62  E-value=7e-05  Score=56.79  Aligned_cols=37  Identities=22%  Similarity=0.327  Sum_probs=33.7

Q ss_pred             ceeEEEEecCH--HHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNP--HDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~--~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ||||||+|...  .++.+||..|||..+.|+.|+|+.-|
T Consensus        48 RGFAFVEMssdddaEeeKAISaLNGAEWKGR~LKVNKAK   86 (759)
T PLN03213         48 RSFAYIDFSPSSTNSLTKLFSTYNGCVWKGGRLRLEKAK   86 (759)
T ss_pred             CceEEEEecCCcHHHHHHHHHHhcCCeecCceeEEeecc
Confidence            79999999987  67999999999999999999998643

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

Probab=97.62  E-value=0.00014  Score=43.18  Aligned_cols=46  Identities=24%  Similarity=0.394  Sum_probs=30.9

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecc
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNG   79 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~   79 (89)
                      .|+.+.|  +.|-|+|.|.+.+.|++|.+.|+|...-|++|.   ++|.+.
T Consensus        31 GGkVl~v--~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~---v~~~~~   76 (90)
T PF11608_consen   31 GGKVLSV--SGGTAILRFPNQEFAERAQKRMEGEDVFGNKIS---VSFSPK   76 (90)
T ss_dssp             T--EEE----TT-EEEEESSHHHHHHHHHHHTT--SSSS--E---EESS--
T ss_pred             CCEEEEE--eCCEEEEEeCCHHHHHHHHHhhcccccccceEE---EEEcCC
Confidence            5677777  578899999999999999999999999999996   555433

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

>KOG4206|consensus

Probab=97.59  E-value=9e-05  Score=50.69  Aligned_cols=54  Identities=20%  Similarity=0.324  Sum_probs=40.4

Q ss_pred             HhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeee
Q psy4383          20 CLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY   76 (89)
Q Consensus        20 i~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~   76 (89)
                      ++.-.|+.++....+-...||-|||.|.+.+.|..|+.+|+|..+.|++++   +||
T Consensus        33 LFsqfG~ildI~a~kt~KmRGQA~VvFk~~~~As~A~r~l~gfpFygK~mr---iqy   86 (221)
T KOG4206|consen   33 LFSQFGKILDISAFKTPKMRGQAFVVFKETEAASAALRALQGFPFYGKPMR---IQY   86 (221)
T ss_pred             HHHhhCCeEEEEecCCCCccCceEEEecChhHHHHHHHHhcCCcccCchhh---eec
Confidence            333344444333333334789999999999999999999999999999996   555

>KOG0126|consensus

Probab=97.59  E-value=2.1e-05  Score=52.78  Aligned_cols=36  Identities=25%  Similarity=0.494  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      |+||||++|++....--|+.+|||..+.||.|+|..
T Consensus        76 SKGFaFLcYEDQRSTILAVDN~NGiki~gRtirVDH  111 (219)
T KOG0126|consen   76 SKGFAFLCYEDQRSTILAVDNLNGIKILGRTIRVDH  111 (219)
T ss_pred             ccceEEEEecCccceEEEEeccCCceecceeEEeee
Confidence            789999999999999999999999999999999974

>KOG1190|consensus

Probab=97.55  E-value=0.00033  Score=51.89  Aligned_cols=66  Identities=20%  Similarity=0.252  Sum_probs=59.2

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc----------------------------------------------
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM----------------------------------------------   37 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~----------------------------------------------   37 (89)
                      --|.|+|.+...|+-|+..|+|..++|++|+|..                                              
T Consensus       336 d~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrvt~SKH~~vqlp~egq~d~glT~dy~~spLhrfkkpgsKN~~ni~Ppsa  415 (492)
T KOG1190|consen  336 DNALIQMSDGQQAQLAMEHLEGHKLYGKKLRVTLSKHTNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNYQNIFPPSA  415 (492)
T ss_pred             cceeeeecchhHHHHHHHHhhcceecCceEEEeeccCccccCCCCCCccccccccCCCCchhhccCcccccccccCCchh
Confidence            3489999999999999999999999999999962                                              


Q ss_pred             -----------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          38 -----------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        38 -----------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                                                         .+-++.+.+++.|+|..|+-.|+.+.++...+
T Consensus       416 tlHlsnip~svsee~lk~~f~~~g~~vkafkff~kd~kmal~q~~sveeA~~ali~~hnh~lgen~h  482 (492)
T KOG1190|consen  416 TLHLSNIPPSVSEEDLKNLFQEPGGQVKAFKFFQKDRKMALPQLESVEEAIQALIDLHNHYLGENHH  482 (492)
T ss_pred             heeeccCCcccchhHHHHhhhcCCceEEeeeecCCCcceeecccCChhHhhhhccccccccCCCCce
Confidence                                               45689999999999999999999999987744

>KOG4661|consensus

Probab=97.54  E-value=0.00022  Score=55.00  Aligned_cols=69  Identities=13%  Similarity=0.153  Sum_probs=56.9

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEc---ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceec
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISM---HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRY   82 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~---~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~   82 (89)
                      .....+|+...|+++..+++.-..   .+.||||+|.+.++|.++|..|+-+.|-||.|.|.++..-.++..
T Consensus       419 AtDLKnlFSKyGKVvGAKVVTNaRsPGaRCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEkaKNEp~Gkk  490 (940)
T KOG4661|consen  419 ATDLKNLFSKYGKVVGAKVVTNARSPGARCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEKAKNEPGGKK  490 (940)
T ss_pred             hhHHHHHHHHhcceeceeeeecCCCCCcceeEEEEecchHHHHHHHHHhhhhhhcceeeeeeecccCccccc
Confidence            344668888899999888776443   478999999999999999999999999999999988876555443

>KOG4212|consensus

Probab=97.53  E-value=0.00027  Score=52.88  Aligned_cols=38  Identities=24%  Similarity=0.361  Sum_probs=35.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      +||+|.|+|.++|.+++|++.||-..+.||+|.++.-+
T Consensus        85 ~rGcavVEFk~~E~~qKa~E~lnk~~~~GR~l~vKEd~  122 (608)
T KOG4212|consen   85 ARGCAVVEFKDPENVQKALEKLNKYEVNGRELVVKEDH  122 (608)
T ss_pred             cCCceEEEeeCHHHHHHHHHHhhhccccCceEEEeccC
Confidence            79999999999999999999999999999999887654

>KOG0226|consensus

Probab=97.51  E-value=4.8e-05  Score=53.18  Aligned_cols=36  Identities=28%  Similarity=0.504  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++||+||.|.++.++..|+++|||+.+..++|+.+-
T Consensus       231 SkgygfVSf~~pad~~rAmrem~gkyVgsrpiklRk  266 (290)
T KOG0226|consen  231 SKGYGFVSFRDPADYVRAMREMNGKYVGSRPIKLRK  266 (290)
T ss_pred             cccceeeeecCHHHHHHHHHhhcccccccchhHhhh
Confidence            689999999999999999999999999999998754

>KOG1457|consensus

Probab=97.45  E-value=0.00048  Score=47.68  Aligned_cols=28  Identities=25%  Similarity=0.153  Sum_probs=24.8

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecC
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLG   30 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g   30 (89)
                      +-+||+.|.+.++|..|+..|||..++-
T Consensus        77 ~pvaFatF~s~q~A~aamnaLNGvrFDp  104 (284)
T KOG1457|consen   77 KPVAFATFTSHQFALAAMNALNGVRFDP  104 (284)
T ss_pred             cceEEEEecchHHHHHHHHHhcCeeecc
Confidence            3589999999999999999999988754

>KOG0105|consensus

Probab=97.39  E-value=0.00028  Score=47.62  Aligned_cols=46  Identities=30%  Similarity=0.454  Sum_probs=37.4

Q ss_pred             cCeEeEEEc-----ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          29 LGQTLGISM-----HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        29 ~g~~i~v~~-----~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +|++..|.+     .-+||||+|++..+|+.||..-||..++|..|++...
T Consensus        30 yg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRdGYdydg~rLRVEfp   80 (241)
T KOG0105|consen   30 YGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRDGYDYDGCRLRVEFP   80 (241)
T ss_pred             hcceEEEEeccCCCCCCeeEEEecCccchhhhhhcccccccCcceEEEEec
Confidence            445554543     2469999999999999999999999999999976544

>KOG0146|consensus

Probab=97.35  E-value=6.7e-05  Score=53.08  Aligned_cols=38  Identities=24%  Similarity=0.467  Sum_probs=35.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ||.||||.|.++..++.||..|||..|.-|.++|++.|
T Consensus       326 SKCFGFVSfDNp~SaQaAIqAMNGFQIGMKRLKVQLKR  363 (371)
T KOG0146|consen  326 SKCFGFVSFDNPASAQAAIQAMNGFQIGMKRLKVQLKR  363 (371)
T ss_pred             ccceeeEecCCchhHHHHHHHhcchhhhhhhhhhhhcC
Confidence            68999999999999999999999999999999987643

>KOG0149|consensus

Probab=97.26  E-value=0.00025  Score=49.04  Aligned_cols=36  Identities=25%  Similarity=0.540  Sum_probs=29.7

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .|||||||.|.+.+.|.+|+...|- +|+||+..|++
T Consensus        52 rskGyGfVTf~d~~aa~rAc~dp~p-iIdGR~aNcnl   87 (247)
T KOG0149|consen   52 RSKGYGFVTFRDAEAATRACKDPNP-IIDGRKANCNL   87 (247)
T ss_pred             cccceeeEEeecHHHHHHHhcCCCC-cccccccccch
Confidence            3799999999999999999986554 47888777764

>PLN03121 nucleic acid binding protein; Provisional

Probab=97.21  E-value=0.00072  Score=46.98  Aligned_cols=35  Identities=23%  Similarity=0.340  Sum_probs=31.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .+|||||+|.++++++.|+. |+|..|.+++|.|..
T Consensus        43 t~gfAfVtF~d~~aaetAll-LnGa~l~d~~I~It~   77 (243)
T PLN03121         43 YACTAYVTFKDAYALETAVL-LSGATIVDQRVCITR   77 (243)
T ss_pred             cceEEEEEECCHHHHHHHHh-cCCCeeCCceEEEEe
Confidence            35899999999999999995 999999999998864

>KOG0114|consensus

Probab=97.03  E-value=0.00098  Score=41.20  Aligned_cols=35  Identities=29%  Similarity=0.433  Sum_probs=31.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      .+|-|||.|++..+|..|+..|+|..++++.+.|.
T Consensus        56 TrGTAFVVYedi~dAk~A~dhlsg~n~~~ryl~vl   90 (124)
T KOG0114|consen   56 TRGTAFVVYEDIFDAKKACDHLSGYNVDNRYLVVL   90 (124)
T ss_pred             cCceEEEEehHhhhHHHHHHHhcccccCCceEEEE
Confidence            36899999999999999999999999999888764

>KOG0106|consensus

Probab=97.02  E-value=0.00051  Score=47.01  Aligned_cols=41  Identities=32%  Similarity=0.681  Sum_probs=35.9

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                      +|+...+.+..||+||+|++..+|..|+..+||..+.|..+
T Consensus        25 yg~~~d~~mk~gf~fv~fed~rda~Dav~~l~~~~l~~e~~   65 (216)
T KOG0106|consen   25 YGKIPDADMKNGFGFVEFEDPRDADDAVHDLDGKELCGERL   65 (216)
T ss_pred             ccccccceeecccceeccCchhhhhcccchhcCceecceee
Confidence            34455666788999999999999999999999999999884

>KOG4209|consensus

Probab=96.86  E-value=0.0023  Score=44.19  Aligned_cols=33  Identities=27%  Similarity=0.465  Sum_probs=31.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++||+||+|.+.+..++|+. |||..|.|+.|.+
T Consensus       142 ~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~v  174 (231)
T KOG4209|consen  142 PKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEV  174 (231)
T ss_pred             cceeEEEecccHhhhHHHhh-cCCccccccccee
Confidence            68999999999999999999 9999999998854

>KOG1190|consensus

Probab=96.75  E-value=0.0052  Score=45.74  Aligned_cols=34  Identities=29%  Similarity=0.368  Sum_probs=31.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .+--|.|.|.|...|+-|+..|+|..|-|++|++
T Consensus       334 kkd~ALIQmsd~~qAqLA~~hL~g~~l~gk~lrv  367 (492)
T KOG1190|consen  334 KKDNALIQMSDGQQAQLAMEHLEGHKLYGKKLRV  367 (492)
T ss_pred             CCcceeeeecchhHHHHHHHHhhcceecCceEEE
Confidence            3457999999999999999999999999999975

>KOG2202|consensus

Probab=96.65  E-value=0.00086  Score=46.84  Aligned_cols=34  Identities=21%  Similarity=0.323  Sum_probs=31.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      -+|-++|.|..+++|++|+..|||.++.|++|-.
T Consensus       109 l~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~a  142 (260)
T KOG2202|consen  109 LVGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHA  142 (260)
T ss_pred             hhhhhhhhcccHHHHHHHHHHHcCccccCCccee
Confidence            3688999999999999999999999999999953

>KOG0132|consensus

Probab=96.61  E-value=0.0042  Score=49.23  Aligned_cols=56  Identities=25%  Similarity=0.332  Sum_probs=33.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc----------------ccCeEEEEeCCHHHHHHHHH
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM----------------HKGYAFIQFSNPHDARSACL   57 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~----------------~rG~afV~F~~~~~a~~Ai~   57 (89)
                      ++|.|||.+...++|.+|+.+|+...+..+.|++.|                ..|+.+|=++...++.+|++
T Consensus       456 ~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki~Wa~g~G~kse~k~~wD~~lGVt~IP~~kLt~dl~~~~  527 (894)
T KOG0132|consen  456 PRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKIAWAVGKGPKSEYKDYWDVELGVTYIPWEKLTDDLEAWC  527 (894)
T ss_pred             CCceeEEEEeehhHHHHHHHHHhcccccceeeEEeeeccCCcchhhhhhhhcccCeeEeehHhcCHHHHHhh
Confidence            456666666666666666666666666666666654                34555565555555555553

>KOG1456|consensus

Probab=96.54  E-value=0.019  Score=42.58  Aligned_cols=34  Identities=15%  Similarity=0.230  Sum_probs=31.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .-|-|.|++.|..+.++|+..||+..+-|.+|.+
T Consensus       324 k~gtamVemgd~~aver~v~hLnn~~lfG~kl~v  357 (494)
T KOG1456|consen  324 KPGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNV  357 (494)
T ss_pred             ccceeEEEcCcHHHHHHHHHHhccCccccceEEE
Confidence            4589999999999999999999999999999865

>KOG1457|consensus

Probab=96.52  E-value=0.0078  Score=41.80  Aligned_cols=29  Identities=24%  Similarity=0.133  Sum_probs=26.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLG   66 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~g   66 (89)
                      ++-+||+.|.+..+|..|+.+|||..++=
T Consensus        76 ~~pvaFatF~s~q~A~aamnaLNGvrFDp  104 (284)
T KOG1457|consen   76 CKPVAFATFTSHQFALAAMNALNGVRFDP  104 (284)
T ss_pred             ccceEEEEecchHHHHHHHHHhcCeeecc
Confidence            45799999999999999999999999973

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

Probab=96.42  E-value=0.004  Score=37.66  Aligned_cols=29  Identities=28%  Similarity=0.497  Sum_probs=27.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLG   66 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~g   66 (89)
                      +.|||||.|.+++.|.+-.+.++|+.+..
T Consensus        44 N~GYAFVNf~~~~~~~~F~~~f~g~~w~~   72 (97)
T PF04059_consen   44 NLGYAFVNFTSPQAAIRFYKAFNGKKWPN   72 (97)
T ss_pred             ceEEEEEEcCCHHHHHHHHHHHcCCcccc
Confidence            68999999999999999999999999974

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

>KOG0415|consensus

Probab=96.41  E-value=0.0058  Score=44.92  Aligned_cols=56  Identities=18%  Similarity=0.211  Sum_probs=41.4

Q ss_pred             HHHHHhhcCCceecCeEeEEEc---ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          16 ARSACLGEDGRTVLGQTLGISM---HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        16 a~~Ai~~l~g~~l~g~~i~v~~---~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ...-|+.--|...+-.+|+...   +--||||+|++.+++++|.-.|++..|++|.|-|
T Consensus       255 DLeiIFSrFG~i~sceVIRD~ktgdsLqyaFiEFen~escE~AyFKMdNvLIDDrRIHV  313 (479)
T KOG0415|consen  255 DLEIIFSRFGKIVSCEVIRDRKTGDSLQYAFIEFENKESCEQAYFKMDNVLIDDRRIHV  313 (479)
T ss_pred             chhhHHhhcccceeeeEEecccccchhheeeeeecchhhHHHHHhhhcceeeccceEEe
Confidence            3444555555555554444322   4569999999999999999999999999999954

>KOG0132|consensus

Probab=96.39  E-value=0.0078  Score=47.79  Aligned_cols=40  Identities=23%  Similarity=0.250  Sum_probs=34.9

Q ss_pred             EeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          32 TLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        32 ~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .|.+..++|+|||.+.++++|.+|+.+|+..++.++.|++
T Consensus       450 Si~li~~R~cAfI~M~~RqdA~kalqkl~n~kv~~k~Iki  489 (894)
T KOG0132|consen  450 SIILIPPRGCAFIKMVRRQDAEKALQKLSNVKVADKTIKI  489 (894)
T ss_pred             eEeeccCCceeEEEEeehhHHHHHHHHHhcccccceeeEE
Confidence            3344458999999999999999999999999999999853

>KOG1996|consensus

Probab=96.27  E-value=0.0048  Score=44.30  Aligned_cols=38  Identities=24%  Similarity=0.430  Sum_probs=32.8

Q ss_pred             EEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceec
Q psy4383          42 AFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRY   82 (89)
Q Consensus        42 afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~   82 (89)
                      .||+|++.++|.+|+-.|||+.++||.+.   +-|||-..|
T Consensus       332 iFveF~r~e~aiKA~VdlnGRyFGGr~v~---A~Fyn~ekf  369 (378)
T KOG1996|consen  332 IFVEFERVESAIKAVVDLNGRYFGGRVVS---ACFYNLEKF  369 (378)
T ss_pred             eeeeeccHHHHHHHHHhcCCceecceeee---heeccHHhh
Confidence            79999999999999999999999999874   666665544

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

Probab=96.27  E-value=0.0072  Score=35.92  Aligned_cols=37  Identities=27%  Similarity=0.433  Sum_probs=28.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      +.+-|.|.|.+++.|++|.+.|+|.-+.|..|.|++.
T Consensus        38 ~~~tAilrF~~~~~A~RA~KRmegEdVfG~kI~v~~~   74 (90)
T PF11608_consen   38 SGGTAILRFPNQEFAERAQKRMEGEDVFGNKISVSFS   74 (90)
T ss_dssp             -TT-EEEEESSHHHHHHHHHHHTT--SSSS--EEESS
T ss_pred             eCCEEEEEeCCHHHHHHHHHhhcccccccceEEEEEc
Confidence            3567999999999999999999999999999999875

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

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=96.14  E-value=0.021  Score=37.01  Aligned_cols=42  Identities=24%  Similarity=0.304  Sum_probs=37.2

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .|..+-|++-.+-=+|+|.+-++|.+|+. |+|.++.|+.|.+
T Consensus        60 ~GevvLvRfv~~~mwVTF~dg~sALaals-~dg~~v~g~~l~i  101 (146)
T PF08952_consen   60 YGEVVLVRFVGDTMWVTFRDGQSALAALS-LDGIQVNGRTLKI  101 (146)
T ss_dssp             CS-ECEEEEETTCEEEEESSCHHHHHHHH-GCCSEETTEEEEE
T ss_pred             CCceEEEEEeCCeEEEEECccHHHHHHHc-cCCcEECCEEEEE
Confidence            66788888888899999999999999999 9999999998864

; PDB: 1UFW_A 2DNR_A.

>KOG0415|consensus

Probab=95.91  E-value=0.0055  Score=45.02  Aligned_cols=44  Identities=18%  Similarity=0.380  Sum_probs=37.5

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEe
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQF   46 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F   46 (89)
                      -.||||+|++.++++.|.++|+...+..+.|-|.++...+=|.|
T Consensus       281 LqyaFiEFen~escE~AyFKMdNvLIDDrRIHVDFSQSVsk~k~  324 (479)
T KOG0415|consen  281 LQYAFIEFENKESCEQAYFKMDNVLIDDRRIHVDFSQSVSKVKY  324 (479)
T ss_pred             hheeeeeecchhhHHHHHhhhcceeeccceEEeehhhhhhhhhc
Confidence            46999999999999999999999999999999987654444444

>KOG1456|consensus

Probab=95.86  E-value=0.041  Score=40.83  Aligned_cols=80  Identities=16%  Similarity=0.246  Sum_probs=63.5

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc---------------------------------------------
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM---------------------------------------------   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~---------------------------------------------   37 (89)
                      .|=|.|++.+..+.++|+.-||+..+.|..|.|.+                                             
T Consensus       325 ~gtamVemgd~~aver~v~hLnn~~lfG~kl~v~~SkQ~~v~~~~pflLpDgSpSfKdys~SkNnRFssp~qAsKNrIq~  404 (494)
T KOG1456|consen  325 PGTAMVEMGDAYAVERAVTHLNNIPLFGGKLNVCVSKQNFVSPVQPFLLPDGSPSFKDYSGSKNNRFSSPEQASKNRIQP  404 (494)
T ss_pred             cceeEEEcCcHHHHHHHHHHhccCccccceEEEeeccccccccCCceecCCCCcchhhcccccccccCChhHhhcccccC
Confidence            47789999999999999999999999999888752                                             


Q ss_pred             -----------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCe---EEEEEe
Q psy4383          38 -----------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQ---TLVSYK   73 (89)
Q Consensus        38 -----------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr---~i~~~~   73 (89)
                                                               ..--|.++|++.++|-.||..+|...+.+.   ---..+
T Consensus       405 Ps~vLHffNaP~~vtEe~l~~i~nek~v~~~svkvFp~kserSssGllEfe~~s~Aveal~~~NH~pi~~p~gs~PfilK  484 (494)
T KOG1456|consen  405 PSNVLHFFNAPLGVTEEQLIGICNEKDVPPTSVKVFPLKSERSSSGLLEFENKSDAVEALMKLNHYPIEGPNGSFPFILK  484 (494)
T ss_pred             CcceeEEecCCCccCHHHHHHHhhhcCCCcceEEeecccccccccceeeeehHHHHHHHHHHhccccccCCCCCCCeeee
Confidence                                                     123489999999999999999999988763   222345


Q ss_pred             eeeecceec
Q psy4383          74 LQYYNGCRY   82 (89)
Q Consensus        74 ~~~~~~~~~   82 (89)
                      |-|+.+.+|
T Consensus       485 lcfsts~~~  493 (494)
T KOG1456|consen  485 LCFSTSKHM  493 (494)
T ss_pred             eeecccccC
Confidence            656655443

>KOG4209|consensus

Probab=95.83  E-value=0.011  Score=40.79  Aligned_cols=35  Identities=26%  Similarity=0.528  Sum_probs=33.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +|||+||+|.+.+..+.|+. |||..+.++.+.|..
T Consensus       142 ~k~~~yvef~~~~~~~~ay~-l~gs~i~~~~i~vt~  176 (231)
T KOG4209|consen  142 PKGFAYVEFSSYELVEEAYK-LDGSEIPGPAIEVTL  176 (231)
T ss_pred             cceeEEEecccHhhhHHHhh-cCCcccccccceeee
Confidence            68999999999999999999 999999999998875

>KOG0153|consensus

Probab=95.70  E-value=0.025  Score=41.32  Aligned_cols=42  Identities=24%  Similarity=0.272  Sum_probs=32.2

Q ss_pred             eEeEEEcccCeEEEEeCCHHHHHHHHHh-cCCceecCeEEEEE
Q psy4383          31 QTLGISMHKGYAFIQFSNPHDARSACLG-EDGRTVLGQTLVSY   72 (89)
Q Consensus        31 ~~i~v~~~rG~afV~F~~~~~a~~Ai~~-l~g~~l~gr~i~~~   72 (89)
                      +.|.+...+|+|||+|.+.++|+.|... +|-..|+|+.|.+.
T Consensus       256 rsi~~~~~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~  298 (377)
T KOG0153|consen  256 RSIRILPRKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIK  298 (377)
T ss_pred             eeEEeecccccceeeehhhHHHHHHHHhhcceeeecceEEEEE
Confidence            3555666889999999999999988754 55557789888654

>KOG0533|consensus

Probab=95.46  E-value=0.033  Score=38.83  Aligned_cols=38  Identities=21%  Similarity=0.230  Sum_probs=34.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      +.|.|=|.|...++|..|++.+||..++|+++.+..+.
T Consensus       123 s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~i~  160 (243)
T KOG0533|consen  123 SLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEIIS  160 (243)
T ss_pred             CCccceeeecchHhHHHHHHHhcCcccCCceeeeEEec
Confidence            67999999999999999999999999999998776653

>KOG4661|consensus

Probab=95.41  E-value=0.017  Score=45.00  Aligned_cols=35  Identities=14%  Similarity=0.306  Sum_probs=33.1

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +.||||.+.+..+|..+|..|+.++|.|+.|.|..
T Consensus       447 RCYGfVTMSts~eAtkCI~hLHrTELHGrmISVEk  481 (940)
T KOG4661|consen  447 RCYGFVTMSTSAEATKCIEHLHRTELHGRMISVEK  481 (940)
T ss_pred             ceeEEEEecchHHHHHHHHHhhhhhhcceeeeeee
Confidence            57999999999999999999999999999999974

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

Probab=95.38  E-value=0.022  Score=34.41  Aligned_cols=29  Identities=28%  Similarity=0.497  Sum_probs=26.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG   30 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g   30 (89)
                      +.|||||.|.+++.+..-...++|..+..
T Consensus        44 N~GYAFVNf~~~~~~~~F~~~f~g~~w~~   72 (97)
T PF04059_consen   44 NLGYAFVNFTSPQAAIRFYKAFNGKKWPN   72 (97)
T ss_pred             ceEEEEEEcCCHHHHHHHHHHHcCCcccc
Confidence            57999999999999999999999998853

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

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=95.36  E-value=0.037  Score=40.61  Aligned_cols=29  Identities=28%  Similarity=0.422  Sum_probs=27.7

Q ss_pred             EEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          42 AFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        42 afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .||+|.+.|+|+++|.+.||..++||.|+
T Consensus       168 vYITy~~kedAarcIa~vDgs~~DGr~lk  196 (480)
T COG5175         168 VYITYSTKEDAARCIAEVDGSLLDGRVLK  196 (480)
T ss_pred             EEEEecchHHHHHHHHHhccccccCceEe
Confidence            59999999999999999999999999985

>KOG0151|consensus

Probab=95.11  E-value=0.025  Score=44.76  Aligned_cols=48  Identities=23%  Similarity=0.270  Sum_probs=40.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE---EeeeeecceeccCC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS---YKLQYYNGCRYVSP   85 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~---~~~~~~~~~~~~~~   85 (89)
                      .+.+|||.|-+..+|++|++.|+|..+.+..+..   ..++..+..-|+||
T Consensus       218 ~r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk~V~ip~~p~~ipp  268 (877)
T KOG0151|consen  218 ERNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGKAVPIPNIPIYIPP  268 (877)
T ss_pred             ccccceeeehhhhhHHHHHHHhcceeeeeeeeeeccccccccCCccccCCC
Confidence            5678999999999999999999999999988854   23357777777776

>KOG2314|consensus

Probab=94.99  E-value=0.036  Score=42.89  Aligned_cols=37  Identities=24%  Similarity=0.468  Sum_probs=31.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecC-eEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLG-QTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~g-r~i~~~~~   74 (89)
                      ++||.|++|.+..+|+.|+++|||..|+- +...+..+
T Consensus       104 tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~~f  141 (698)
T KOG2314|consen  104 TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVRLF  141 (698)
T ss_pred             eeeEEEEEecChhhHHHHHHhcccceecccceEEeehh
Confidence            79999999999999999999999999985 44444443

>KOG1365|consensus

Probab=94.79  E-value=0.005  Score=45.61  Aligned_cols=38  Identities=24%  Similarity=0.294  Sum_probs=33.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ..|-|||+|.+.|+|..|....+.+....|-|.++.-+
T Consensus       323 PSGeAFIqm~nae~a~aaaqk~hk~~mk~RYiEvfp~S  360 (508)
T KOG1365|consen  323 PSGEAFIQMRNAERARAAAQKCHKKLMKSRYIEVFPCS  360 (508)
T ss_pred             cChhhhhhhhhhHHHHHHHHHHHHhhcccceEEEeecc
Confidence            57899999999999999999999888889999887654

>KOG4210|consensus

Probab=94.75  E-value=0.019  Score=40.80  Aligned_cols=34  Identities=26%  Similarity=0.428  Sum_probs=30.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||+|.|.+..+++.++.. +...+.++++.+.
T Consensus       226 ~kg~a~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~  259 (285)
T KOG4210|consen  226 SKGFAYVDFSAGNSKKLALND-QTRSIGGRPLRLE  259 (285)
T ss_pred             hhhhhhhhhhhchhHHHHhhc-ccCcccCcccccc
Confidence            789999999999999999998 9999999988643

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=94.64  E-value=0.12  Score=31.36  Aligned_cols=32  Identities=25%  Similarity=0.445  Sum_probs=28.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ...+--|+|+++.+|++||+ .||..+.|..+.
T Consensus        53 ~~NWi~I~Y~~~~~A~rAL~-~NG~i~~g~~mv   84 (100)
T PF05172_consen   53 GGNWIHITYDNPLSAQRALQ-KNGTIFSGSLMV   84 (100)
T ss_dssp             CTTEEEEEESSHHHHHHHHT-TTTEEETTCEEE
T ss_pred             CCCEEEEECCCHHHHHHHHH-hCCeEEcCcEEE
Confidence            56789999999999999999 999999997664

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG4454|consensus

Probab=94.49  E-value=0.022  Score=39.45  Aligned_cols=66  Identities=14%  Similarity=0.244  Sum_probs=54.0

Q ss_pred             eEEEEecCHHHHHHHHhhcCCceecCeEeEEEc----------------------------------------ccCeEEE
Q psy4383           5 YAFIQFSNPHDARSACLGEDGRTVLGQTLGISM----------------------------------------HKGYAFI   44 (89)
Q Consensus         5 f~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~----------------------------------------~rG~afV   44 (89)
                      ||||.|.++....-|+.-|||..+.+..+.+.+                                        .+.++|+
T Consensus        51 Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q~~~r~G~shapld~r~~~ei~~~v~s~a~p~~~~R~~~~~d~rnrn~~~~  130 (267)
T KOG4454|consen   51 FAYVFFPNENSVQLAGQLENGDDLEEDEEQRTLRCGNSHAPLDERVTEEILYEVFSQAGPIEGVRIPTDNDGRNRNFGFV  130 (267)
T ss_pred             eeeeecccccchhhhhhhcccchhccchhhcccccCCCcchhhhhcchhhheeeecccCCCCCccccccccCCccCccch
Confidence            999999999999999999999999999888763                                        5678888


Q ss_pred             EeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          45 QFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        45 ~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .+......-.|+..-++..+.-+++.
T Consensus       131 ~~qr~~~~P~~~~~y~~l~~~~~~~~  156 (267)
T KOG4454|consen  131 TYQRLCAVPFALDLYQGLELFQKKVT  156 (267)
T ss_pred             hhhhhhcCcHHhhhhcccCcCCCCcc
Confidence            88887777778776666666555553

>KOG4660|consensus

Probab=94.22  E-value=0.018  Score=44.02  Aligned_cols=33  Identities=24%  Similarity=0.483  Sum_probs=31.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .+|..||+|-|..+|+.|+++|+++.+.|+.|.
T Consensus       111 ~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k  143 (549)
T KOG4660|consen  111 KRGIVFVEFYDVRDAERALKALNRREIAGKRIK  143 (549)
T ss_pred             cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhc
Confidence            689999999999999999999999999999874

>KOG4211|consensus

Probab=94.18  E-value=0.11  Score=39.53  Aligned_cols=58  Identities=10%  Similarity=0.092  Sum_probs=42.8

Q ss_pred             HHHHHhhcCCceecCeEeEEE--cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          16 ARSACLGEDGRTVLGQTLGIS--MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        16 a~~Ai~~l~g~~l~g~~i~v~--~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++.+.-+.+..|..-.+...  ...|-|||+|.+++++++||+ .|-..+..|-|.|.+.
T Consensus        24 ~~ei~~Ff~~~~I~~~~~~r~~Gr~sGeA~Ve~~seedv~~Alk-kdR~~mg~RYIEVf~~   83 (510)
T KOG4211|consen   24 EKEILDFFSNCGIENLEIPRRNGRPSGEAYVEFTSEEDVEKALK-KDRESMGHRYIEVFTA   83 (510)
T ss_pred             HHHHHHHHhcCceeEEEEeccCCCcCcceEEEeechHHHHHHHH-hhHHHhCCceEEEEcc
Confidence            344444455555554222221  367999999999999999999 8999999999998887

>KOG4454|consensus

Probab=93.98  E-value=0.059  Score=37.41  Aligned_cols=41  Identities=20%  Similarity=0.332  Sum_probs=35.1

Q ss_pred             cCeEeEEEc-------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          29 LGQTLGISM-------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        29 ~g~~i~v~~-------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .|-+++|-+       .+ ||||.|.++.+..-|+.-|||..+.++.|.
T Consensus        33 aGPV~kv~ip~~~d~~~k-Fa~v~f~~E~sv~~a~~L~ng~~l~~~e~q   80 (267)
T KOG4454|consen   33 AGPVYKVGIPSGQDQEQK-FAYVFFPNENSVQLAGQLENGDDLEEDEEQ   80 (267)
T ss_pred             cCceEEEeCCCCccCCCc-eeeeecccccchhhhhhhcccchhccchhh
Confidence            455666665       34 999999999999999999999999999984

>KOG2314|consensus

Probab=93.86  E-value=0.069  Score=41.41  Aligned_cols=35  Identities=26%  Similarity=0.514  Sum_probs=29.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec-CeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~-g~~i~v~   36 (89)
                      .+||.|++|.+.++|+.|++.+||..+. .+...|+
T Consensus       104 tkG~lf~E~~~~~~A~~aVK~l~G~~ldknHtf~v~  139 (698)
T KOG2314|consen  104 TKGYLFVEYASMRDAKKAVKSLNGKRLDKNHTFFVR  139 (698)
T ss_pred             eeeEEEEEecChhhHHHHHHhcccceecccceEEee
Confidence            4799999999999999999999998874 4455554

>KOG1548|consensus

Probab=93.81  E-value=0.065  Score=39.23  Aligned_cols=47  Identities=17%  Similarity=0.126  Sum_probs=42.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVS   84 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~   84 (89)
                      -+|=|.+.|-.+++..-||+-||+..+.|+.|+|-.++|...+.|-+
T Consensus       182 lKGDaLc~y~K~ESVeLA~~ilDe~~~rg~~~rVerAkfq~Kge~~~  228 (382)
T KOG1548|consen  182 LKGDALCCYIKRESVELAIKILDEDELRGKKLRVERAKFQMKGEYDA  228 (382)
T ss_pred             ccCceEEEeecccHHHHHHHHhCcccccCcEEEEehhhhhhccCcCc
Confidence            68999999999999999999999999999999999999977766643

>PF08952 DUF1866: Domain of unknown function (DUF1866) ; InterPro: IPR015047 This domain, found in synaptojanin, has no known function

Probab=93.66  E-value=0.15  Score=33.10  Aligned_cols=31  Identities=32%  Similarity=0.450  Sum_probs=28.6

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      -+|.|.+-+.|.+|+. |+|.+++|+.+.|+.
T Consensus        73 mwVTF~dg~sALaals-~dg~~v~g~~l~i~L  103 (146)
T PF08952_consen   73 MWVTFRDGQSALAALS-LDGIQVNGRTLKIRL  103 (146)
T ss_dssp             EEEEESSCHHHHHHHH-GCCSEETTEEEEEEE
T ss_pred             EEEEECccHHHHHHHc-cCCcEECCEEEEEEe
Confidence            4799999999999998 999999999999985

; PDB: 1UFW_A 2DNR_A.

>KOG0128|consensus

Probab=93.59  E-value=0.03  Score=44.87  Aligned_cols=68  Identities=22%  Similarity=0.213  Sum_probs=51.5

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE--------------------------------cccCeEEEEeCCHH
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS--------------------------------MHKGYAFIQFSNPH   50 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~--------------------------------~~rG~afV~F~~~~   50 (89)
                      ||+||++|..++++..|+...++....-..+.++                                .++|-++|.|.++.
T Consensus       709 rG~~Y~~F~~~~~~~aaV~f~d~~~~gK~~v~i~g~pf~gt~e~~k~l~~~~gn~~~~~~vt~r~gkpkg~a~v~y~~ea  788 (881)
T KOG0128|consen  709 RGKAYVEFLKPEHAGAAVAFRDSCFFGKISVAISGPPFQGTKEELKSLASKTGNVTSLRLVTVRAGKPKGKARVDYNTEA  788 (881)
T ss_pred             ccceeeEeecCCchhhhhhhhhhhhhhhhhhheeCCCCCCchHHHHhhccccCCccccchhhhhccccccceeccCCCcc
Confidence            6999999999999999997444332222222221                                27899999999999


Q ss_pred             HHHHHHHhcCCceecCeEEE
Q psy4383          51 DARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        51 ~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++.++..++++..+.-+.+.
T Consensus       789 ~~s~~~~s~d~~~~rE~~~~  808 (881)
T KOG0128|consen  789 DASRKVASVDVAGKRENNGE  808 (881)
T ss_pred             hhhhhcccchhhhhhhcCcc
Confidence            99999999998888766553

>KOG4307|consensus

Probab=93.49  E-value=0.21  Score=39.78  Aligned_cols=58  Identities=14%  Similarity=0.177  Sum_probs=44.9

Q ss_pred             HHHHHHhhcCCceecCeEeEEE-----cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          15 DARSACLGEDGRTVLGQTLGIS-----MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v~-----~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +.++.+.-.++.++.--.|.++     +..|-+-|.|++.++|..|...|++++|..|+|.+.
T Consensus       880 ~l~dI~~FF~dY~~~p~sI~~r~nd~G~pTGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~  942 (944)
T KOG4307|consen  880 TLEDIVEFFNDYEPDPNSIRIRRNDDGVPTGECMVAFESQEEARRASMDLDGQKIRNRVVSLR  942 (944)
T ss_pred             cHHHHHHHhcccccCCCceeEeecCCCCcccceeEeecCHHHHHhhhhccccCcccceeEEEE
Confidence            3455566566666555455544     367999999999999999999999999999998653

>KOG4205|consensus

Probab=93.48  E-value=0.044  Score=39.50  Aligned_cols=36  Identities=14%  Similarity=0.412  Sum_probs=29.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++||+||+|.+.++...+|. ..-++|+|+.|.....
T Consensus        47 srgFgfv~f~~~~~v~~vl~-~~~h~~dgr~ve~k~a   82 (311)
T KOG4205|consen   47 SRGFGFVTFATPEGVDAVLN-ARTHKLDGRSVEPKRA   82 (311)
T ss_pred             cccccceecCCCcchheeec-ccccccCCccccceec
Confidence            78999999999999988887 6677888888865443

>KOG4660|consensus

Probab=93.01  E-value=0.042  Score=42.11  Aligned_cols=34  Identities=24%  Similarity=0.451  Sum_probs=30.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      ++|.+||+|.|..+|+.|++.|+++++.|+.|+.
T Consensus       111 ~~~~~~v~FyDvR~A~~Alk~l~~~~~~~~~~k~  144 (549)
T KOG4660|consen  111 KRGIVFVEFYDVRDAERALKALNRREIAGKRIKR  144 (549)
T ss_pred             cCceEEEEEeehHhHHHHHHHHHHHHhhhhhhcC
Confidence            5788999999999999999999999999988774

>KOG0153|consensus

Probab=92.86  E-value=0.17  Score=37.04  Aligned_cols=39  Identities=26%  Similarity=0.354  Sum_probs=33.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~~rG   40 (89)
                      .++.|||+|.+.+.|+.|..+. +-..+.|..|+|.|.++
T Consensus       263 ~~~CAFv~ftTR~aAE~Aae~~~n~lvI~G~Rl~i~Wg~~  302 (377)
T KOG0153|consen  263 RKGCAFVTFTTREAAEKAAEKSFNKLVINGFRLKIKWGRP  302 (377)
T ss_pred             ccccceeeehhhHHHHHHHHhhcceeeecceEEEEEeCCC
Confidence            4688999999999999987554 66678999999999887

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=92.67  E-value=0.24  Score=28.02  Aligned_cols=45  Identities=13%  Similarity=0.382  Sum_probs=26.4

Q ss_pred             ecCeEe-EEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          28 VLGQTL-GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        28 l~g~~i-~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +.++.| .+++...|+||+-.. +.|+.++..|++..+.|+++.+..
T Consensus        28 i~~~~IG~I~I~~~~S~vev~~-~~a~~v~~~l~~~~~~gk~v~ve~   73 (74)
T PF03880_consen   28 IPGRDIGRIDIFDNFSFVEVPE-EVAEKVLEALNGKKIKGKKVRVER   73 (74)
T ss_dssp             B-GGGEEEEEE-SS-EEEEE-T-T-HHHHHHHHTT--SSS----EEE
T ss_pred             CCHHhEEEEEEeeeEEEEEECH-HHHHHHHHHhcCCCCCCeeEEEEE
Confidence            344444 577788999999876 478999999999999999997654

; PDB: 2G0C_A 3MOJ_B.

>KOG0116|consensus

Probab=92.03  E-value=0.69  Score=34.72  Aligned_cols=57  Identities=16%  Similarity=0.138  Sum_probs=39.8

Q ss_pred             HHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          17 RSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        17 ~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .+..++-.|-+..++.....   ...+||||+|.+.++++.||.+- -..|+++++.+..-
T Consensus       305 l~~~Fk~FG~Ik~~~I~vr~~~~~~~~fgFV~f~~~~~~~~~i~As-p~~ig~~kl~Veek  364 (419)
T KOG0116|consen  305 LEEVFKQFGPIKEGGIQVRSPGGKNPCFGFVEFENAAAVQNAIEAS-PLEIGGRKLNVEEK  364 (419)
T ss_pred             HHHHHhhcccccccceEEeccCCCcCceEEEEEeecchhhhhhhcC-ccccCCeeEEEEec
Confidence            44444556655555443322   12289999999999999999954 88889999976554

>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=91.51  E-value=0.25  Score=30.09  Aligned_cols=41  Identities=15%  Similarity=0.324  Sum_probs=24.7

Q ss_pred             eEeEEEcccC--eEEEEeCCHHHHHHHHHhcCCc-----eecCeEEEE
Q psy4383          31 QTLGISMHKG--YAFIQFSNPHDARSACLGEDGR-----TVLGQTLVS   71 (89)
Q Consensus        31 ~~i~v~~~rG--~afV~F~~~~~a~~Ai~~l~g~-----~l~gr~i~~   71 (89)
                      .+-.|.+.+|  -|+|+|.+.++|+.|+..+.-.     .+.+..+++
T Consensus        27 ~V~yVD~~~G~~~g~VRf~~~~~A~~a~~~~~~~~~~~~~i~~~~~~~   74 (105)
T PF08777_consen   27 EVAYVDFSRGDTEGYVRFKTPEAAQKALEKLKEANDGKLKIKGKEVTL   74 (105)
T ss_dssp             -EEEEE--TT-SEEEEEESS---HHHHHHHHHHTTTS-B-TTSSSEEE
T ss_pred             CcceEEecCCCCEEEEEECCcchHHHHHHHHHhccCCceEEcCceEEE
Confidence            5556777776  7999999999999999876554     445544443

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

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

Probab=91.30  E-value=0.44  Score=25.39  Aligned_cols=28  Identities=18%  Similarity=0.498  Sum_probs=23.1

Q ss_pred             cCeEeEEEcc--cCeEEEEeCCHHHHHHHH
Q psy4383          29 LGQTLGISMH--KGYAFIQFSNPHDARSAC   56 (89)
Q Consensus        29 ~g~~i~v~~~--rG~afV~F~~~~~a~~Ai   56 (89)
                      .|+....+..  ..+.+|.|.++.+|++||
T Consensus        24 fGeI~~~~~~~~~~~~~l~y~~~~~ae~Al   53 (53)
T PF14605_consen   24 FGEIVDIYVPESTNWMYLKYKSRKDAEKAL   53 (53)
T ss_pred             cCCEEEEEcCCCCcEEEEEECCHHHHHhhC
Confidence            5666666665  789999999999999995

>KOG2193|consensus

Probab=90.66  E-value=0.033  Score=41.89  Aligned_cols=71  Identities=20%  Similarity=0.293  Sum_probs=55.5

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCce-ecCeEeEEEc------------------------------------------
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRT-VLGQTLGISM------------------------------------------   37 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~-l~g~~i~v~~------------------------------------------   37 (89)
                      ++.||+||.+.+..-|..|+..++|+. +.|+++.+..                                          
T Consensus        35 ~k~gyafvd~pdq~wa~kaie~~sgk~elqGkr~e~~~sv~kkqrsrk~Qirnippql~wevld~Ll~qyg~ve~~eqvn  114 (584)
T KOG2193|consen   35 VKSGYAFVDCPDQQWANKAIETLSGKVELQGKRQEVEHSVPKKQRSRKIQIRNIPPQLQWEVLDSLLAQYGTVENCEQVN  114 (584)
T ss_pred             eecceeeccCCchhhhhhhHHhhchhhhhcCceeeccchhhHHHHhhhhhHhcCCHHHHHHHHHHHHhccCCHhHhhhhc
Confidence            356999999999999999999999965 8999887751                                          


Q ss_pred             ---ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 ---HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ---~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                         ..-..=|+|.+.+.+..||..++|..+....+.+
T Consensus       115 t~~etavvnvty~~~~~~~~ai~kl~g~Q~en~~~k~  151 (584)
T KOG2193|consen  115 TDSETAVVNVTYSAQQQHRQAIHKLNGPQLENQHLKV  151 (584)
T ss_pred             cchHHHHHHHHHHHHHHHHHHHHhhcchHhhhhhhhc
Confidence               0111224567788899999999999999887754

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

Probab=90.48  E-value=0.7  Score=25.98  Aligned_cols=32  Identities=22%  Similarity=0.426  Sum_probs=26.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ..| =||.|.|.+||+++....||+.+-+-.+.
T Consensus        33 ~tG-fYIvF~~~~Ea~rC~~~~~~~~~f~y~m~   64 (66)
T PF11767_consen   33 RTG-FYIVFNDSKEAERCFRAEDGTLFFTYRMQ   64 (66)
T ss_pred             CCE-EEEEECChHHHHHHHHhcCCCEEEEEEEE
Confidence            345 58999999999999999999988876653

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

>KOG0533|consensus

Probab=89.37  E-value=0.53  Score=32.89  Aligned_cols=36  Identities=25%  Similarity=0.343  Sum_probs=32.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +.|-|=|.|...+||..|+..++|..++|+++.+.+
T Consensus       123 s~Gta~v~~~r~~DA~~avk~~~gv~ldG~~mk~~~  158 (243)
T KOG0533|consen  123 SLGTADVSFNRRDDAERAVKKYNGVALDGRPMKIEI  158 (243)
T ss_pred             CCccceeeecchHhHHHHHHHhcCcccCCceeeeEE
Confidence            457889999999999999999999999999988764

>COG5175 MOT2 Transcriptional repressor [Transcription]

Probab=89.30  E-value=0.5  Score=34.90  Aligned_cols=31  Identities=26%  Similarity=0.409  Sum_probs=29.4

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      .||.|...+||.++|.+.+|..++||.|+..
T Consensus       168 vYITy~~kedAarcIa~vDgs~~DGr~lkat  198 (480)
T COG5175         168 VYITYSTKEDAARCIAEVDGSLLDGRVLKAT  198 (480)
T ss_pred             EEEEecchHHHHHHHHHhccccccCceEeee
Confidence            3999999999999999999999999999986

>KOG1996|consensus

Probab=89.01  E-value=0.57  Score=33.94  Aligned_cols=30  Identities=23%  Similarity=0.401  Sum_probs=27.7

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      -||+|...+.|..|+-.|||+.+.|+.+.-
T Consensus       332 iFveF~r~e~aiKA~VdlnGRyFGGr~v~A  361 (378)
T KOG1996|consen  332 IFVEFERVESAIKAVVDLNGRYFGGRVVSA  361 (378)
T ss_pred             eeeeeccHHHHHHHHHhcCCceecceeeeh
Confidence            499999999999999999999999998764

>PF05172 Nup35_RRM: Nup53/35/40-type RNA recognition motif; InterPro: IPR007846 The MPPN (Mitotic PhosphoProtein N end) family is uncharacterised however it probably plays a role in the cell cycle because the family includes mitotic phosphoproteins O13026 from SWISSPROT []

Probab=88.88  E-value=0.9  Score=27.54  Aligned_cols=28  Identities=25%  Similarity=0.405  Sum_probs=24.6

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeE
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLG   34 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~   34 (89)
                      --|.|.++.+|++|+. .||+++.|..+.
T Consensus        57 i~I~Y~~~~~A~rAL~-~NG~i~~g~~mv   84 (100)
T PF05172_consen   57 IHITYDNPLSAQRALQ-KNGTIFSGSLMV   84 (100)
T ss_dssp             EEEEESSHHHHHHHHT-TTTEEETTCEEE
T ss_pred             EEEECCCHHHHHHHHH-hCCeEEcCcEEE
Confidence            4689999999999998 999999987654

This family also includes Q05166 from SWISSPROT a suppressor of thermosensitive mutations in the DNA polymerase delta gene, Pol III []. The conserved central region appears to be distantly related to the RNA-binding region RNP-1 (RNA recognition motif, IPR000504 from INTERPRO), suggesting an RNA binding function for this protein.; PDB: 1WWH_C 3P3D_A.

>KOG2202|consensus

Probab=88.35  E-value=0.29  Score=34.46  Aligned_cols=35  Identities=20%  Similarity=0.348  Sum_probs=31.2

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .|=.||.|..+++|+.|+..||+.-+.|++|...+
T Consensus       110 ~GNVYV~f~~Ee~ae~a~~~lnnRw~~G~pi~ae~  144 (260)
T KOG2202|consen  110 VGNVYVKFRSEEDAEAALEDLNNRWYNGRPIHAEL  144 (260)
T ss_pred             hhhhhhhcccHHHHHHHHHHHcCccccCCcceeee
Confidence            35579999999999999999999999999997754

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

Probab=87.57  E-value=1.4  Score=24.73  Aligned_cols=29  Identities=21%  Similarity=0.447  Sum_probs=25.7

Q ss_pred             EEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           7 FIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         7 fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      ||.|.+.++|++.....+|+.+....+.+
T Consensus        37 YIvF~~~~Ea~rC~~~~~~~~~f~y~m~M   65 (66)
T PF11767_consen   37 YIVFNDSKEAERCFRAEDGTLFFTYRMQM   65 (66)
T ss_pred             EEEECChHHHHHHHHhcCCCEEEEEEEEe
Confidence            89999999999999999999988776653

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

>KOG1995|consensus

Probab=87.13  E-value=0.37  Score=35.30  Aligned_cols=43  Identities=23%  Similarity=0.287  Sum_probs=37.8

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecc
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNG   79 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~   79 (89)
                      -.||-|-|.|+|...|+.||.-.+++.+.+.+|.+..+...+.
T Consensus       114 ~~KGeatvS~~D~~~akaai~~~agkdf~gn~ikvs~a~~r~~  156 (351)
T KOG1995|consen  114 APKGEATVSYEDPPAAKAAIEWFAGKDFCGNTIKVSLAERRTG  156 (351)
T ss_pred             CcCCceeeeecChhhhhhhhhhhccccccCCCchhhhhhhccC
Confidence            3899999999999999999999999999999998777765443

>PF03880 DbpA: DbpA RNA binding domain ; InterPro: IPR005580 This RNA binding domain is found at the C terminus of a number of DEAD helicase proteins []

Probab=86.73  E-value=0.84  Score=25.75  Aligned_cols=33  Identities=12%  Similarity=0.387  Sum_probs=20.5

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      .-|+||+-... .++.++..|++..+.|+.++|+
T Consensus        40 ~~~S~vev~~~-~a~~v~~~l~~~~~~gk~v~ve   72 (74)
T PF03880_consen   40 DNFSFVEVPEE-VAEKVLEALNGKKIKGKKVRVE   72 (74)
T ss_dssp             SS-EEEEE-TT--HHHHHHHHTT--SSS----EE
T ss_pred             eeEEEEEECHH-HHHHHHHHhcCCCCCCeeEEEE
Confidence            45889998774 7899999999999999999886

; PDB: 2G0C_A 3MOJ_B.

>KOG0151|consensus

Probab=86.45  E-value=0.75  Score=36.82  Aligned_cols=37  Identities=24%  Similarity=0.335  Sum_probs=33.0

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +-.|||.|-+..|++.|+..|+|..++.+.+++.|.+
T Consensus       219 r~cgfvafmnR~D~era~k~lqg~iv~~~e~K~gWgk  255 (877)
T KOG0151|consen  219 RNCGFVAFMNRADAERALKELQGIIVMEYEMKLGWGK  255 (877)
T ss_pred             cccceeeehhhhhHHHHHHHhcceeeeeeeeeecccc
Confidence            3568999999999999999999999999999887643

>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised

Probab=85.51  E-value=4.2  Score=22.73  Aligned_cols=54  Identities=19%  Similarity=0.164  Sum_probs=33.0

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHH
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACL   57 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~   57 (89)
                      .+++|.|.+..+|..|-+.+....+..+.+-+  .++.|+|+..--+.++.+.++.
T Consensus         2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~liP~P~~i~~~CG~al~~~~~d~~~i~~   57 (73)
T PF11823_consen    2 KYYLITFPSTHDAMKAEKLLKKNGIPVRLIPTPREISAGCGLALRFEPEDLEKIKE   57 (73)
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCcEEEeCCChhccCCCCEEEEEChhhHHHHHH
Confidence            47899999999999998877766666665432  2344444443333334444333

This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.

>KOG1365|consensus

Probab=85.24  E-value=2.3  Score=31.96  Aligned_cols=31  Identities=23%  Similarity=0.293  Sum_probs=24.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                      ..|-|||.|..+++|+.||. -|...++-|-|
T Consensus       205 pTGdAFvlfa~ee~aq~aL~-khrq~iGqRYI  235 (508)
T KOG1365|consen  205 PTGDAFVLFACEEDAQFALR-KHRQNIGQRYI  235 (508)
T ss_pred             cccceEEEecCHHHHHHHHH-HHHHHHhHHHH
Confidence            56899999999999999998 45555555544

>PF11823 DUF3343: Protein of unknown function (DUF3343); InterPro: IPR021778 This family of proteins are functionally uncharacterised

Probab=84.77  E-value=1.6  Score=24.49  Aligned_cols=30  Identities=23%  Similarity=0.220  Sum_probs=25.9

Q ss_pred             CeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          40 GYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        40 G~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                      .+.+|.|.+..+|.+|-+.|....+..+.+
T Consensus         2 ~~~~i~F~st~~a~~~ek~lk~~gi~~~li   31 (73)
T PF11823_consen    2 KYYLITFPSTHDAMKAEKLLKKNGIPVRLI   31 (73)
T ss_pred             ceEEEEECCHHHHHHHHHHHHHCCCcEEEe
Confidence            468999999999999999998888877655

This protein is found in bacteria and archaea. Proteins in this family are typically between 78 to 102 amino acids in length.

>PF04847 Calcipressin: Calcipressin; InterPro: IPR006931 Calcipressin 1 negatively regulates calcineurin (IPR015757 from INTERPRO) by direct binding and is essential for the survival of T helper type 1 cells

Probab=81.88  E-value=2.8  Score=28.06  Aligned_cols=36  Identities=25%  Similarity=0.220  Sum_probs=27.7

Q ss_pred             CeEEEEeCCHHHHHHHHHhcC--CceecCeEEEEEeee
Q psy4383          40 GYAFIQFSNPHDARSACLGED--GRTVLGQTLVSYKLQ   75 (89)
Q Consensus        40 G~afV~F~~~~~a~~Ai~~l~--g~~l~gr~i~~~~~~   75 (89)
                      +=..|.|.+.++|..|...|+  +..+.|..+++...+
T Consensus        32 rRi~v~f~~~~~A~~~r~~l~~~~~~~~g~~l~~yf~~   69 (184)
T PF04847_consen   32 RRIRVVFESPESAQRARQLLHWDGTSFNGKRLRVYFGQ   69 (184)
T ss_dssp             TEEEEE-SSTTHHHHHHHTST--TSEETTEE-EEE---
T ss_pred             CEEEEEeCCHHHHHHHHHHhcccccccCCCceEEEEcc
Confidence            337889999999999999999  999999998876553

Calcipressin 1 is a phosphoprotein that increases its capacity to inhibit calcineurin when phosphorylated at the FLISPP motif, and this phosphorylation also controls the half-life of calcipressin 1 by accelerating its degradation []. Calcineurin is a calcium-responsive enzyme that dephosphorylates the nuclear factor of activated T cells (NFAT). In so doing it promotes its nuclear translocation and uniquely links calcium signalling to transcriptional regulation []. Calcipressins are a family of proteins derived from three genes. Calcipressin 1 is also known as modulatory calcineurin-interacting protein 1 (MCIP1), Adapt78 and Down syndrome critical region 1 (DSCR1). Calcipressin 2 is variously known as MCIP2, ZAKI-4 and DSCR1-like 1. Calcipressin 3 is also called MCIP3 and DSCR1-like 2 []. DSCR1 (Adapt78) is associated with successful adaptation to oxidative stress and calcium stress as well as with diseases like Alzheimer's and Down syndrome. The DSCR1 (Adapt78) isoform 1 protein, calcipressin 1, inhibits calcineurin and protects against acute calcium-mediated stress damage, including transient oxidative stress []. Calcipressin 1 is encoded by DSCR1, a gene on human chromosome 21. Calcipressin 1 isoform 1 has an N-terminal coding region, which generates a new polypeptide of 252 amino acids. Endogenous calcipressin 1 exists as a complex together with the calcineurin A and B heterodimer []. ; GO: 0019722 calcium-mediated signaling; PDB: 1WEY_A.

>KOG4307|consensus

Probab=81.25  E-value=2.5  Score=34.01  Aligned_cols=35  Identities=20%  Similarity=0.501  Sum_probs=31.7

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .|=|-|.|++.++|..|...++++.|..+++.+.+
T Consensus       909 TGe~mvAfes~~eAr~A~~dl~~~~i~nr~V~l~i  943 (944)
T KOG4307|consen  909 TGECMVAFESQEEARRASMDLDGQKIRNRVVSLRI  943 (944)
T ss_pred             ccceeEeecCHHHHHhhhhccccCcccceeEEEEe
Confidence            46789999999999999999999999999998753

>KOG2068|consensus

Probab=80.58  E-value=0.78  Score=33.38  Aligned_cols=28  Identities=25%  Similarity=0.351  Sum_probs=26.8

Q ss_pred             EEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          42 AFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        42 afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                      ++|+|+..++|..||...+|..++|+.+
T Consensus       128 ~yITy~~~eda~rci~~v~g~~~dg~~l  155 (327)
T KOG2068|consen  128 VYITYEEEEDADRCIDDVDGFVDDGRAL  155 (327)
T ss_pred             ccccccchHhhhhHHHHhhhHHhhhhhh
Confidence            8999999999999999999999999985

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	89
1wf1_A	110	Solution Structure Of Rrm Domain In Rna-Binding Pro		9e-09
1wf2_A	98	Solution Structure Of Rrm Domain In Hnrpc Protein L		4e-08

>pdb|1WF1|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein Np_057951 Length = 110

Iteration: 1
 Score = 55.5 bits (132), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 24/40 (60%), Positives = 31/40 (77%)
Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct: 53 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 92

>pdb|1WF2|A Chain A, Solution Structure Of Rrm Domain In Hnrpc Protein Length = 98

Iteration: 1
 Score = 53.1 bits (126), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 21/40 (52%), Positives = 30/40 (75%)
Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	89
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	3e-11
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	1e-09
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	2e-10
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	5e-09
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	3e-10
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	7e-09
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	3e-08
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	5e-05
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	6e-08
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	3e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	1e-07
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-04
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	2e-04
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	9e-07
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	1e-06
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	1e-06
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	1e-05
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	1e-06
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	9e-04
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	1e-06
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	3e-06
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	3e-06
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	5e-05
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	4e-06
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	9e-06
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	5e-06
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	6e-05
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	5e-06
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	3e-05
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	6e-06
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	7e-06
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	8e-06
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	2e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	1e-05
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	2e-04
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	1e-05
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	9e-04
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	1e-05
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	1e-05
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	1e-05
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	1e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	2e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	6e-05
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	1e-04
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-05
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	2e-05
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	3e-05
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	4e-05
1x5p_A	97	Negative elongation factor E; structure genomics,	4e-05
1x5p_A	97	Negative elongation factor E; structure genomics,	6e-05
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	4e-05
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	5e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	5e-05
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	5e-05
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	5e-05
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	5e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	6e-05
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	9e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	6e-05
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	6e-05
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	8e-05
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	8e-05
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	1e-04
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	1e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	1e-04
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	3e-04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	1e-04
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	1e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	1e-04
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	3e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	1e-04
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	3e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-04
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	2e-04
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	2e-04
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-04
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	2e-04
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	2e-04
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	2e-04
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	2e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-04
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	2e-04
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	3e-04
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	3e-04
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	3e-04
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	8e-04
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	3e-04
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	3e-04
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	3e-04
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	3e-04
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	6e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	3e-04
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	5e-04
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	3e-04
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	4e-04
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	9e-04
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-04
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	4e-04
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	4e-04
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	4e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	5e-04
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	7e-04
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	5e-04
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	5e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	6e-04
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	6e-04
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	6e-04
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	8e-04

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 53.9 bits (130), Expect = 3e-11
 Identities = 24/40 (60%), Positives = 31/40 (77%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+  G S+HKGYAF+Q+SN   AR+A LGE+GR + GQTL
Sbjct: 53 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTL 92

>1wf1_A RNA-binding protein RALY; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wf2_A Length = 110

 Score = 49.7 bits (119), Expect = 1e-09
 Identities = 23/40 (57%), Positives = 30/40 (75%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          +HKGYAF+Q+SN   AR+A LGE+GR + GQTL I+M   
Sbjct: 60 VHKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAGE 99

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 51.8 bits (125), Expect = 2e-10
 Identities = 13/40 (32%), Positives = 18/40 (45%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G  + I++   + FIQF NP   R A   E      G+ L
Sbjct: 36 GHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKL 75

>2kvi_A Nuclear polyadenylated RNA-binding protein 3; RNA-binding motif, RRM, transcription termination, NUC phosphoprotein; NMR {Saccharomyces cerevisiae} Length = 96

 Score = 48.0 bits (115), Expect = 5e-09
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          +   + FIQF NP   R A   E      G+ L + +   
Sbjct: 43 IKNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSSS 82

>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 = 51.2 bits (123), Expect = 3e-10
 Identities = 13/40 (32%), Positives = 18/40 (45%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G  + I++   + FIQF NP   R A   E      G+ L
Sbjct: 48 GHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKL 87

>2xnq_A Nuclear polyadenylated RNA-binding protein 3; transcription termination, RNA processi recognition, RRM; HET: CAF; 1.30A {Saccharomyces cerevisiae} PDB: 2xnr_A 2l41_A Length = 97

 Score = 47.3 bits (113), Expect = 7e-09
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          +   + FIQF NP   R A   E      G+ L + +   
Sbjct: 55 IKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSS 94

>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 = 47.2 bits (113), Expect = 3e-08
 Identities = 19/118 (16%), Positives = 36/118 (30%), Gaps = 51/118 (43%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL--------------------GIS----- 36
            K +AF++F +  +  +  +  DG    GQ+L                    G+      
Sbjct: 50  DKNFAFLEFRSVDET-TQAMAFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLND 108

Query: 37  -------------------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
                                    + KGYAF ++ + +    A  G +G  +  + L
Sbjct: 109 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL 166

>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 = 38.4 bits (90), Expect = 5e-05
 Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          I+  K +AF++F +  +  +  +  DG    GQ+L
Sbjct: 47 INQDKNFAFLEFRSVDET-TQAMAFDGIIFQGQSL 80

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 46.9 bits (112), Expect = 6e-08
 Identities = 17/112 (15%), Positives = 34/112 (30%), Gaps = 44/112 (39%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS------------------------- 36
           +  +A I+F+    A +A + +  + V    + +S                         
Sbjct: 80  NFRFARIEFARYDGALAA-ITKTHKVVGQNEIIVSHLTECTLWMTNFPPSYTQRNIRDLL 138

Query: 37  ------------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
                               + +A+I  ++  DAR      +G  + G TLV
Sbjct: 139 QDINVVALSIRLPSLRFNTSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLV 190

>2ghp_A U4/U6 snRNA-associated splicing factor PRP24; RNA chaperone, RNA binding domain, RNA recognition motif, SP factor, snRNP, spliceosome; 2.70A {Saccharomyces cerevisiae} SCOP: d.58.7.1 d.58.7.1 d.58.7.1 PDB: 2go9_A 2kh9_A Length = 292

 Score = 36.5 bits (85), Expect = 3e-04
 Identities = 9/33 (27%), Positives = 16/33 (48%)

Query: 1   MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
             + +A+I  ++  DAR      +G  + G TL
Sbjct: 157 TSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTL 189

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 46.5 bits (111), Expect = 1e-07
 Identities = 17/112 (15%), Positives = 29/112 (25%), Gaps = 44/112 (39%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM------------------------ 37
           +KG AF+   N   A +A        +  + L + +                        
Sbjct: 56  YKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCVANLPPSLTQQQFEEL 115

Query: 38  --------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
                                KGY F ++     A  A     G+ +  +TL
Sbjct: 116 VRPFGSLERCFLVYSERTGQSKGYGFAEYMKKDSAARAKSDLLGKPLGPRTL 167

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 37.3 bits (87), Expect = 2e-04
 Identities = 10/35 (28%), Positives = 17/35 (48%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
            KG+A +++     A  A    DG ++ G  L +S
Sbjct: 225 LKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVS 259

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 1/36 (2%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
            KG+A +++     A  A    DG ++ G  L VS+
Sbjct: 225 LKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSF 260

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3h2u_B 3h2v_E Length = 284

 Score = 36.9 bits (86), Expect = 2e-04
 Identities = 9/45 (20%), Positives = 16/45 (35%), Gaps = 1/45 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSYKLQYYN 78
          +  +KG AF+   N   A +A        +  + L V  +     
Sbjct: 53 VDKYKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDAL 97

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

 Score = 42.3 bits (100), Expect = 9e-07
 Identities = 10/38 (26%), Positives = 16/38 (42%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
            G+AF++F     A  A     G++   Q L +   K 
Sbjct: 65  NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSKL 102

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

 Score = 41.9 bits (99), Expect = 1e-06
 Identities = 10/41 (24%), Positives = 17/41 (41%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          G    + +  G+AF++F     A  A     G++   Q L 
Sbjct: 56 GPMKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLE 96

>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 = 41.4 bits (98), Expect = 1e-06
 Identities = 8/41 (19%), Positives = 14/41 (34%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          G+ L   + K Y F+   +   A  A        + G  + 
Sbjct: 33 GKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNIN 73

>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 = 38.7 bits (91), Expect = 1e-05
 Identities = 7/40 (17%), Positives = 13/40 (32%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          + K Y F+   +   A  A        + G  + +   K 
Sbjct: 40 IIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASKN 79

>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 = 43.0 bits (102), Expect = 1e-06
 Identities = 16/115 (13%), Positives = 32/115 (27%), Gaps = 48/115 (41%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH----------------------- 38
           ++ + ++ F +  D   A L   G  V G  + +                          
Sbjct: 53  NRKFGYVDFESAEDLEKA-LELTGLKVFGNEIKLEKPKGRDSKKVRAARTLLAKNLSFNI 111

Query: 39  ------------------------KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
                                   KG A+I+F +  DA      + G  + G+++
Sbjct: 112 TEDELKEVFEDALEIRLVSQDGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSV 166

>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 = 34.9 bits (81), Expect = 9e-04
 Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 2/40 (5%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTL--GISMHKG 40
           KG A+I+F +  DA      + G  + G+++    +  KG
Sbjct: 136 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTGEKG 175

>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 = 42.6 bits (100), Expect = 1e-06
 Identities = 14/39 (35%), Positives = 22/39 (56%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
             G+AF++F +P DA  A    DGRT+ G  + + +  G
Sbjct: 109 PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSNG 147

>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 = 41.8 bits (98), Expect = 3e-06
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             G+AF++F +P DA  A    DGRT+ G  +
Sbjct: 109 PPGFAFVEFEDPRDAADAVRELDGRTLCGCRV 140

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 40.8 bits (96), Expect = 3e-06
 Identities = 12/54 (22%), Positives = 21/54 (38%), Gaps = 11/54 (20%)

Query: 17 RSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          R   +G    T           +G A++ + +  DA++A     G  V  + LV
Sbjct: 36 RQIRVGNTPET-----------RGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLV 78

>3lqv_A PRE-mRNA branch site protein P14; cysless mutant, PRE-mRNA splicing, adenine, mRNA processing, nucleus, phosphoprotein, RNA-binding; HET: ADE; 2.38A {Homo sapiens} PDB: 2f9d_A 2f9j_A 2fho_B Length = 115

 Score = 37.7 bits (88), Expect = 5e-05
 Identities = 8/38 (21%), Positives = 18/38 (47%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          +G A++ + +  DA++A     G  V  + L +  +  
Sbjct: 47 RGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYYNA 84

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

 Score = 40.5 bits (95), Expect = 4e-06
 Identities = 7/36 (19%), Positives = 15/36 (41%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
          H G A + F++   A+         +V+G  +   +
Sbjct: 47 HLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQL 82

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

 Score = 39.7 bits (93), Expect = 9e-06
 Identities = 7/32 (21%), Positives = 14/32 (43%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          H G A + F++   A+         +V+G  +
Sbjct: 47 HLGLARVLFTSTRGAKETVKNLHLTSVMGNII 78

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 41.4 bits (98), Expect = 5e-06
 Identities = 18/119 (15%), Positives = 34/119 (28%), Gaps = 54/119 (45%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL---------------------------- 33
             GYAF+ F++  D++ A    +G TV  + L                            
Sbjct: 44  SYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITD 103

Query: 34  ------------------------GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQT 68
                                   G    +G AF++++   +A+ A    +     G +
Sbjct: 104 DQLDTIFGKYGSIVQKNILRDKLTGRP--RGVAFVRYNKREEAQEAISALNNVIPEGGS 160

>1b7f_A Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP*GP*UP*UP*UP*UP*UP*UP*UP*U)-3; splicing regulation, RNP domain, RNA complex; 2.60A {Drosophila melanogaster} SCOP: d.58.7.1 d.58.7.1 PDB: 3sxl_A* 1sxl_A 2sxl_A Length = 168

 Score = 38.3 bits (90), Expect = 6e-05
 Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 1/36 (2%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
            GYAF+ F++  D++ A    +G TV  + L VSY
Sbjct: 44 SYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSY 79

>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 = 39.9 bits (94), Expect = 5e-06
 Identities = 11/41 (26%), Positives = 21/41 (51%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          G+ +   + K YAF+      DA++A    +G+ V G+ + 
Sbjct: 34 GRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRIN 74

>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 = 38.0 bits (89), Expect = 3e-05
 Identities = 10/40 (25%), Positives = 20/40 (50%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          + K YAF+      DA++A    +G+ V G+ + + +   
Sbjct: 41 VVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELSTK 80

>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 = 40.0 bits (94), Expect = 6e-06
 Identities = 11/35 (31%), Positives = 18/35 (51%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          +   + YAF+ FSN  DA  A    +G+ + G  +
Sbjct: 47 VKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPI 81

>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 = 39.6 bits (93), Expect = 7e-06
 Identities = 11/36 (30%), Positives = 19/36 (52%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
            + YAF+ FSN  DA  A    +G+ + G  + ++
Sbjct: 49 KIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVT 84

>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 = 39.5 bits (93), Expect = 8e-06
 Identities = 11/40 (27%), Positives = 16/40 (40%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G  +   + K YAF+      DA  A  G D     G+ +
Sbjct: 35 GPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRM 74

>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 = 38.4 bits (90), Expect = 2e-05
 Identities = 10/40 (25%), Positives = 16/40 (40%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
          + K YAF+      DA  A  G D     G+ + + +   
Sbjct: 42 IVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLSTS 81

>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 = 40.2 bits (95), Expect = 1e-05
 Identities = 21/120 (17%), Positives = 34/120 (28%), Gaps = 54/120 (45%)

Query: 1   MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL--------------------------- 33
              GY F+ + +P DA  A    +G  +  +T+                           
Sbjct: 42  QSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMT 101

Query: 34  -------------------------GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQT 68
                                    G+S  +G  FI+F    +A  A  G +G+   G T
Sbjct: 102 QKELEQLFSQYGRIITSRILVDQVTGVS--RGVGFIRFDKRIEAEEAIKGLNGQKPSGAT 159

>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 = 36.4 bits (85), Expect = 2e-04
 Identities = 12/37 (32%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
             GY F+ + +P DA  A    +G  +  +T+ VSY
Sbjct: 42 QSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSY 78

>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 = 40.4 bits (95), Expect = 1e-05
 Identities = 17/109 (15%), Positives = 26/109 (23%), Gaps = 43/109 (39%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS-------------------------- 36
           +G+ FI+  +   A  A    DG  +  + L I                           
Sbjct: 58  RGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATHGAALTVKNLSPVVSNELLEQAF 117

Query: 37  -----------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQT 68
                               G  F++F+    AR A         L  T
Sbjct: 118 SQFGPVEKAVVVVDDRGRATGKGFVEFAAKPPARKALERCGDGAFLLTT 166

>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 = 35.4 bits (82), Expect = 9e-04
 Identities = 8/31 (25%), Positives = 14/31 (45%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          +G+ FI+  +   A  A    DG  +  + L
Sbjct: 58 RGFGFIRLESRTLAEIAKAELDGTILKSRPL 88

>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 = 39.2 bits (92), Expect = 1e-05
 Identities = 12/38 (31%), Positives = 18/38 (47%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
            +AF++F +P DA  A  G DG    G  L +   + 
Sbjct: 61 PPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPRS 98

>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 = 39.2 bits (92), Expect = 1e-05
 Identities = 12/31 (38%), Positives = 16/31 (51%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
            +AF++F +P DA  A  G DG    G  L
Sbjct: 61 PPFAFVEFEDPRDAEDAVYGRDGYDYDGYRL 91

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

 Score = 38.8 bits (91), Expect = 1e-05
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           G+AF++F +P DA  A  G DG+ + G  +
Sbjct: 37 PGFAFVEFEDPRDAEDAVRGLDGKVICGSRV 67

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

 Score = 38.8 bits (91), Expect = 1e-05
 Identities = 12/31 (38%), Positives = 19/31 (61%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           G+AF++F +P DA  A  G DG+ + G  +
Sbjct: 37 PGFAFVEFEDPRDAEDAVRGLDGKVICGSRV 67

>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 = 39.6 bits (93), Expect = 2e-05
 Identities = 9/33 (27%), Positives = 17/33 (51%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
            KGYAF ++ + +    A  G +G  +  + L+
Sbjct: 155 SKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLL 187

>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 = 39.6 bits (93), Expect = 2e-05
 Identities = 9/32 (28%), Positives = 16/32 (50%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
            KGYAF ++ + +    A  G +G  +  + L
Sbjct: 155 SKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL 186

>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 = 38.5 bits (90), Expect = 6e-05
 Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          I+  K +AF++F +  +  +  +  DG    GQ+L
Sbjct: 47 INQDKNFAFLEFRSVDET-TQAMAFDGIIFQGQSL 80

>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 = 37.7 bits (88), Expect = 1e-04
 Identities = 11/40 (27%), Positives = 19/40 (47%), Gaps = 1/40 (2%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY 41
           K +AF++F +  +  +  +  DG    GQ+L I     Y
Sbjct: 50 DKNFAFLEFRSVDET-TQAMAFDGIIFQGQSLKIRRPHDY 88

>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 = 39.4 bits (92), Expect = 2e-05
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
            KGYA +++     A +A    +G  ++GQT+
Sbjct: 113 SKGYALVEYETHKQALAAKEALNGAEIMGQTI 144

>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 = 39.4 bits (92), Expect = 2e-05
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
            KGYA +++     A +A    +G  ++GQT+
Sbjct: 113 SKGYALVEYETHKQALAAKEALNGAEIMGQTI 144

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 38.0 bits (89), Expect = 3e-05
 Identities = 9/38 (23%), Positives = 14/38 (36%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK 39
           +G AF+ F     A +A     G     + + I   K
Sbjct: 50 MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK 87

>1nu4_A U1A RNA binding domain; RNA recognition motif, U1 small nuclear ribonucleoprotein, R binding domain, RNA binding protein; HET: MLA; 1.80A {Homo sapiens} SCOP: d.58.7.1 PDB: 1drz_A* 1urn_A 3hhn_B* 3egz_A* 1zzn_A* 1u6b_A* 3cun_A* 3cul_A* 3g8s_A* 3g8t_A* 3g96_A* 3g9c_A* 3irw_P* 3mum_P* 3mur_P* 3mut_P* 3muv_P* 3mxh_P* 3p49_B 3r1h_A* ... Length = 97

 Score = 37.6 bits (88), Expect = 4e-05
 Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 1/36 (2%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
           +G AF+ F     A +A     G     + + + Y
Sbjct: 50 MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQY 85

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 37.7 bits (88), Expect = 4e-05
 Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 1/40 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSYK 73
          +   +  AF+ +     A  A    +G  V    L V+  
Sbjct: 45 MDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIA 84

>1x5p_A Negative elongation factor E; structure genomics, RRM domain, PARP14, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1 Length = 97

 Score = 37.3 bits (87), Expect = 6e-05
 Identities = 7/32 (21%), Positives = 11/32 (34%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           +  AF+ +     A  A    +G  V    L
Sbjct: 48 PRNCAFVTYEKMESADQAVAELNGTQVESVQL 79

>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 = 37.7 bits (88), Expect = 4e-05
 Identities = 11/35 (31%), Positives = 19/35 (54%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          +   KGY+F++FS    A  A +  +G T+ G  +
Sbjct: 57 VFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVV 91

>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 = 37.7 bits (88), Expect = 5e-05
 Identities = 11/36 (30%), Positives = 18/36 (50%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
            KGY+F++FS    A  A +  +G T+ G  +   
Sbjct: 59 PEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCY 94

>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 = 37.1 bits (87), Expect = 5e-05
 Identities = 13/33 (39%), Positives = 19/33 (57%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
           KGYA+++F NP +A  A    DG  + GQ + 
Sbjct: 46 SKGYAYVEFENPDEAEKALKHMDGGQIDGQEIT 78

>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 = 37.1 bits (87), Expect = 5e-05
 Identities = 13/32 (40%), Positives = 19/32 (59%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           KGYA+++F NP +A  A    DG  + GQ +
Sbjct: 46 SKGYAYVEFENPDEAEKALKHMDGGQIDGQEI 77

>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 = 37.6 bits (88), Expect = 5e-05
 Identities = 11/40 (27%), Positives = 18/40 (45%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+   +   K YAFI F     A  A    +G+ + G+ +
Sbjct: 36 GKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLEGENI 75

>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 = 37.6 bits (88), Expect = 5e-05
 Identities = 12/39 (30%), Positives = 17/39 (43%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK 39
            K YAFI F     A  A    +G+ + G+ + I   K
Sbjct: 43 KLKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFAK 81

>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 = 6e-05
 Identities = 9/35 (25%), Positives = 15/35 (42%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
          KG+ FI+      A  A +  D   + G+ L +  
Sbjct: 51 KGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRF 85

>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 = 36.9 bits (86), Expect = 9e-05
 Identities = 9/31 (29%), Positives = 14/31 (45%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KG+ FI+      A  A +  D   + G+ L
Sbjct: 51 KGFGFIRLETRTLAEIAKVELDNMPLRGKQL 81

>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 = 37.7 bits (88), Expect = 6e-05
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KGYA +++     A +A    +G  ++GQT+
Sbjct: 68 KGYALVEYETHKQALAAKEALNGAEIMGQTI 98

>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 = 37.7 bits (88), Expect = 6e-05
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KGYA +++     A +A    +G  ++GQT+
Sbjct: 68 KGYALVEYETHKQALAAKEALNGAEIMGQTI 98

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

 Score = 37.2 bits (87), Expect = 8e-05
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KGY  +++    +A++A  G +G+ ++GQ +
Sbjct: 65 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 95

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

 Score = 37.2 bits (87), Expect = 8e-05
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KGY  +++    +A++A  G +G+ ++GQ +
Sbjct: 65 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 95

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

 Score = 37.2 bits (86), Expect = 1e-04
 Identities = 9/38 (23%), Positives = 16/38 (42%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK 39
           + G A+I F+    A++      G    G  L I+  +
Sbjct: 71  NSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSE 108

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

 Score = 36.0 bits (83), Expect = 3e-04
 Identities = 8/36 (22%), Positives = 16/36 (44%), Gaps = 1/36 (2%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
           + G A+I F+    A++      G    G  L +++
Sbjct: 71  NSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITF 106

>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 = 36.5 bits (85), Expect = 1e-04
 Identities = 8/34 (23%), Positives = 15/34 (44%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQT 68
                +A+IQ+ +   A++AC    G  + G  
Sbjct: 49 HVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPD 82

>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 = 36.1 bits (84), Expect = 1e-04
 Identities = 8/31 (25%), Positives = 15/31 (48%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQT 32
             +A+IQ+ +   A++AC    G  + G  
Sbjct: 52 GDSFAYIQYESLDAAQAACAKMRGFPLGGPD 82

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 36.3 bits (84), Expect = 1e-04
 Identities = 7/39 (17%), Positives = 17/39 (43%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
           +  AF+ + +   A+ A     G  +   TL +++ + 
Sbjct: 55 PRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALARQ 93

>2e5j_A Methenyltetrahydrofolate synthetase domain containing; RRM domain, RBD, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 97

 Score = 35.2 bits (81), Expect = 3e-04
 Identities = 7/33 (21%), Positives = 13/33 (39%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
           +  AF+ + +   A+ A     G  +   TL 
Sbjct: 55 PRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLR 87

>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 = 36.1 bits (84), Expect = 1e-04
 Identities = 9/37 (24%), Positives = 18/37 (48%), Gaps = 1/37 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLV 70
          + +  GYAF+ + + + A  A     G+  L G+ + 
Sbjct: 40 VLLKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIME 76

>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 = 3e-04
 Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 1/34 (2%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVL-GQTL 33
          +  GYAF+ + + + A  A     G+  L G+ +
Sbjct: 42 LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIM 75

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

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KG A++++ N   A  A +  DG T+    +
Sbjct: 58 KGLAYVEYENESQASQAVMKMDGMTIKENII 88

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

 Score = 36.1 bits (84), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 16/31 (51%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KG A++++ N   A  A +  DG T+    +
Sbjct: 58 KGLAYVEYENESQASQAVMKMDGMTIKENII 88

>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 = 2e-04
 Identities = 7/35 (20%), Positives = 11/35 (31%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
              KG  FI++     A    +        G+ L
Sbjct: 59 HYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNL 93

>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 = 2e-04
 Identities = 7/35 (20%), Positives = 11/35 (31%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
           KG  FI++     A    +        G+ L   
Sbjct: 62 EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTG 96

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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           H+G+AF++F    DA +A    +   + G+T+
Sbjct: 104 HRGFAFVEFELAEDAAAAIDNMNESELFGRTI 135

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

 Score = 36.7 bits (85), Expect = 2e-04
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           H+G+AF++F    DA +A    +   + G+T+
Sbjct: 104 HRGFAFVEFELAEDAAAAIDNMNESELFGRTI 135

>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 = 36.8 bits (86), Expect = 2e-04
 Identities = 8/43 (18%), Positives = 12/43 (27%)

Query: 34 GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY 76
               KG  F+ F     A  A        VL       +++ 
Sbjct: 42 NPPQSKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKP 84

>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 = 36.2 bits (84), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KGY  +++    +A++A  G +G+ ++GQ +
Sbjct: 64 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 94

>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 = 36.2 bits (84), Expect = 2e-04
 Identities = 9/31 (29%), Positives = 20/31 (64%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KGY  +++    +A++A  G +G+ ++GQ +
Sbjct: 64 KGYTLVEYETYKEAQAAMEGLNGQDLMGQPI 94

>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 = 2e-04
 Identities = 9/32 (28%), Positives = 18/32 (56%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           HKG+AF+++  P  A+ A    +   + G+ +
Sbjct: 69  HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 100

>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 = 2e-04
 Identities = 9/32 (28%), Positives = 18/32 (56%)

Query: 38  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           HKG+AF+++  P  A+ A    +   + G+ +
Sbjct: 69  HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNI 100

>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 = 35.2 bits (82), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          H+G+AF++F    DA +A    +   + G+T+
Sbjct: 48 HRGFAFVEFELAEDAAAAIDNMNESELFGRTI 79

>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 = 35.2 bits (82), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 19/32 (59%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          H+G+AF++F    DA +A    +   + G+T+
Sbjct: 48 HRGFAFVEFELAEDAAAAIDNMNESELFGRTI 79

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 35.4 bits (82), Expect = 3e-04
 Identities = 7/34 (20%), Positives = 17/34 (50%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS 36
           G A + F +  +A +A +  + R +  + + +S
Sbjct: 57 TGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLS 90

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A Length = 95

 Score = 34.2 bits (79), Expect = 8e-04
 Identities = 9/63 (14%), Positives = 20/63 (31%), Gaps = 11/63 (17%)

Query: 7  FIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLG 66
          F  +     +      E G              G A + F +  +A +A +  + R +  
Sbjct: 36 FYGYQVIPGSVCLKYNEKGM-----------PTGEAMVAFESRDEATAAVIDLNDRPIGS 84

Query: 67 QTL 69
          + +
Sbjct: 85 RKV 87

>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 = 36.7 bits (84), Expect = 3e-04
 Identities = 12/41 (29%), Positives = 23/41 (56%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYA 42
            +GYAFI++ +  D  SA    DG+ + G+ + + + +G  
Sbjct: 143 PRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVERGRT 183

>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 = 35.3 bits (82), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          +  Y F++F    DA +A    +GR +LG+ +
Sbjct: 54 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEV 85

>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 = 35.3 bits (82), Expect = 3e-04
 Identities = 10/32 (31%), Positives = 18/32 (56%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          +  Y F++F    DA +A    +GR +LG+ +
Sbjct: 54 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEV 85

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 35.3 bits (82), Expect = 3e-04
 Identities = 7/38 (18%), Positives = 18/38 (47%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
           G A + F +  +A +A +  + R +  + + + +  G
Sbjct: 57 TGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGSG 94

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 98

 Score = 34.6 bits (80), Expect = 6e-04
 Identities = 6/31 (19%), Positives = 15/31 (48%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           G A + F +  +A +A +  + R +  + +
Sbjct: 57 TGEAMVAFESRDEATAAVIDLNDRPIGSRKV 87

>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 = 35.3 bits (82), Expect = 3e-04
 Identities = 9/53 (16%), Positives = 20/53 (37%), Gaps = 9/53 (16%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSA 55
          KG A+I+F +  DA      + G  + G+++          + ++        
Sbjct: 53 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSV---------SLYYTGEKGGTRG 96

>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 = 34.9 bits (81), Expect = 5e-04
 Identities = 9/32 (28%), Positives = 17/32 (53%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLV 70
          KG A+I+F +  DA      + G  + G+++ 
Sbjct: 53 KGIAYIEFKSEADAEKNLEEKQGAEIDGRSVS 84

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A Length = 107

 Score = 35.3 bits (82), Expect = 3e-04
 Identities = 9/35 (25%), Positives = 15/35 (42%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
            G A + F    DA  A    +G  + G+ + I +
Sbjct: 70  LGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL 104

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 35.6 bits (82), Expect = 4e-04
 Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 1/36 (2%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
              A++ +    DA  A    +   V G+TL  S 
Sbjct: 62 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASL 97

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1 Length = 111

 Score = 34.5 bits (79), Expect = 9e-04
 Identities = 8/32 (25%), Positives = 13/32 (40%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
              A++ +    DA  A    +   V G+TL
Sbjct: 62 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTL 93

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

 Score = 34.9 bits (81), Expect = 4e-04
 Identities = 12/31 (38%), Positives = 16/31 (51%)

Query: 3  KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
          KG+AF+ F  P  A  A    DG+   G+ L
Sbjct: 50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRML 80

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

 Score = 34.9 bits (81), Expect = 4e-04
 Identities = 12/31 (38%), Positives = 16/31 (51%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          KG+AF+ F  P  A  A    DG+   G+ L
Sbjct: 50 KGFAFVTFMFPEHAVKAYAEVDGQVFQGRML 80

>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 = 34.9 bits (81), Expect = 4e-04
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           KGYAFI+F +   + SA    +G  +  + L
Sbjct: 43 SKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 74

>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 = 34.9 bits (81), Expect = 4e-04
 Identities = 11/32 (34%), Positives = 17/32 (53%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           KGYAFI+F +   + SA    +G  +  + L
Sbjct: 43 SKGYAFIEFRDLESSASAVRNLNGYQLGSRFL 74

>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 = 35.2 bits (81), Expect = 5e-04
 Identities = 10/58 (17%), Positives = 16/58 (27%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGED 60
              A ++F  P +AR A             L +       F       D++     E 
Sbjct: 46  GITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPIGVFGAAPQKKDSQHEQPAEK 103

>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 = 34.8 bits (80), Expect = 7e-04
 Identities = 7/31 (22%), Positives = 10/31 (32%)

Query: 39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
             A ++F  P +AR A             L
Sbjct: 46 GITAIVEFLEPLEARKAFRHLAYSKFHHVPL 76

>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 = 35.4 bits (82), Expect = 5e-04
 Identities = 9/35 (25%), Positives = 14/35 (40%)

Query: 3   KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
            G A + F    DA  A     G  + G+ + I +
Sbjct: 76  LGTADVHFERRADALKAMKQYKGVPLDGRPMDIQL 110

>4f02_A Polyadenylate-binding protein 1; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens} PDB: 1cvj_A* Length = 213

 Score = 35.7 bits (83), Expect = 5e-04
 Identities = 17/104 (16%), Positives = 24/104 (23%), Gaps = 50/104 (48%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM------------------------ 37
             GYA++ F  P DA  A    +   + G+ + I                          
Sbjct: 56  SLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSI 115

Query: 38  --------------------------HKGYAFIQFSNPHDARSA 55
                                      KGY F+ F     A  A
Sbjct: 116 DNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERA 159

>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 = 34.5 bits (80), Expect = 6e-04
 Identities = 7/32 (21%), Positives = 14/32 (43%)

Query: 2  HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 33
           K + F+ F +P     A    +G  + G+ +
Sbjct: 56 PKSFGFVCFKHPESVSYAIALLNGIRLYGRPI 87

>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 = 34.5 bits (80), Expect = 6e-04
 Identities = 7/32 (21%), Positives = 14/32 (43%)

Query: 38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
           K + F+ F +P     A    +G  + G+ +
Sbjct: 56 PKSFGFVCFKHPESVSYAIALLNGIRLYGRPI 87

>2hzc_A Splicing factor U2AF 65 kDa subunit; RNA splicing, RRM, RNA recognition, alternative conformation binding protein; HET: P6G; 1.47A {Homo sapiens} PDB: 1u2f_A Length = 87

 Score = 34.3 bits (79), Expect = 6e-04
 Identities = 10/35 (28%), Positives = 19/35 (54%), Gaps = 1/35 (2%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          I+  K +AF++F +  +  +  +  DG    GQ+L
Sbjct: 49 INQDKNFAFLEFRSVDET-TQAMAFDGIIFQGQSL 82

>3tyt_A Heterogeneous nuclear ribonucleoprotein L; ferredoxin-like, structural genomics, joint center for struc genomics, JCSG; 1.60A {Mus musculus} PDB: 3s01_A 3to8_A Length = 205

 Score = 35.4 bits (81), Expect = 8e-04
 Identities = 11/86 (12%), Positives = 29/86 (33%)

Query: 2   HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDG 61
             G A ++ ++ +    A    +   + GQ + + + K  A +   +      +C  +D 
Sbjct: 41  KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDF 100

Query: 62  RTVLGQTLVSYKLQYYNGCRYVSPTP 87
                    + +    N  ++ S   
Sbjct: 101 SESRNNRFSTPEQAAKNRIQHPSNVL 126

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	89
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	99.76
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	99.76
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	99.76
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	99.74
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	99.73
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	99.72
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	99.71
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	99.7
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.66
3smz_A	284	Protein raver-1, ribonucleoprotein PTB-binding 1;	99.66
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	99.64
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	99.62
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	99.6
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	99.6
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.6
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	99.6
2ghp_A	292	U4/U6 snRNA-associated splicing factor PRP24; RNA	99.59
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	99.59
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	99.57
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	99.57
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	99.54
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	99.5
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.31
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	99.16
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	99.15
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	99.14
2wbr_A	89	GW182, gawky, LD47780P; DNA-binding protein, RRM,	99.11
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	99.1
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	99.1
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	99.1
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	99.08
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	99.07
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	99.07
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	99.07
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	99.07
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	99.06
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	99.06
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	99.05
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	99.04
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	99.04
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	99.04
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	99.04
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	99.03
1x5p_A	97	Negative elongation factor E; structure genomics,	99.03
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	99.03
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	99.03
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	99.03
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	99.01
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	99.01
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	99.01
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	99.01
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	99.0
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	99.0
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	99.0
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	99.0
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	98.99
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	98.99
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	98.98
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.98
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	98.98
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	98.98
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	98.97
4fxv_A	99	ELAV-like protein 1; RNA recognition motif, putati	98.96
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	98.96
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.96
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.96
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.96
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	98.95
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	98.95
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	98.95
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	98.94
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.94
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	98.94
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	98.94
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	98.94
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.94
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	98.93
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	98.93
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	98.93
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	98.93
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	98.93
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	98.92
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	98.92
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	98.92
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	98.92
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	98.91
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.9
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	98.9
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	98.9
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	98.9
2jvr_A	111	Nucleolar protein 3; RNA recognition motif, nucleu	98.9
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	98.9
3s8s_A	110	Histone-lysine N-methyltransferase SETD1A; chromat	98.89
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.89
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	98.89
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	98.89
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.89
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.89
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	98.88
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	98.88
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	98.88
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	98.88
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	98.88
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	98.88
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	98.87
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	98.87
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	98.87
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	98.86
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.86
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	98.86
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	98.86
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	98.86
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.85
3mdf_A	85	Peptidyl-prolyl CIS-trans isomerase E; RRM domain,	98.85
1jmt_A	104	Splicing factor U2AF 35 kDa subunit; RRM, RNA spli	98.85
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	98.85
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	98.85
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	98.85
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	98.85
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.84
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	98.84
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	98.84
4f25_A	115	Polyadenylate-binding protein 1; RRM fold, transla	98.84
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.84
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	98.84
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	98.83
2cpi_A	111	CCR4-NOT transcription complex subunit 4; RNA reco	98.83
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	98.83
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	98.83
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	98.83
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.83
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.83
2lkz_A	95	RNA-binding protein 5; RRM; NMR {Homo sapiens}	98.83
2cqp_A	98	RNA-binding protein 12; RNA recognition motif, RRM	98.82
2pe8_A	105	Splicing factor 45; RRM, protein binding; 2.00A {H	98.82
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	98.82
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	98.81
2e5h_A	94	Zinc finger CCHC-type and RNA-binding motif- conta	98.81
3md1_A	83	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.81
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	98.81
3tyt_A	205	Heterogeneous nuclear ribonucleoprotein L; ferredo	98.81
3bs9_A	87	Nucleolysin TIA-1 isoform P40; RNA recognition mot	98.81
2a3j_A	127	U1 small nuclear ribonucleoprotein A; computationa	98.81
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	98.81
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	98.8
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	98.8
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.8
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	98.8
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	98.8
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	98.8
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	98.8
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	98.8
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	98.79
2dgx_A	96	KIAA0430 protein; RRM domain, structural genomics,	98.79
2fc8_A	102	NCL protein; structure genomics, RRM_1 domain, str	98.79
3v4m_A	105	Splicing factor U2AF 65 kDa subunit; canonical RNA	98.79
2div_A	99	TRNA selenocysteine associated protein; structural	98.79
3p5t_L	90	Cleavage and polyadenylation specificity factor S;	98.79
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	98.79
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	98.78
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.78
2krb_A	81	Eukaryotic translation initiation factor 3 subunit	98.78
2cqc_A	95	Arginine/serine-rich splicing factor 10; RNA recog	98.78
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	98.78
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	98.78
2x1f_A	96	MRNA 3'-END-processing protein RNA15; transcriptio	98.77
1x5t_A	96	Splicing factor 3B subunit 4; structure genomics,	98.77
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	98.77
2ek1_A	95	RNA-binding protein 12; RNA recognition motif, dim	98.77
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	98.77
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	98.77
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	98.76
2cpf_A	98	RNA binding motif protein 19; RNA recognition moti	98.76
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	98.76
3ns6_A	100	Eukaryotic translation initiation factor 3 subuni;	98.76
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	98.76
2ywk_A	95	Putative RNA-binding protein 11; RRM-domain, struc	98.76
1fjc_A	96	Nucleolin RBD2, protein C23; RNP, RRM, RNA binding	98.76
2lxi_A	91	RNA-binding protein 10; NMR {Homo sapiens}	98.76
1wg1_A	88	KIAA1579 protein, homolog EXC-7; RBD, structural g	98.76
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	98.75
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.75
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	98.75
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.75
2cqi_A	103	Nucleolysin TIAR; RNA recognition motif, RRM, RNA	98.75
2xnq_A	97	Nuclear polyadenylated RNA-binding protein 3; tran	98.75
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.75
4a8x_A	88	RNA-binding protein with serine-rich domain 1; tra	98.74
2fc9_A	101	NCL protein; structure genomics, RRM_1 domain, str	98.74
1x4a_A	109	Splicing factor, arginine/serine-rich 1 (splicing	98.74
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.74
2dit_A	112	HIV TAT specific factor 1 variant; structural geno	98.74
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.74
1x5p_A	97	Negative elongation factor E; structure genomics,	98.74
2la6_A	99	RNA-binding protein FUS; structural genomics, nort	98.74
3ulh_A	107	THO complex subunit 4; nuclear protein, RNA bindin	98.74
2cpe_A	113	RNA-binding protein EWS; RNA recognition motif, RR	98.74
2nlw_A	105	Eukaryotic translation initiation factor 3 subunit	98.74
2cq0_A	103	Eukaryotic translation initiation factor 3 subunit	98.73
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.73
1whw_A	99	Hypothetical protein riken cDNA 1200009A02; RNA re	98.73
2dng_A	103	Eukaryotic translation initiation factor 4H; RRM d	98.73
1x4e_A	85	RNA binding motif, single-stranded interacting pro	98.72
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	98.72
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	98.72
2cqb_A	102	Peptidyl-prolyl CIS-trans isomerase E; RNA recogni	98.72
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.72
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.71
2cpd_A	99	Apobec-1 stimulating protein; RNA recognition moti	98.71
2ytc_A	85	PRE-mRNA-splicing factor RBM22; RRM domain, RBD, s	98.71
2cqh_A	93	IGF-II mRNA-binding protein 2 isoform A; RNA recog	98.71
2cpz_A	115	CUG triplet repeat RNA-binding protein 1; RRM doma	98.71
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.71
2khc_A	118	Testis-specific RNP-type RNA binding protein; RRM,	98.71
2dgw_A	91	Probable RNA-binding protein 19; RRM domain, struc	98.71
2e5j_A	97	Methenyltetrahydrofolate synthetase domain contain	98.71
1nu4_A	97	U1A RNA binding domain; RNA recognition motif, U1	98.7
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.7
2dgo_A	115	Cytotoxic granule-associated RNA binding protein 1	98.7
2cq3_A	103	RNA-binding protein 9; RRM domain, structural geno	98.7
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	98.7
3n9u_C	156	Cleavage and polyadenylation specificity factor S;	98.7
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.7
2dis_A	109	Unnamed protein product; structural genomics, RRM	98.7
3ucg_A	89	Polyadenylate-binding protein 2; ferredoxin-like,	98.7
2do4_A	100	Squamous cell carcinoma antigen recognized by T- c	98.7
2err_A	109	Ataxin-2-binding protein 1; protein-RNA complex, R	98.69
2dnz_A	95	Probable RNA-binding protein 23; RNA recognition m	98.69
3ue2_A	118	Poly(U)-binding-splicing factor PUF60; RNA recogni	98.68
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	98.13
1oo0_B	110	CG8781-PA, drosophila Y14; RNA recognition motif,	98.67
2hzc_A	87	Splicing factor U2AF 65 kDa subunit; RNA splicing,	98.67
1x5u_A	105	Splicing factor 3B subunit 4 (spliceosome associat	98.67
1fj7_A	101	Nucleolin RBD1, protein C23; RNP, RRM, RNA binding	98.67
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	98.67
3s6e_A	114	RNA-binding protein 39; ferredoxin-like, structura	98.66
2cpx_A	115	Hypothetical protein FLJ11016; RRM domain, structu	98.66
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.66
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.66
1wi8_A	104	EIF-4B, eukaryotic translation initiation factor 4	98.65
2la4_A	101	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.65
2fy1_A	116	RNA-binding motif protein, Y chromosome, family 1	98.65
2do0_A	114	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.65
2dgv_A	92	HnRNP M, heterogeneous nuclear ribonucleoprotein M	98.64
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	98.64
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	98.64
2d9p_A	103	Polyadenylate-binding protein 3; RRM domain, struc	98.64
3egn_A	143	RNA-binding protein 40; RNA recognition motif (RRM	98.64
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.64
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	98.64
1p1t_A	104	Cleavage stimulation factor, 64 kDa subunit; RNA r	98.64
2jrs_A	108	RNA-binding protein 39; RNA binding motif of RBM39	98.64
1u6f_A	139	Tcubp1, RNA-binding protein UBP1; trypanosome, mRN	98.64
1h2v_Z	156	20 kDa nuclear CAP binding protein; CAP-binding-co	98.63
1x5s_A	102	Cold-inducible RNA-binding protein; structure geno	98.63
2dnm_A	103	SRP46 splicing factor; RRM domain, RBD, structural	98.63
1x4g_A	109	Nucleolysin TIAR; structural genomics, RRM domain,	98.63
2jvo_A	108	Nucleolar protein 3; nucleus, phosphorylation, rib	98.63
2cph_A	107	RNA binding motif protein 19; RNA recognition moti	98.63
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.63
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	98.62
1p27_B	106	RNA-binding protein 8A; nuclear protein, mRNA spli	98.62
3r27_A	100	HnRNP L, heterogeneous nuclear ribonucleoprotein L	98.62
3pgw_A	282	U1-A; protein-RNA complex, U1 snRNA, SM fold, SM c	98.62
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.62
2ku7_A	140	MLL1 PHD3-CYP33 RRM chimeric protein; transcriptio	98.62
2diu_A	96	KIAA0430 protein; structural genomics, RRM domain,	98.62
2hgl_A	136	HNRPF protein, heterogeneous nuclear ribonucleopro	98.61
2j76_E	100	EIF-4B, EIF4B, eukaryotic translation initiation f	98.61
2dgt_A	92	RNA-binding protein 30; RRM domain, structural gen	98.61
1x5o_A	114	RNA binding motif, single-stranded interacting pro	98.61
2dnq_A	90	RNA-binding protein 4B; RRM domain,RBD, structural	98.61
2mss_A	75	Protein (musashi1); RNA-binding domain, RNA bindin	98.61
2jwn_A	124	Embryonic polyadenylate-binding protein 2-B; epabp	98.6
2dgu_A	103	Heterogeneous nuclear ribonucleoprotein Q; RRM dom	98.6
2dnn_A	109	RNA-binding protein 12; RRM domain, RBD, structura	98.6
1whx_A	111	Hypothetical protein riken cDNA 1200009A02; RNA re	98.6
2div_A	99	TRNA selenocysteine associated protein; structural	98.6
1wf1_A	110	RNA-binding protein RALY; structural genomics, RRM	98.6
2db1_A	118	Heterogeneous nuclear ribonucleoprotein F; RRM dom	98.59
2kn4_A	158	Immunoglobulin G-binding protein G, splicing FACT	98.59
2dnp_A	90	RNA-binding protein 14; RRM domain, RBD, structura	98.59
1x4h_A	111	RNA-binding protein 28; structural genomics, RRM d	98.58
2dgs_A	99	DAZ-associated protein 1; RRM domain, structural g	98.58
2kt5_A	124	RNA and export factor-binding protein 2; chaperone	98.58
2bz2_A	121	Negative elongation factor E; NELF E, RNA recognit	98.58
2cpj_A	99	Non-POU domain-containing octamer-binding protein;	98.58
2kxn_B	129	Transformer-2 protein homolog beta; SR protein, RR	98.57
3zzy_A	130	Polypyrimidine tract-binding protein 1; protein bi	98.57
3md3_A	166	Nuclear and cytoplasmic polyadenylated RNA-bindin	98.57
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.57
2hvz_A	101	Splicing factor, arginine/serine-rich 7; RRM, RNA	98.57
2cq2_A	114	Hypothetical protein LOC91801; RRM domain, structu	98.57
2g4b_A	172	Splicing factor U2AF 65 kDa subunit; protein-RNA c	98.57
1why_A	97	Hypothetical protein riken cDNA 1810017N16; RNA re	98.57
2dnh_A	105	Bruno-like 5, RNA binding protein; RRM domain, RBD	98.57
2yh0_A	198	Splicing factor U2AF 65 kDa subunit; PRE-mRNA spli	98.56
2cq4_A	114	RNA binding motif protein 23; RRM domain, structur	98.56
1b7f_A	168	Protein (SXL-lethal protein), RNA (5'-R(P*GP*UP*UP	98.56
2i2y_A	150	Fusion protein consists of immunoglobin G- binding	98.56
4f02_A	213	Polyadenylate-binding protein 1; mRNA, eukaryotic	98.56
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	98.55
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.55
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.55
1sjq_A	105	Polypyrimidine tract-binding protein 1; babbab mot	98.54
1s79_A	103	Lupus LA protein; RRM, alpha/beta, RNA binding pro	98.54
2dis_A	109	Unnamed protein product; structural genomics, RRM	98.54
1x4d_A	102	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.54
2dgp_A	106	Bruno-like 4, RNA binding protein; RRM domain, str	98.54
1sjr_A	164	Polypyrimidine tract-binding protein 1; extended b	98.54
3ex7_B	126	RNA-binding protein 8A; protein-RNA complex, mRNA	98.54
2kvi_A	96	Nuclear polyadenylated RNA-binding protein 3; RNA-	98.54
2ki2_A	90	SS-DNA binding protein 12RNP2; HP0827, RRM, SS-DNA	98.53
1wel_A	124	RNA-binding protein 12; structural genomics, NPPSF	98.53
1x4e_A	85	RNA binding motif, single-stranded interacting pro	98.53
1fxl_A	167	Paraneoplastic encephalomyelitis antigen HUD; prot	98.53
2dhg_A	104	TRNA selenocysteine associated protein (SECP43); R	98.52
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	98.52
2cqd_A	116	RNA-binding region containing protein 1; RNA recog	98.52
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.52
2cpy_A	114	RNA-binding protein 12; RRM domain, structural gen	98.51
2lea_A	135	Serine/arginine-rich splicing factor 2; SR protein	98.51
3lqv_A	115	PRE-mRNA branch site protein P14; cysless mutant,	98.5
1x4c_A	108	Splicing factor, arginine/serine-rich 1; structura	98.5
1fje_B	175	Nucleolin RBD12, protein C23; RNP, RRM, RNA bindin	98.5
2cq1_A	101	PTB-like protein L; RRM domain, structural genomic	98.5
1rk8_A	165	CG8781-PA, CG8781-PA protein; mRNA processing, RRM	98.49
2qfj_A	216	FBP-interacting repressor; protein-DNA complex; HE	98.48
3q2s_C	229	Cleavage and polyadenylation specificity factor S;	98.47
2m2b_A	131	RNA-binding protein 10; T-cell, JCSG, MPP, PSI-bio	98.46
2lcw_A	116	RNA-binding protein FUS; RRM, nucleic acid binding	97.83
1wez_A	102	HnRNP H', FTP-3, heterogeneous nuclear ribonucleop	98.45
2adc_A	229	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.45
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.45
3s7r_A	87	Heterogeneous nuclear ribonucleoprotein A/B; ferre	98.44
2lmi_A	107	GRSF-1, G-rich sequence factor 1; G-rich RNA seque	98.43
1uaw_A	77	Mouse-musashi-1; RNP-type structure, RNA binding p	98.43
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	98.43
1x4f_A	112	Matrin 3; structural genomics, RRM domain, NPPSFA,	98.42
1x4b_A	116	Heterogeneous nuclear ribonucleoproteins A2/B1; st	98.41
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	98.41
1wg5_A	104	Heterogeneous nuclear ribonucleoprotein H; structu	98.41
1wex_A	104	Hypothetical protein (riken cDNA 2810036L13); stru	98.39
3sde_A	261	Paraspeckle component 1; RRM, anti parallel right	98.39
1x5o_A	114	RNA binding motif, single-stranded interacting pro	98.39
2dh8_A	105	DAZ-associated protein 1; RRM domain, structural g	98.39
3tht_A	345	Alkylated DNA repair protein ALKB homolog 8; struc	98.38
2e5i_A	124	Heterogeneous nuclear ribonucleoprotein L-like; RR	98.38
2f3j_A	177	RNA and export factor binding protein 2; RRM domai	98.37
3nmr_A	175	Cugbp ELAV-like family member 1; RRM, PRE-mRNA spl	98.37
2ad9_A	119	Polypyrimidine tract-binding protein 1; RBD, RRM,	98.36
1qm9_A	198	Polypyrimidine tract-binding protein; ribonucleopr	98.36
3pgw_S	437	U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM	98.35
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.35
2rs2_A	109	Musashi-1, RNA-binding protein musashi homolog 1;	98.34
2dha_A	123	FLJ20171 protein; RRM domain, structural genomics,	98.34
2d9o_A	100	DNAJ (HSP40) homolog, subfamily C, member 17; RRM	98.34
1l3k_A	196	Heterogeneous nuclear ribonucleoprotein A1; nuclea	98.33
1iqt_A	75	AUF1, heterogeneous nuclear ribonucleoprotein D0;	98.32
2cqg_A	103	TDP-43, TAR DNA-binding protein-43; RNA recognitio	98.28
3beg_B	115	Splicing factor, arginine/serine-rich 1; kinase, S	98.28
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	98.25
3dxb_A	222	Thioredoxin N-terminally fused to PUF60(UHM); spli	98.24
2hgn_A	139	Heterogeneous nuclear ribonucleoprotein F; RNA rec	98.24
2cjk_A	167	Nuclear polyadenylated RNA-binding protein 4; HRP1	98.24
2hgm_A	126	HNRPF protein, heterogeneous nuclear ribonucleopro	98.21
2j8a_A	136	Histone-lysine N-methyltransferase, H3 lysine-4 sp	98.19
3u1l_A	240	PRE-mRNA-splicing factor CWC2; CSMP, zinc finger;	98.18
2voo_A	193	Lupus LA protein; RNA-binding protein, RNA recogni	98.16
2e44_A	96	Insulin-like growth factor 2 mRNA binding protein	98.14
2xs2_A	102	Deleted in azoospermia-like; RNA binding protein-R	98.13
2e5g_A	94	U6 snRNA-specific terminal uridylyltransferase 1;	98.12
2dnl_A	114	Cytoplasmic polyadenylation element binding protei	98.1
2dnr_A	91	Synaptojanin-1; RRM domain, RBD, structural genomi	98.08
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	98.07
1ufw_A	95	Synaptojanin 2; RNP domain, structural genomics, r	97.88
3d2w_A	89	TAR DNA-binding protein 43; DP-43 proteinopathy, T	97.86
1wf0_A	88	TDP-43, TAR DNA-binding protein-43; structural gen	97.63
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	97.53
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	97.21
2l9w_A	117	U4/U6 snRNA-associated-splicing factor PRP24; RRM,	95.48
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	95.45
1owx_A	121	Lupus LA protein, SS-B, LA; RRM, transcription; NM	95.25
1wwh_A	119	Nucleoporin 35, nucleoporin; structural genomics,	94.32
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	93.69
1wey_A	104	Calcipressin 1; structural genomics, RRM domain, r	91.89
3p3d_A	132	Nucleoporin 53; structural genomics, PSI-2, protei	87.85
2dhx_A	104	Poly (ADP-ribose) polymerase family, member 10 var	86.94

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

Probab=99.76  E-value=2.9e-18  Score=113.61  Aligned_cols=73  Identities=25%  Similarity=0.413  Sum_probs=67.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..+++..+.|+.+.+.+                                            
T Consensus        56 ~~G~afV~F~~~~~A~~Ai~~~~~~~~~g~~i~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~~~i  135 (213)
T 4f02_A           56 SLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQRDPSLRKSGVGNIFIKNLDKSIDNKALYDTFSAFGNILSCKV  135 (213)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCTHHHHHCTTEEEEESCCTTCCHHHHHHHHGGGSCEEEEEE
T ss_pred             ccccccceeCCHHHHHHHHHHhhhhhcCCcccccccccccccccccccccceECCcccccHHHHHHHHHhhcCCeEEEEe
Confidence            579999999999999999999999999999888762                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                            ++|||||+|.++++|++||+.|||..|+|++|.+...
T Consensus       136 ~~d~~~~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a  178 (213)
T 4f02_A          136 VCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF  178 (213)
T ss_dssp             EEETTEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             eccCCCCceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence                  6899999999999999999999999999999987554

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

Probab=99.76  E-value=4.2e-18  Score=107.05  Aligned_cols=71  Identities=27%  Similarity=0.514  Sum_probs=66.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.+.|.+                                            
T Consensus        40 ~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i  119 (166)
T 3md3_A           40 NVNYAFVEYHQSHDANIALQTLNGKQIENNIVKINWAFQSQQSSSDDTFNLFVGDLNVNVDDETLRNAFKDFPSYLSGHV  119 (166)
T ss_dssp             CEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCCCCCCTTCEEEEEESCCTTCCHHHHHHHHTTSTTEEEEEE
T ss_pred             CCCEEEEEeCCHHHHHHHHHHcCCCccCCCeeEEEEcCCCCCCCCCCCceEEECCCCCCCCHHHHHHHHhccCCeeEEEE
Confidence            579999999999999999999999999999998862                                            


Q ss_pred             --------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 --------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 --------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                              ++|||||+|.+.++|++|+..|||..++|++|.+.
T Consensus       120 ~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~  162 (166)
T 3md3_A          120 MWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN  162 (166)
T ss_dssp             EECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             EecCCCCCcceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEE
Confidence                    57899999999999999999999999999999653

>1fje_B Nucleolin RBD12, protein C23; RNP, RRM, RNA binding domain, RNA-protein complex, nucleolus, structural protein/RNA complex; NMR {Mesocricetus auratus} SCOP: d.58.7.1 d.58.7.1 PDB: 1rkj_A 2krr_A

Probab=99.76  E-value=4.7e-18  Score=108.41  Aligned_cols=69  Identities=22%  Similarity=0.457  Sum_probs=64.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+ +|||..+.|+.|.|.+                                            
T Consensus        53 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~v~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~F~~~g~v~~~~~  131 (175)
T 1fje_B           53 NRKFGYVDFESAEDLEKAL-ELTGLKVFGNEIKLEKPKGRDSKKVRAARTLLAKNLSFNITEDELKEVFEDALEIRLVSQ  131 (175)
T ss_dssp             TTTEEEEEESSHHHHHHHH-HGGGEEETTEEEEEECCCCSSCSTTGGGGEEEEESCCSSCCHHHHHHHCTTCSEEEEECS
T ss_pred             cccEEEEEECCHHHHHHHH-hcCCCEeCCeEEEEecCCCccccccccCCEEEEeCCCCCCCHHHHHHHHHhcCeEEEecC
Confidence            6899999999999999999 5999999999999973                                            


Q ss_pred             ---ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 ---HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ---~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                         ++|||||+|.+.++|++||..|||..+.|++|.+
T Consensus       132 ~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v  168 (175)
T 1fje_B          132 DGKSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSL  168 (175)
T ss_dssp             SSSCCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEE
T ss_pred             CCCCceEEEEEECCHHHHHHHHHHhCCCEECCeEEEE
Confidence               5799999999999999999999999999999864

>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=99.74  E-value=8.1e-18  Score=106.75  Aligned_cols=70  Identities=29%  Similarity=0.460  Sum_probs=65.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+ .+||..+.|+.+.|.+                                            
T Consensus        50 ~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~v~~v~i~~  128 (172)
T 2g4b_A           50 DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPHDYQPLPGAHKLFIGGLPNYLNDDQVKELLTSFGPLKAFNLVK  128 (172)
T ss_dssp             TTTEEEEEESSHHHHHHHG-GGTTCEETTEECEEECCSSCCCCTTTTCEEEECCCTTCCHHHHHHHHHTTSCEEEEEEEE
T ss_pred             CCCEEEEEeCCHHHHHHHH-HhCCcEecCceeeecCCcccCCCCCCCEEEEEcCCCcCCHHHHHHHHHhcCCceEEEEEe
Confidence            5899999999999999999 8999999999998863                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                            ++|||||+|.+.++|++|+..|||..++|++|.+.
T Consensus       129 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  169 (172)
T 2g4b_A          129 DSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQ  169 (172)
T ss_dssp             CTTTCSEEEEEEEEESSTTHHHHHHHHHTTCEETTEECEEE
T ss_pred             cCCCCCcceEEEEEeCCHHHHHHHHHHcCCCEECCeEEEEE
Confidence                  47999999999999999999999999999999754

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

Probab=99.73  E-value=6.8e-18  Score=110.48  Aligned_cols=83  Identities=25%  Similarity=0.376  Sum_probs=69.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|..                                            
T Consensus        69 ~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nlp~~~t~~~l~~~f~~  148 (216)
T 2qfj_A           69 HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVGRPSNIGQAQPIIDQLAEEARAFNRIYVASVHQDLSDDDIKSVFEA  148 (216)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEECCSCCGGGHHHHHHHHHHHTTSCEEEEECCCTTCCHHHHHHHHTT
T ss_pred             cCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEecCCCccccchhhhhhhcccCCCcEEEEeCCCCcCCHHHHHHHHhc
Confidence            689999999999999999999999999999888841                                            


Q ss_pred             -----------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCC
Q psy4383          38 -----------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTP   87 (89)
Q Consensus        38 -----------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~   87 (89)
                                       ++|||||+|.+.++|++|+..|||..++|++|.   +.+......-.++|
T Consensus       149 ~G~v~~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~l~g~~~~g~~i~---V~~a~~~~~~~~~p  212 (216)
T 2qfj_A          149 FGKIKSATLARDPTTGKHKGYGFIEYEKAQSSQDAVSSMNLFDLGGQYLR---VGKAVTPPMPLLTP  212 (216)
T ss_dssp             SSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCBCSSSBCE---EEECSSCSSTTSCC
T ss_pred             cCCeeEEEEEecCCCCCcCceEEEEecCHHHHHHHHHHccCCEeCCcEEE---EEEecCCCCCCCCC
Confidence                             489999999999999999999999999999996   44444444333433

>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=99.72  E-value=1.6e-17  Score=104.85  Aligned_cols=70  Identities=29%  Similarity=0.434  Sum_probs=64.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|.+                                            
T Consensus        44 ~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~  123 (168)
T 1b7f_A           44 SYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYARPGGESIKDTNLYVTNLPRTITDDQLDTIFGKYGSIVQKNILR  123 (168)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCSSTTTTCEEEEESCCTTCCHHHHHHHHTSSSCEEEEEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEecCCCcccCCCCCEEEeCCCCCCCHHHHHHhhhcCCcEEEEEEEE
Confidence            579999999999999999999999999999998863                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecC--eEEEE
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLVS   71 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~   71 (89)
                            ++|||||+|.+.++|.+|+..|||..+.|  ++|.+
T Consensus       124 ~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~~l~V  165 (168)
T 1b7f_A          124 DKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSV  165 (168)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             cCCCCCcceEEEEEECCHHHHHHHHHHhcCCEecCCCeEEEE
Confidence                  46999999999999999999999999988  88864

>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=99.71  E-value=2.7e-17  Score=103.41  Aligned_cols=68  Identities=29%  Similarity=0.505  Sum_probs=63.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.+.|.+                                            
T Consensus        43 ~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~f~~~G~i~~~~i~~  122 (167)
T 1fxl_A           43 SLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYARPSSASIRDANLYVSGLPKTMTQKELEQLFSQYGRIITSRILV  122 (167)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCCCGGGTTCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEE
T ss_pred             ceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEecCCCcccCCCCcEEECCCCCcCCHHHHHHHHHhcCCEeEEEEEe
Confidence            469999999999999999999999999999998862                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                            ++|||||+|.+.++|++|+..|||..+.|+.+
T Consensus       123 ~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~~  160 (167)
T 1fxl_A          123 DQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATE  160 (167)
T ss_dssp             CTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSS
T ss_pred             cCCCCCccceEEEEeCCHHHHHHHHHHhcCCccCCCcc
Confidence                  47999999999999999999999999999763

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=99.70  E-value=4.8e-17  Score=105.18  Aligned_cols=71  Identities=28%  Similarity=0.466  Sum_probs=65.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|.+                                            
T Consensus        50 ~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~  128 (198)
T 2yh0_A           50 DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRPHDYQPLPGMSENPSVYVPGVVSTVVPDSAHKLFIGGLPNYLND  128 (198)
T ss_dssp             TTTEEEEEESCSHHHHHHG-GGTTEEETTEEEEEECCCCCCCCCCSSSCSSCCCTTSSCCCSSCCCCEEEEECCCTTCCH
T ss_pred             CCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEEEeCCCCCCCCCCCcCCCcCCCCCCccCCCCCCCCEEEEeCCCCCCCH
Confidence            5899999999999999999 7999999999988862                                            


Q ss_pred             --------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 --------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 --------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                                                ++|||||+|.++++|++|+..|||..++|++|.+..
T Consensus       129 ~~l~~~f~~~G~v~~~~~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  190 (198)
T 2yh0_A          129 DQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQR  190 (198)
T ss_dssp             HHHHHHHHTBSCEEEEEEEECTTTCSEEEEEEEEESSSSHHHHHHHHHTTCEETTEECEEEE
T ss_pred             HHHHHHHHHcCCccEEEEeecCCCCCcceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence                                      489999999999999999999999999999996543

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.66  E-value=4e-16  Score=106.36  Aligned_cols=72  Identities=25%  Similarity=0.318  Sum_probs=66.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|..|+..|+|..+.|+.|.|.+                                            
T Consensus       136 ~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a~~~~~~~~~~~~~~l~v~nlp~~~~~~~~l~~~f~~~G~i~~v  215 (284)
T 3smz_A          136 SKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWTDAGQLTPALLHSRCLCVDRLPPGFNDVDALCRALSAVHSPTFC  215 (284)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCGGGCCTTTTSCSEEEEECCCTTCCCHHHHHHHTCSSSCCSEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCCCCcccCCccEEEEecCCcccCCHHHHHHHhhCCCCeEEE
Confidence            579999999999999999999999999999998862                                            


Q ss_pred             ---------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 ---------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ---------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                               ++|||||+|.+.++|.+|+..|||..+.|++|.+..
T Consensus       216 ~i~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~  260 (284)
T 3smz_A          216 QLACGQDGQLKGFAVLEYETAEMAEEAQQQADGLSLGGSHLRVSF  260 (284)
T ss_dssp             EEEECSSCCEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             EEEECCCCCcccEEEEEeCCHHHHHHHHHHhCCCccCCeEEEEEE
Confidence                     489999999999999999999999999999996543

>3smz_A Protein raver-1, ribonucleoprotein PTB-binding 1; RNA binding, RNA recognition motif, vincu alpha-actinin, nucleus, RNA binding protein; 1.99A {Homo sapiens} PDB: 3vf0_B* 3h2u_B 3h2v_E

Probab=99.66  E-value=5.3e-16  Score=105.74  Aligned_cols=73  Identities=23%  Similarity=0.263  Sum_probs=67.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.+.|.+                                            
T Consensus        56 ~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~i~~~~i~~~~~~g~  135 (284)
T 3smz_A           56 YKGTAFVTLLNGEQAEAAINAFHQSRLRERELSVQLQPTDALLCVANLPPSLTQQQFEELVRPFGSLERCFLVYSERTGQ  135 (284)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECCCSCEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHcCCCeeCCeEEEEEecCCCCEEEEcCCCCcCCHHHHHHHHHhcCCeeEEEEEeeCCCCc
Confidence            689999999999999999999999999999998863                                            


Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++|+..|||..+.|++|.+...
T Consensus       136 ~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~i~v~~a  172 (284)
T 3smz_A          136 SKGYGFAEYMKKDSAARAKSDLLGKPLGPRTLYVHWT  172 (284)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            5789999999999999999999999999999975443

>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=99.64  E-value=1.2e-15  Score=98.44  Aligned_cols=71  Identities=18%  Similarity=0.367  Sum_probs=63.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+.. ++..+.|+.|.|.+                                            
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~~~~~~~~~~~~~~~~~~l~V~nLp~~~t~~~l~~~F~~~G~i~  132 (196)
T 1l3k_A           54 SRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE  132 (196)
T ss_dssp             EEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEECCC-----------CCSEEEEECCTTTCCHHHHHHHHTTTSCEE
T ss_pred             ccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecccCcccccccccCCCcceEEEeCCCCCCCHHHHHHHHhcCCCeE
Confidence            589999999999999999985 89999999888752                                            


Q ss_pred             ------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 ------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                                  ++|||||+|.+.++|++||.. +|..++|+.|.+...
T Consensus       133 ~v~i~~~~~~g~~~g~afV~F~~~~~A~~A~~~-~~~~~~G~~i~v~~a  180 (196)
T 1l3k_A          133 VIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVIQ-KYHTVNGHNCEVRKA  180 (196)
T ss_dssp             EEEEEECTTTCCEEEEEEEEESSHHHHHHHHHC-SCCEETTEECEEEEC
T ss_pred             EEEEeecCCCCCccceEEEEECCHHHHHHHHHh-CCcEECCEEEEEEec
Confidence                        589999999999999999986 899999999976544

>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=99.62  E-value=7e-16  Score=97.69  Aligned_cols=71  Identities=21%  Similarity=0.288  Sum_probs=59.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec---CeEeEEEc-----------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL---GQTLGISM-----------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~---g~~i~v~~-----------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.   ++++.+..                                         
T Consensus        46 ~~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v  125 (175)
T 3nmr_A           46 SKGCCFVTFYTRKAALEAQNALHNMKVLPGMHHPIQMKPADSEKNNAVEDRKLFIGMISKKCTENDIRVMFSSFGQIEEC  125 (175)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEECGGGCCSCGGGSEEEEESCCTTCCHHHHHHHHGGGSCEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhcCcEEccCCccceEEccccccccccCCCCeEEEcCCCCcCCHHHHHHHHHhCCCEEEE
Confidence            5799999999999999999999997765   34444431                                         


Q ss_pred             ---------ccCeEEEEeCCHHHHHHHHHhcCCceecC---eEEEEE
Q psy4383          38 ---------HKGYAFIQFSNPHDARSACLGEDGRTVLG---QTLVSY   72 (89)
Q Consensus        38 ---------~rG~afV~F~~~~~a~~Ai~~l~g~~l~g---r~i~~~   72 (89)
                               ++|||||+|.++++|++|+..|||..+.+   ++|.+.
T Consensus       126 ~~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~~~l~V~  172 (175)
T 3nmr_A          126 RILRGPDGLSRGCAFVTFTTRAMAQTAIKAMHQAQTMEGCSSPMVVK  172 (175)
T ss_dssp             EEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTSCCCTTCSSCCEEE
T ss_pred             EEEECCCCCEEEEEEEEECCHHHHHHHHHHhcCCcccCCCCCCeEEE
Confidence                     58999999999999999999999998774   888643

>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=99.60  E-value=9.4e-16  Score=96.75  Aligned_cols=69  Identities=12%  Similarity=0.367  Sum_probs=59.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..  +..+.|+.+.+.+                                            
T Consensus        44 ~~g~afV~f~~~~~a~~A~~~--~~~~~g~~i~v~~~~~~~~~~~~~~l~V~nlp~~~t~~~l~~~F~~~G~i~~~~i~~  121 (167)
T 2cjk_A           44 SRGFGFLSFEKPSSVDEVVKT--QHILDGKVIDPKRAIPRDEQDKTGKIFVGGIGPDVRPKEFEEFFSQWGTIIDAQLML  121 (167)
T ss_dssp             CCSCEEEEESSTHHHHHHHHS--CCEETTEECCCEECCCHHHHHHCEEEEEEEECTTCCHHHHHHHHHTTSCCSEEECCC
T ss_pred             ccceEEEEEccHHHHHHHHhc--ccccCCeEcccccccchhhccCCCeEEECCCCCCCCHHHHHHHHHhCccEEEEEEEE
Confidence            679999999999999999985  4567777665541                                            


Q ss_pred             ------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 ------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                            ++|||||+|.+.++|++|++ +||..++|++|.+..
T Consensus       122 ~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~  162 (167)
T 2cjk_A          122 DKDTGQSRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKR  162 (167)
T ss_dssp             SSSSSTTSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEE
T ss_pred             cCCCCccceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEee
Confidence                  57999999999999999998 999999999997543

>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=99.60  E-value=5.2e-15  Score=100.73  Aligned_cols=34  Identities=21%  Similarity=0.277  Sum_probs=31.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceec-CeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~-gr~i~~   71 (89)
                      .+|||||+|.+.++|++||..|||..+. |++|.+
T Consensus       243 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v  277 (282)
T 3pgw_A          243 RHDIAFVEFDNEVQAGAARDALQGFKITQNNAMKI  277 (282)
T ss_pred             CCcEEEEEeCCHHHHHHHHHHcCCcEeCCCCEEEE
Confidence            3599999999999999999999999999 999964

>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=99.60  E-value=6.1e-15  Score=100.79  Aligned_cols=71  Identities=24%  Similarity=0.292  Sum_probs=64.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------c
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------H   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------~   38 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|+.|.|.+                                           +
T Consensus        80 ~~g~afV~f~~~~~A~~A~~-~~~~~~~g~~i~v~~~~~~~l~v~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~~~~  158 (292)
T 2ghp_A           80 NFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHLTECTLWMTNFPPSYTQRNIRDLLQDINVVALSIRLPSLRFNTS  158 (292)
T ss_dssp             SSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEECCSCEEEEECCCTTCCHHHHHHHHHHTTCCCCEEECC-------
T ss_pred             CcEEEEEEECCHHHHHHHHH-hCCcEeCCcEEEEEECCCCEEEEECCCCCCCHHHHHHHHHHhCCCeEEEEEEeCCCCCc
Confidence            47999999999999999995 999999999988852                                           5


Q ss_pred             cCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        39 rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +|||||+|.+.++|++|+..|||..+.|++|.+..
T Consensus       159 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  193 (292)
T 2ghp_A          159 RRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKV  193 (292)
T ss_dssp             CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             ceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEE
Confidence            89999999999999999999999999999997643

>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=99.60  E-value=3.1e-15  Score=99.25  Aligned_cols=66  Identities=11%  Similarity=0.170  Sum_probs=59.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE---------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS---------------------------------------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---------------------------------------------   36 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.                                             
T Consensus        41 ~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s~~~~~~p~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~  120 (205)
T 3tyt_A           41 KPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVSKQPAIMPGQSYGLEDGSCSYKDFSESRNNRFSTPEQAAKNRIQ  120 (205)
T ss_dssp             STTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECSCSCCCCCSCCBCTTSCBSEEECTTCTTCSCSSHHHHTTSCCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEccCCccCCCcccccccCCccccccCCCccccccCcccccccccC
Confidence            47999999999999999999999999998876543                                             


Q ss_pred             -----c-------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCe
Q psy4383          37 -----M-------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQ   67 (89)
Q Consensus        37 -----~-------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr   67 (89)
                           +                                     ++|||||+|.+.++|.+||..|||..|.|+
T Consensus       121 ~p~~~l~v~NLp~~~t~~~L~~~F~~~G~v~~~~v~~~~~~~~~~g~gfV~f~~~~~A~~Ai~~lng~~~~g~  193 (205)
T 3tyt_A          121 HPSNVLHFFNAPLEVTEENFFEICDELGVKRPTSVKVFSGKSERSSSGLLEWDSKSDALETLGFLNHYQMKNP  193 (205)
T ss_dssp             CCCSEEEEEEECTTCCHHHHHHHHHHHTCCCCSEEEECSCCSSSSEEEEEECSSHHHHHHHHHHHTTCEECCS
T ss_pred             CCcceEEEeCCCCCCCHHHHHHHHHhcCCcceEEEEEEcCCCCCceEEEEEeCCHHHHHHHHHHhCCCCccCC
Confidence                 0                                     258999999999999999999999999987

>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=99.59  E-value=6.3e-15  Score=100.73  Aligned_cols=70  Identities=21%  Similarity=0.291  Sum_probs=63.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|.+                                            
T Consensus       158 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~~~~~~~~~~~~~~~~~~l~v~nlp~~~~t~~~l~~~F~~~G~  237 (292)
T 2ghp_A          158 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSNPLEKSKRTDSATLEGREIMIRNLSTELLDENLLRESFEGFGS  237 (292)
T ss_dssp             -CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCC---------CCTTTEEEEEEECTTTCCHHHHHHHHGGGSC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEECCCCcccccccccCCCCceEEEECCCcccCCHHHHHHHHhccCC
Confidence            589999999999999999999999999999888751                                            


Q ss_pred             ---------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 ---------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ---------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                                     ++|||||+|.++++|.+|| .|||..+.|++|.+-
T Consensus       238 v~~v~i~~~~~~tg~~~g~afV~F~~~~~A~~A~-~l~g~~~~g~~i~V~  286 (292)
T 2ghp_A          238 IEKINIPAGQKEHSFNNCCAFMVFENKDSAERAL-QMNRSLLGNREISVS  286 (292)
T ss_dssp             EEEEECCSCCC---CCCEEEEEEESSHHHHHHHG-GGTTEEETTEEEEEE
T ss_pred             eeEEEEEecCCcCCCCceEEEEEeCCHHHHHHHH-HhcCCEECCcEEEEE
Confidence                           2689999999999999999 999999999999643

>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=99.59  E-value=3.1e-15  Score=101.64  Aligned_cols=73  Identities=25%  Similarity=0.378  Sum_probs=64.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc-------------------------------------------c
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM-------------------------------------------H   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~-------------------------------------------~   38 (89)
                      ++|||||+|.+.++|+.|+..+||..+.|+.|.|.+                                           +
T Consensus        57 ~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~~a~~~~~l~v~nl~~~~t~~~l~~~F~~~G~i~~v~i~~~~~g~~  136 (261)
T 3sde_A           57 DRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIRFATHGAALTVKNLSPVVSNELLEQAFSQFGPVEKAVVVVDDRGRA  136 (261)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECCCSSEEEEESCCTTCCHHHHHHHHGGGSCEEEEEEEEETTSCE
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCcEECCceeEeeecccCCcccccCCCCCCCHHHHHHHHHhcCCeEEEEeeeCCCCCc
Confidence            589999999999999999999999999999998863                                           5


Q ss_pred             cCeEEEEeCCHHHHHHHHHhc-CCceec---CeEEEEEee
Q psy4383          39 KGYAFIQFSNPHDARSACLGE-DGRTVL---GQTLVSYKL   74 (89)
Q Consensus        39 rG~afV~F~~~~~a~~Ai~~l-~g~~l~---gr~i~~~~~   74 (89)
                      +|||||+|.+.++|.+||..| +|..+.   +++|.+...
T Consensus       137 ~g~afV~f~~~~~A~~A~~~l~~~~~~~~~~~r~i~v~~~  176 (261)
T 3sde_A          137 TGKGFVEFAAKPPARKALERCGDGAFLLTTTPRPVIVEPM  176 (261)
T ss_dssp             EEEEEEEESSHHHHHHHHHHHHHSCEESSSSCCBCEEEEC
T ss_pred             CcEEEEEeCCHHHHHHHHHHhcCCeEEecCCCceEEEeec
Confidence            899999999999999999999 555555   888876555

>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=99.57  E-value=5.1e-15  Score=98.84  Aligned_cols=69  Identities=20%  Similarity=0.297  Sum_probs=62.8

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc---------------------------------------------
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM---------------------------------------------   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~---------------------------------------------   37 (89)
                      +|||||+|.+.++|+.|+..|+|..+.|+.|.|.+                                             
T Consensus        72 ~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (229)
T 2adc_A           72 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS  151 (229)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCSCCCCCCCCSSSSTTTTEEECTTCSSCCCCSTTSGGGTTCCCSC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEecCccccCccccccccccccccccCcccccCCccccccccCCCCC
Confidence            69999999999999999999999999888776630                                             


Q ss_pred             ------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceec-CeEEEE
Q psy4383          38 ------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLVS   71 (89)
Q Consensus        38 ------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~-gr~i~~   71 (89)
                                                          ++|||||+|.+.++|++||..|||..+. |++|.+
T Consensus       152 ~~l~V~nlp~~~t~~~l~~~f~~~G~~i~~v~i~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~~g~~l~v  222 (229)
T 2adc_A          152 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV  222 (229)
T ss_dssp             SEEEEECCCTTCCHHHHHHHHHTTSCCEEEEEECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEE
T ss_pred             CEEEEeCCCccCCHHHHHHHHHHcCCCeeEEEEEECCCcEEEEEECCHHHHHHHHHHHCCCccCCCCeEEE
Confidence                                                6799999999999999999999999999 999853

>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=99.57  E-value=8.1e-15  Score=92.79  Aligned_cols=73  Identities=21%  Similarity=0.232  Sum_probs=57.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCce------------------------------ecCeEeEEE---------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRT------------------------------VLGQTLGIS---------------   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~------------------------------l~g~~i~v~---------------   36 (89)
                      ++|||||+|.+.++|+.|+..+++..                              .....|.|.               
T Consensus        12 ~~G~~fV~f~~~~~A~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~nl~~~~~~~~l~~~F   91 (158)
T 2kn4_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDGEWTYDDATKTFTVTEGSHHHHHHMDVEGMTSLKVDNLTYRTSPDTLRRVF   91 (158)
T ss_dssp             CEEEEEEECSSHHHHHHHHHHHHHHHTCCCEEEEETTTTEEEEECCCCCSSCCCCCCBCCEEEEESCCTTCCHHHHHHHH
T ss_pred             ccchhHHHHHHHHhHHHHHHhhcccCCCCCcccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHHHHHHHH
Confidence            68999999999999999997765321                              011233332               


Q ss_pred             ------------------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 ------------------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ------------------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                                        .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        92 ~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a  147 (158)
T 2kn4_A           92 EKYGRVGDVYIPRDRYTKESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMA  147 (158)
T ss_dssp             HHHSCEEEEECCCCSSCTTSCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEE
T ss_pred             HhcCCeEEEEEeecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence                              16899999999999999999999999999999965443

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=99.54  E-value=5.4e-15  Score=96.02  Aligned_cols=69  Identities=20%  Similarity=0.297  Sum_probs=63.0

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc---------------------------------------------
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM---------------------------------------------   37 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~---------------------------------------------   37 (89)
                      +|||||+|.+.++|+.|+..|+|..+.|+.|.|.+                                             
T Consensus        41 ~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~  120 (198)
T 1qm9_A           41 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSKHQNVQLPREGQEDQGLTKDYGNSPLHRFKKPGSKNFQNIFPPS  120 (198)
T ss_dssp             SSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEECCCCSCCCSSSSSSSSSCEEESSCCCTTSSSSCCCCCCSCCCCCC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEecCCCcCCCCcCCccccccccccCCchhhccCccccccccCCCCc
Confidence            69999999999999999999999999998777730                                             


Q ss_pred             ------------------------------------ccCeEEEEeCCHHHHHHHHHhcCCceec-CeEEEE
Q psy4383          38 ------------------------------------HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLVS   71 (89)
Q Consensus        38 ------------------------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~-gr~i~~   71 (89)
                                                          ++|||||+|.+.++|++|+..|||..++ |++|.+
T Consensus       121 ~~l~v~nl~~~~~~~~l~~~f~~~G~~v~~v~i~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v  191 (198)
T 1qm9_A          121 ATLHLSNIPPSVSEEDLKVLFSSNGGVVKGFKFFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV  191 (198)
T ss_dssp             CEEEECCCCTTCCHHHHHHHHHHTTSCCCEEEESSTTSSCEEEECSSHHHHHHHHHHHTSSCCSSCCSCCE
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHHcCCCceEEEEEeCCCcEEEEEeCCHHHHHHHHHHhcCCccCCCCeEEE
Confidence                                                5799999999999999999999999999 998853

>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=99.50  E-value=1.3e-14  Score=91.40  Aligned_cols=70  Identities=26%  Similarity=0.317  Sum_probs=62.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEc-------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISM-------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~-------------------------------------------   37 (89)
                      .+|+++|+|.+.++|+.|+..| ||..+.| .+.+++                                           
T Consensus        12 l~G~~~ve~~~~~~A~~a~~~~~ng~~~~G-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~l~V~nl~~~~t~~~l   90 (150)
T 2i2y_A           12 LKGETTTEAVDAATAEKVFKQYANDNGVDG-EWTYDDATKTFTVTEGSHHHHHHMHRDSCPLDCKVYVGNLGNNGNKTEL   90 (150)
T ss_dssp             SCEEEEEECSSHHHHTTTHHHHHHHHTCCC-EEEEETTTTEEEEECSSSSCCCCSCSSSSTTSCEEEEESCCSCCSCHHH
T ss_pred             ccccceeeecCHHHHHHHHHHHhcCCCCCC-ceecccccCccccccccccccccccccCCCCCCEEEEeCCCCCCCHHHH
Confidence            4799999999999999999999 8888877 666641                                           


Q ss_pred             ------------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 ------------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ------------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                                        ++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        91 ~~~F~~~G~i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  143 (150)
T 2i2y_A           91 ERAFGYYGPLRSVWVARNPPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVE  143 (150)
T ss_dssp             HHHHHHHSCEEEEEECSSSCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEE
T ss_pred             HHHHHhhCCEEEEEEeeCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEE
Confidence                              48999999999999999999999999999999643

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

Probab=99.31  E-value=3.3e-12  Score=75.38  Aligned_cols=62  Identities=11%  Similarity=0.086  Sum_probs=48.3

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ...++....++.-.|.+..-   .+..+||||||+|.++++|++||+.|||.++.||+|++..+.
T Consensus        18 ~~te~~L~~lF~q~G~V~~~---~l~~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A~   79 (89)
T 2wbr_A           18 QIDGPTLRTLCMQHGPLVSF---HPYLNQGIALCKYTTREEANKAQMALNNCVLANTTIFAESPS   79 (89)
T ss_dssp             TCCCHHHHHHHHHHSCEEEE---EEETTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCC
T ss_pred             cCCHHHHHHHHHhhCCEEEE---EEcCCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEECC
Confidence            34445555555556665553   334699999999999999999999999999999999876653

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

Probab=99.16  E-value=7.1e-12  Score=76.73  Aligned_cols=48  Identities=19%  Similarity=0.242  Sum_probs=40.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCCC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPT   88 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~~   88 (89)
                      ++||+||+|.+.++|++|+.+|||++++||+|.   +.|+....|-+.+|.
T Consensus        54 ~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~---v~~~~~~~y~~~fp~  101 (114)
T 3s6e_A           54 AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMIT---AAYVPLPTYHNLFPD  101 (114)
T ss_dssp             TTCCEEEECSSHHHHHHHHHHHTTCEETTEECE---EEEECHHHHHHHCGG
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEE---EEEEcHHHHHHhCcc
Confidence            479999999999999999999999999999996   556666666555553

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

Probab=99.15  E-value=1.8e-10  Score=67.60  Aligned_cols=45  Identities=27%  Similarity=0.389  Sum_probs=40.1

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |....+.+.+|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        42 g~v~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   86 (99)
T 2cpd_A           42 GAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLA   86 (99)
T ss_dssp             TCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECC
T ss_pred             cceEEEEEeCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            666777889999999999999999999999999999999965444

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=99.14  E-value=4.5e-11  Score=71.92  Aligned_cols=42  Identities=26%  Similarity=0.471  Sum_probs=35.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceec
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRY   82 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~   82 (89)
                      ++||+||+|.+.++|++|+.+|||+.++||+|.   +.|++...|
T Consensus        58 ~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~---v~~~~~~~f   99 (105)
T 3v4m_A           58 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVV---TKYCDPDSY   99 (105)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECE---EEEECHHHH
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEE---EEEeCHHHH
Confidence            579999999999999999999999999999996   444444433

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

Probab=99.11  E-value=9.5e-11  Score=69.11  Aligned_cols=38  Identities=13%  Similarity=0.240  Sum_probs=35.3

Q ss_pred             CcceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           1 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         1 ~~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++||||||+|.+.++|+.|++.|||..+.|++|+|.+.
T Consensus        41 ~~kGfaFVey~~~~eA~~Ai~~Ln~~~l~gr~I~V~~A   78 (89)
T 2wbr_A           41 LNQGIALCKYTTREEANKAQMALNNCVLANTTIFAESP   78 (89)
T ss_dssp             TTTTEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECC
T ss_pred             CCCcEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEEC
Confidence            37999999999999999999999999999999988654

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

Probab=99.10  E-value=1.5e-10  Score=69.97  Aligned_cols=64  Identities=14%  Similarity=0.048  Sum_probs=47.5

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ..++....++.-.|.+..-+.+.-   ..++|||||+|++.++|++||+.|||..+.|++|.+....
T Consensus        18 ~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~   84 (110)
T 3s8s_A           18 VRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             CCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCHHHHHHHHHhcCCeeEEEEEECCCCCceeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            344555566656666554443332   2378999999999999999999999999999999765543

>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=99.10  E-value=1.3e-10  Score=68.92  Aligned_cols=60  Identities=17%  Similarity=0.238  Sum_probs=45.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .++....++.-.|.+..-+.+.-   ..++|||||+|.++++|++||+.|||..+.|++|.+.
T Consensus        32 te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~   94 (99)
T 4fxv_A           32 TQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVS   94 (99)
T ss_dssp             CHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CHHHHHHHHHhcCCEEEeEeeecCCCCcccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            34445555556666554444332   1378999999999999999999999999999999753

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

Probab=99.10  E-value=1.9e-10  Score=69.17  Aligned_cols=54  Identities=17%  Similarity=0.139  Sum_probs=41.1

Q ss_pred             HhhcCCceecCeEeEEE----cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          20 CLGEDGRTVLGQTLGIS----MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        20 i~~l~g~~l~g~~i~v~----~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ...-.|.+..-+.+...    .++|||||+|.++++|++|+.+|||++++||+|.+..
T Consensus        33 ~f~~~G~V~~v~i~~~~~~~~~~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~   90 (105)
T 2pe8_A           33 ECEKYGKVGKCVIFEIPGAPDDEAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACF   90 (105)
T ss_dssp             HGGGGSCEEEEEEEECSSCCTTTSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             HHHhcCCEEEEEEecCCCCCCCCcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEE
Confidence            33455655554443321    3589999999999999999999999999999996443

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

Probab=99.08  E-value=2.7e-10  Score=65.83  Aligned_cols=45  Identities=18%  Similarity=0.251  Sum_probs=38.5

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |....+.+.+|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        33 G~i~~v~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   77 (90)
T 2dnq_A           33 GKVLECDIIKNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEAS   77 (90)
T ss_dssp             SCEEEEEEETTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECS
T ss_pred             CCEEEEEEECCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEEC
Confidence            345556667999999999999999999999999999999965444

>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=99.07  E-value=3.3e-10  Score=66.75  Aligned_cols=44  Identities=30%  Similarity=0.564  Sum_probs=38.9

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .|....+.+++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        47 ~G~v~~v~i~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   90 (97)
T 2xnq_A           47 YGHIMQINIKNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILE   90 (97)
T ss_dssp             GSCEEEEEECSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEE
T ss_pred             cCCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            45566677789999999999999999999999999999999643

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=99.07  E-value=8.5e-10  Score=67.74  Aligned_cols=53  Identities=19%  Similarity=0.135  Sum_probs=41.6

Q ss_pred             hhcCCceecCeEeEEEc-------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          21 LGEDGRTVLGQTLGISM-------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        21 ~~l~g~~l~g~~i~v~~-------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ..-.|.+..-+.+....       ++||+||+|.+.++|++|+.+|||++++||+|.+..
T Consensus        46 f~k~G~V~~v~I~~~~~~~~~~~~~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~  105 (118)
T 3ue2_A           46 CGKFGAVNRVIIYQEKQGEEEDAEIIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV  105 (118)
T ss_dssp             HTTTSCEEEEEEEEEEESSSTTCEEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             HhccCCEeEEEEeecCCCcccCCcceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEE
Confidence            34566666555554432       469999999999999999999999999999996443

>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=99.07  E-value=8.6e-10  Score=62.97  Aligned_cols=61  Identities=25%  Similarity=0.388  Sum_probs=43.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE----cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS----MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~----~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|....-+.+...    .++|||||+|.+.++|++|+..|||..+.|++|.+...
T Consensus        18 ~~~l~~~F~~~G~i~~~~i~~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A           18 KDHIMEIFSTYGKIKMIDMPVERMHPHLSKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             HHHHHHHHHTTSCEEEEECCEETTEEEEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             HHHHHHHHHhCCCEEEEEEEeCCCCCCCCCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            34444445455544332222211    17999999999999999999999999999999975433

>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=99.07  E-value=1.8e-10  Score=69.25  Aligned_cols=38  Identities=21%  Similarity=0.166  Sum_probs=33.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.++++|++||..|||..+.|++|.+....
T Consensus        62 ~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a~   99 (111)
T 2cpi_A           62 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLGT   99 (111)
T ss_dssp             CCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEESCC
T ss_pred             CCeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            45899999999999999999999999999999765443

>1jmt_A Splicing factor U2AF 35 kDa subunit; RRM, RNA splicing, proline, PPII helix, peptide recognition, RNA binding protein; 2.20A {Homo sapiens} SCOP: d.58.7.3

Probab=99.06  E-value=2.5e-10  Score=68.48  Aligned_cols=34  Identities=24%  Similarity=0.400  Sum_probs=32.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.++++|++|+.+|||+.++||+|.+
T Consensus        67 ~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v  100 (104)
T 1jmt_A           67 LVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHA  100 (104)
T ss_dssp             SEEEEEEEESCHHHHHHHHHHHTTCEETTEECCE
T ss_pred             ccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEE
Confidence            5899999999999999999999999999999964

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

Probab=99.06  E-value=9.3e-11  Score=73.06  Aligned_cols=69  Identities=23%  Similarity=0.308  Sum_probs=34.6

Q ss_pred             eEEEEecCHHHHHHHHhhcCCceecCe----------------EeEEE--------------------------------
Q psy4383           5 YAFIQFSNPHDARSACLGEDGRTVLGQ----------------TLGIS--------------------------------   36 (89)
Q Consensus         5 f~fV~f~~~~~a~~Ai~~l~g~~l~g~----------------~i~v~--------------------------------   36 (89)
                      +.|++|++...+..|+..|+|....|+                .|.|.                                
T Consensus         6 ~~~~~~~~~~~~~~a~~~~~g~~~~g~~~~~~~~~~~~~~~~~~l~V~nLp~~~te~~L~~~F~~~G~i~~v~i~~~~~~   85 (135)
T 2lea_A            6 HHHHHSSGLVPRGSHMASMTGGQQMGRGSMSYGRPPPDVEGMTSLKVDNLTYRTSPDTLRRVFEKYGRVGDVYIPRDRYT   85 (135)
T ss_dssp             -----------------------------CCSCCSCSSGGGCCCEEEECCCSSCHHHHHHHHHGGGSCCSEEECCCCSSS
T ss_pred             cccccccCCCchhhhhhhccCCCCCCCCCCCcCCCCCCCCCCCEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCC
Confidence            457788888888888888887665554                23332                                


Q ss_pred             -cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          37 -MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        37 -~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                       .++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        86 g~~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~  123 (135)
T 2lea_A           86 KESRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQM  123 (135)
T ss_dssp             SSCCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEE
T ss_pred             CccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence             1589999999999999999999999999999996443

>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=99.05  E-value=5.7e-10  Score=64.68  Aligned_cols=59  Identities=22%  Similarity=0.317  Sum_probs=45.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCC-ceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDG-RTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g-~~l~gr~i~~~~~   74 (89)
                      .++....++.-.|..+....+   .++|||||+|.+.++|++||..||| ..+.|++|.+...
T Consensus        21 t~~~l~~~F~~~G~vv~~~~~---~~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a   80 (93)
T 2cqh_A           21 TADDLRQLFGDRKLPLAGQVL---LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   80 (93)
T ss_dssp             CHHHHHHHHHHTTCCCSSCEE---EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             CHHHHHHHHHHcCCceEEEEE---cCCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEc
Confidence            344445555566664444333   4799999999999999999999999 9999999975544

>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=99.04  E-value=3.3e-10  Score=68.55  Aligned_cols=63  Identities=16%  Similarity=0.184  Sum_probs=46.4

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEEE-cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGIS-MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v~-~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ..++....++.-.|.+..-+.+.-. -+||||||+|.+.++|++||+.|||..+.|++|.+...
T Consensus        17 ~te~~L~~~F~~~G~v~~v~i~~d~~~~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a   80 (115)
T 4f25_A           17 IDNKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   80 (115)
T ss_dssp             CCHHHHHHHHGGGSCEEEEEEEEETTEEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCHHHHHHHHhccCCEEEEEEeecCCCCCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            3445555566556665544433221 25899999999999999999999999999999976544

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

Probab=99.04  E-value=7.5e-10  Score=64.67  Aligned_cols=62  Identities=18%  Similarity=0.264  Sum_probs=46.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEE------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGIS------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++.-.|.+..-+.+...      .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        18 t~~~l~~~F~~~G~i~~v~i~~~~~~~gt~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   85 (98)
T 2cpf_A           18 TEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS   85 (98)
T ss_dssp             CHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECS
T ss_pred             CHHHHHHHHHhcCCeEEEEEEecCCCCCCcCcccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEc
Confidence            344455555566765554444322      46799999999999999999999999999999965443

>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=99.04  E-value=8.2e-11  Score=68.19  Aligned_cols=61  Identities=13%  Similarity=0.109  Sum_probs=44.0

Q ss_pred             CHHHHHHHHhhcCC--ceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          12 NPHDARSACLGEDG--RTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g--~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ..++....++.-.|  ....-+.+.-.   .++|||||+|.+.++|++||+.|||..+.|++|.+.
T Consensus        13 ~t~~~l~~~F~~~G~~~v~~v~i~~~~~~g~~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~   78 (90)
T 3p5t_L           13 TTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVT   78 (90)
T ss_dssp             CCHHHHHHHHHTTTCCCCCCEEEEECTTTCCEEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEEC
T ss_pred             CCHHHHHHHHHHhCCCceEEEEEEecCCCCccCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEE
Confidence            34455556666667  44443333321   378999999999999999999999999999999643

>2dit_A HIV TAT specific factor 1 variant; structural genomics, RRM_1 domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=99.04  E-value=3.5e-10  Score=68.14  Aligned_cols=58  Identities=19%  Similarity=0.118  Sum_probs=41.9

Q ss_pred             HHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          16 ARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        16 a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ....++.-.|.+..- .|....++|||||+|.+.++|++||..|||..++||+|.+...
T Consensus        42 ~l~~~f~~~G~v~~v-~i~~~~~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a   99 (112)
T 2dit_A           42 DLRVECSKFGQIRKL-LLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAW   99 (112)
T ss_dssp             HHHHHGGGTSCCSEE-EEETTCTTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             HHHHHHHccCCEeEE-EEecCCCCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEe
Confidence            334444455544333 2211136899999999999999999999999999999975443

>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=99.03  E-value=8.9e-10  Score=64.52  Aligned_cols=36  Identities=17%  Similarity=0.064  Sum_probs=33.2

Q ss_pred             cCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        39 rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +|||||+|.++++|++||..|||..+.|++|.+...
T Consensus        52 rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   87 (96)
T 2dgx_A           52 QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLA   87 (96)
T ss_dssp             TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            999999999999999999999999999999975443

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

Probab=99.03  E-value=3.2e-09  Score=62.06  Aligned_cols=68  Identities=15%  Similarity=0.186  Sum_probs=47.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCC
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTP   87 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~   87 (89)
                      ++....++.-.|.+..   +.+..++|||||+|.+.++|++||..|||..+.|++|.   +.+....+-..+.|
T Consensus        27 ~~~l~~~F~~~G~i~~---v~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~---v~~a~~~~~~~~~~   94 (97)
T 1x5p_A           27 PTLLRGAFSPFGNIID---LSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLK---VNIARKQPMLDSGP   94 (97)
T ss_dssp             HHHHHHHHTTTSCEEE---EEEETTTTEEEEEESSHHHHHHHHHHTTTEEETTEEEE---EECCSSCCCCCSSC
T ss_pred             HHHHHHHHhhCCCEEE---EEecCCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEE---EEECCCCCCCCCCC
Confidence            4444555555554432   33346899999999999999999999999999999996   44444444334433

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

Probab=99.03  E-value=4.9e-10  Score=66.22  Aligned_cols=61  Identities=18%  Similarity=0.237  Sum_probs=44.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecC-eEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLG-QTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~g-r~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.-.   .++|||||+|.+.++|++||..|||..+.| ++|.+..+
T Consensus        26 ~~~L~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a   90 (100)
T 3ns6_A           26 KKALTSLFSKAGKVVNMEFPIDEATGKTKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTM   90 (100)
T ss_dssp             HHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEES
T ss_pred             HHHHHHHHHhcCCEeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEEC
Confidence            34444555556654433333221   278999999999999999999999999999 99976544

>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=99.03  E-value=8.8e-10  Score=63.51  Aligned_cols=39  Identities=21%  Similarity=0.189  Sum_probs=35.1

Q ss_pred             EEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          34 GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        34 ~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .+..++|||||+|.++++|++||..|||..+.|++|.+.
T Consensus        35 ~i~~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~   73 (88)
T 1wg1_A           35 YVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQ   73 (88)
T ss_dssp             EEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             EEeCCCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEE
Confidence            334789999999999999999999999999999999643

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

Probab=99.03  E-value=2.2e-10  Score=67.09  Aligned_cols=45  Identities=29%  Similarity=0.515  Sum_probs=39.1

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |....+.+++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        36 G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   80 (96)
T 2kvi_A           36 GHIMQINIKNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVS   80 (96)
T ss_dssp             CCCCEEEEETTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEE
T ss_pred             CCEEEEEEeCCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEc
Confidence            445566678999999999999999999999999999999975544

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

Probab=99.01  E-value=1e-09  Score=63.52  Aligned_cols=45  Identities=24%  Similarity=0.366  Sum_probs=38.6

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |....+.+.++||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        35 G~v~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   79 (92)
T 2dgt_A           35 GPVIECDIVKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLS   79 (92)
T ss_dssp             SCCCEEEECSSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEES
T ss_pred             CCeEEEEEECCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            445566778999999999999999999999999999999964443

>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=99.01  E-value=6.6e-10  Score=68.10  Aligned_cols=70  Identities=19%  Similarity=0.327  Sum_probs=50.1

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCcee-----cCeEEEEEeeeeecceeccCC
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTV-----LGQTLVSYKLQYYNGCRYVSP   85 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l-----~gr~i~~~~~~~~~~~~~~~~   85 (89)
                      ...++....++.-.|.+..   +.+...||||||+|.++++|++|+.+|||+.+     .|++|.   +.|-..-.|..|
T Consensus        38 ~~te~~L~~~F~~fG~v~~---v~i~~~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~---v~~a~~~p~~~~  111 (114)
T 2cq2_A           38 GVSRNQLLPVLEKCGLVDA---LLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLY---LNFVEKVQWSGP  111 (114)
T ss_dssp             TCCHHHHHHHHHHHSCEEE---EECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECE---EEEESCCCCSSC
T ss_pred             CCCHHHHHHHHHhcCCeEE---EEEeCCCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEE---EEecccCcccCC
Confidence            3455566666666665322   23334789999999999999999999999998     567764   566666666655


Q ss_pred             C
Q psy4383          86 T   86 (89)
Q Consensus        86 ~   86 (89)
                      .
T Consensus       112 ~  112 (114)
T 2cq2_A          112 S  112 (114)
T ss_dssp             C
T ss_pred             C
Confidence            3

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

Probab=99.01  E-value=8.6e-10  Score=64.82  Aligned_cols=37  Identities=32%  Similarity=0.455  Sum_probs=34.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        52 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   88 (101)
T 2fc9_A           52 SKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQ   88 (101)
T ss_dssp             BCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEEC
T ss_pred             EeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEc
Confidence            6899999999999999999999999999999975544

>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=99.01  E-value=5.5e-10  Score=66.57  Aligned_cols=60  Identities=22%  Similarity=0.198  Sum_probs=42.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+...-..++|||||+|.+.++|++||+.|||..+.|++|.+..
T Consensus        36 ~~~l~~~F~~~G~v~~~~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~   95 (109)
T 1x4a_A           36 TKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEF   95 (109)
T ss_dssp             HHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             HHHHHHHHHhcCCeEEEEEEECCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            344444444455443322222123689999999999999999999999999999996443

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

Probab=99.00  E-value=5.6e-10  Score=67.84  Aligned_cols=36  Identities=11%  Similarity=0.096  Sum_probs=33.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        66 ~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~  101 (111)
T 2jvr_A           66 FDGTGALEFPSEEILVEALERLNNIEFRGSVITVER  101 (111)
T ss_dssp             SSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEE
T ss_pred             CCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            799999999999999999999999999999997543

>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=99.00  E-value=1.9e-09  Score=63.50  Aligned_cols=38  Identities=29%  Similarity=0.437  Sum_probs=34.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+....
T Consensus        54 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   91 (103)
T 2cq3_A           54 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   91 (103)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            48999999999999999999999999999999755443

>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=99.00  E-value=1.2e-09  Score=64.52  Aligned_cols=46  Identities=24%  Similarity=0.348  Sum_probs=40.2

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .|.+..|.+.+|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        35 ~G~i~~v~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   80 (103)
T 2dgu_A           35 FGKLERVKKLKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFA   80 (103)
T ss_dssp             HSCEEEEEECSSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             cCCEEEEEEECCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEc
Confidence            3556667778999999999999999999999999999999976554

>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=99.00  E-value=1.5e-09  Score=61.65  Aligned_cols=35  Identities=29%  Similarity=0.541  Sum_probs=32.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++|++.|||..+.|++|.+.
T Consensus        48 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~   82 (85)
T 3mdf_A           48 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN   82 (85)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            68999999999999999999999999999999654

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

Probab=98.99  E-value=1.3e-09  Score=62.84  Aligned_cols=46  Identities=24%  Similarity=0.389  Sum_probs=39.9

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .|....+.+.+|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        33 ~G~v~~~~~~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   78 (90)
T 2dnp_A           33 RGRVIECDVVKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELS   78 (90)
T ss_dssp             HSCEEEEEECSSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCCEEEEEEECCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEC
Confidence            4556677778999999999999999999999999999999965443

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

Probab=98.99  E-value=5.9e-10  Score=66.89  Aligned_cols=66  Identities=15%  Similarity=0.107  Sum_probs=48.1

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCce--ecCeEEEEEeeeeeccee
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRT--VLGQTLVSYKLQYYNGCR   81 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~--l~gr~i~~~~~~~~~~~~   81 (89)
                      +...++....++.-.|.+..-+   +-.+||||||+|++.++|++|+..|||..  +.||+|.   ++|++..+
T Consensus        31 ~~~te~~L~~lF~~fG~V~~v~---i~~~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~---V~~S~~k~   98 (100)
T 3r27_A           31 DGVVEADLVEALQEFGPISYVV---VMPKKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAF---VNYSTSQK   98 (100)
T ss_dssp             TTCCHHHHHHHHGGGSCEEEEE---EETTTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEE---EEECSCSC
T ss_pred             CCCCHHHHHHHHhccCCEEEEE---EEcCCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEE---EEeccccc
Confidence            3344555566665566654332   23479999999999999999999999986  7899994   67766543

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

Probab=98.98  E-value=9e-10  Score=64.73  Aligned_cols=38  Identities=26%  Similarity=0.483  Sum_probs=34.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+....
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2cqb_A           53 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   90 (102)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCC
Confidence            68999999999999999999999999999999755443

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.98  E-value=1.4e-09  Score=63.53  Aligned_cols=60  Identities=15%  Similarity=0.090  Sum_probs=45.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+...+.+...   .++|||||+|.++++|++||+.|||..+.|++|.+..
T Consensus        29 ~~~l~~~F~~~G~v~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   91 (98)
T 2cqp_A           29 IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   91 (98)
T ss_dssp             HHHHHHHTTTSCCCTTTCEEEECSSSCEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             HHHHHHHHHHcCCccceEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            44445555556665555554442   2689999999999999999999999999999997543

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

Probab=98.98  E-value=1.5e-09  Score=62.97  Aligned_cols=39  Identities=31%  Similarity=0.419  Sum_probs=34.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY   76 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~   76 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+....-
T Consensus        46 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~~   84 (95)
T 2dnz_A           46 SKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHVTE   84 (95)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEESSC
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEccc
Confidence            689999999999999999999999999999997655533

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

Probab=98.98  E-value=1.3e-09  Score=65.69  Aligned_cols=67  Identities=13%  Similarity=0.010  Sum_probs=47.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCC
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSP   85 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~   85 (89)
                      .++....++.-.|.+..   +.+..++|||||+|.+.++|++||..|||..+.|++|.   +.+.....+.++
T Consensus        23 te~~L~~~F~~~G~i~~---v~i~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~---V~~a~~~~~~~~   89 (111)
T 1whx_A           23 LAAEIQETFSRFGSLGR---VLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLY---LEWAPIGVFGAA   89 (111)
T ss_dssp             CHHHHHHHHHTTSCEEE---EECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCE---EEEEETTTTCCC
T ss_pred             CHHHHHHHHHhcCCEEE---EEEeCCCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEE---EEECCCCccCCC
Confidence            34445555555555422   22224899999999999999999999999999999996   444444444443

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

Probab=98.97  E-value=4.1e-10  Score=63.92  Aligned_cols=57  Identities=21%  Similarity=0.272  Sum_probs=40.5

Q ss_pred             HHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCe-EEEE
Q psy4383          15 DARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQ-TLVS   71 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr-~i~~   71 (89)
                      +....++.-.|.+..-+.+.- ..++|||||+|.+.++|++||..|||..+.|+ +|.+
T Consensus        22 ~~l~~~F~~~G~i~~v~i~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           22 NVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             HHHHHHHHTTCCEEEEECCCBTTBCCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             HHHHHHHhhcCCeEEEEecCCCCcEeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            444455555555433222100 02589999999999999999999999999999 8853

>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}

Probab=98.96  E-value=8.1e-10  Score=65.45  Aligned_cols=38  Identities=24%  Similarity=0.442  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+
T Consensus        60 ~kG~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~Ak   97 (99)
T 4fxv_A           60 SLGYGFVNYVTAKDAERAINTLNGLRLQSKTIKVSYAR   97 (99)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccccEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            57999999999999999999999999999999998654

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=98.96  E-value=9.5e-10  Score=63.80  Aligned_cols=59  Identities=15%  Similarity=0.099  Sum_probs=44.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+...   .++|||||+|.++++|++||+.|||..+.|++|.+.
T Consensus        29 ~~~l~~~F~~~G~i~~~~~~~~~~~g~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~   90 (95)
T 2ek1_A           29 IDEILDFFYGYQVIPGSVCLKYNEKGMPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLS   90 (95)
T ss_dssp             HHHHHHHTTTSCBCTTCCEEEECTTSCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHHHHHHHhcCCccceEEEEeCCCCCEeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEE
Confidence            34444455555655544444432   368999999999999999999999999999999654

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=98.96  E-value=2.8e-09  Score=60.27  Aligned_cols=59  Identities=19%  Similarity=0.317  Sum_probs=41.9

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.....+.+.-   ..++|||||+|.+.++|++|+..|||..+.|++|.+.
T Consensus        15 ~~~l~~~f~~~G~i~~~~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~   76 (83)
T 3md1_A           15 DETLRNAFKDFPSYLSGHVMWDMQTGSSRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRIN   76 (83)
T ss_dssp             HHHHHHHHTTSTTEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHHHHHHHhcCCeeEEEEEEcCCCCCccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEE
Confidence            3334444444554433322211   1258999999999999999999999999999999654

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

Probab=98.96  E-value=1.1e-09  Score=64.35  Aligned_cols=37  Identities=22%  Similarity=0.375  Sum_probs=33.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..|.|++|.+...
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   89 (102)
T 2fc8_A           53 SKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWA   89 (102)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEe
Confidence            5799999999999999999999999999999975544

>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=98.96  E-value=7.1e-10  Score=66.26  Aligned_cols=45  Identities=53%  Similarity=0.834  Sum_probs=38.2

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |....|.+++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        53 G~v~~v~i~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   97 (110)
T 1wf1_A           53 GRVAGCSVHKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMA   97 (110)
T ss_dssp             SCCSEEEEETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEES
T ss_pred             CCeEEEEEeCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEC
Confidence            344455569999999999999999999999999999999965443

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

Probab=98.95  E-value=4.9e-10  Score=69.52  Aligned_cols=54  Identities=20%  Similarity=0.144  Sum_probs=40.0

Q ss_pred             HHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          19 ACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        19 Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .++.-.|.++.-....-..++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        52 ~~F~~~G~I~~v~i~~~~~~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~  105 (127)
T 2a3j_A           52 ALASSQGDILDIVVDLSDDNSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVIT  105 (127)
T ss_dssp             HHHHHHSCEEEEEECCCCSSCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEE
T ss_pred             HHhccCCCeEEEEeccCCCcCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEE
Confidence            345555655432111112478999999999999999999999999999999644

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

Probab=98.95  E-value=2.7e-09  Score=62.35  Aligned_cols=38  Identities=32%  Similarity=0.464  Sum_probs=34.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+....
T Consensus        49 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (99)
T 1whw_A           49 PKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPST   86 (99)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECC
T ss_pred             cCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            67999999999999999999999999999999765543

>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=98.95  E-value=1.5e-09  Score=63.65  Aligned_cols=56  Identities=20%  Similarity=0.228  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          15 DARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +....++.-.|.+   ..+.+..++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        30 ~~l~~~F~~~G~i---~~v~~~~~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~   85 (99)
T 2cpj_A           30 EEMRKLFEKYGKA---GEVFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRF   85 (99)
T ss_dssp             HHHHHHTSTTCCC---SEEEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEE
T ss_pred             HHHHHHHhhcCCe---EEEEEecCCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEE
Confidence            3344444444543   2344445789999999999999999999999999999996433

>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=98.94  E-value=3.6e-09  Score=63.10  Aligned_cols=59  Identities=12%  Similarity=0.066  Sum_probs=43.6

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEEEccc-CeEEEEeCCHHHHHHHHHhcCCceecC-----eEEEEEeee
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGISMHK-GYAFIQFSNPHDARSACLGEDGRTVLG-----QTLVSYKLQ   75 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v~~~r-G~afV~F~~~~~a~~Ai~~l~g~~l~g-----r~i~~~~~~   75 (89)
                      ..++....++.-.|.     +..|.+.+ |||||+|.+.++|++||+.|||..+.|     ++|.+....
T Consensus        27 ~t~~~l~~~F~~~G~-----i~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~a~   91 (108)
T 1x4c_A           27 GSWQDLKDHMREAGD-----VCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKVDG   91 (108)
T ss_dssp             CCHHHHHHHHGGGSC-----EEEEEEETTTEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEESS
T ss_pred             CCHHHHHHHHHhcCC-----EeEEEEecCCEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEeCC
Confidence            334444455544443     44444444 999999999999999999999999999     999766553

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

Probab=98.94  E-value=6.7e-10  Score=66.24  Aligned_cols=40  Identities=23%  Similarity=0.322  Sum_probs=34.8

Q ss_pred             eEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          31 QTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        31 ~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +++.|  ..|+|||+|.+.++|++|+++|||..+.||+|++.
T Consensus        40 ~Vl~V--tgG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~   79 (96)
T 2diu_A           40 KVLSI--TGCSAILRFINQDSAERAQKRMENEDVFGNRIIVS   79 (96)
T ss_dssp             CEEEC--CTTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             eeEEE--ecCEEEEEECCHHHHHHHHHHhcCCccCCceEEEE
Confidence            45555  45999999999999999999999999999999643

>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=98.94  E-value=3.8e-09  Score=62.89  Aligned_cols=37  Identities=27%  Similarity=0.424  Sum_probs=33.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        67 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  103 (110)
T 1oo0_B           67 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  103 (110)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEc
Confidence            5799999999999999999999999999999975443

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

Probab=98.94  E-value=1.8e-09  Score=68.89  Aligned_cols=63  Identities=13%  Similarity=0.061  Sum_probs=46.4

Q ss_pred             CHHHHHHHHhhcCC--ceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          12 NPHDARSACLGEDG--RTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g--~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ..++....++.-.|  .+...+.+..   ..++|||||+|.+.++|++||..|||..|.|++|.+...
T Consensus        67 ~te~~L~~~F~~~G~i~v~~v~i~~d~~tg~skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a  134 (156)
T 3n9u_C           67 TTDQQLIQVIRSIGVYDVVELKFAENRANGQSKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA  134 (156)
T ss_dssp             CCHHHHHHHHHHTTCCCEEEEEEEECTTTCCEEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             CCHHHHHHHHHHHCCccEEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEc
Confidence            33444555555566  4444433322   136899999999999999999999999999999976654

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

Probab=98.94  E-value=1.3e-09  Score=65.35  Aligned_cols=40  Identities=23%  Similarity=0.405  Sum_probs=34.9

Q ss_pred             EeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          32 TLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        32 ~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ...+.+.+|||||+|.+.++|++|+..|||..+.|++|.+
T Consensus        58 i~~v~i~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   97 (108)
T 2jvo_A           58 MKEVKILNGFAFVEFEEAESAAKAIEEVHGKSFANQPLEV   97 (108)
T ss_dssp             CCEEEEETTEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             EEEEEEECCEEEEEECCHHHHHHHHHHcCCCEECCeEEEE
Confidence            3444445999999999999999999999999999999964

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=98.94  E-value=3.1e-09  Score=60.55  Aligned_cols=36  Identities=31%  Similarity=0.441  Sum_probs=33.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++|+..|||..+.|++|.+..
T Consensus        47 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   82 (87)
T 3bs9_A           47 SKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNW   82 (87)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEe
Confidence            579999999999999999999999999999996543

>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=98.93  E-value=1.6e-09  Score=65.04  Aligned_cols=71  Identities=17%  Similarity=0.178  Sum_probs=46.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCC
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTP   87 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~   87 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||..|||..+.|++|.+   .+....+--+|.|
T Consensus        39 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V---~~a~~~~~~~~~~  112 (115)
T 2cpz_A           39 DQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKV---QLKRSKNDSKSGP  112 (115)
T ss_dssp             HHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEE---ECCCCSCCCCCCC
T ss_pred             HHHHHHHHHhcCCeEEEEEEECCCCCCcCccEEEEECCHHHHHHHHHHcCCCEECCEEEEE---EEcCCCCcCCCCC
Confidence            3444444445554433332221   136799999999999999999999999999999964   4444333334443

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

Probab=98.93  E-value=4.4e-09  Score=61.92  Aligned_cols=36  Identities=33%  Similarity=0.323  Sum_probs=33.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        56 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   91 (103)
T 2cq0_A           56 SKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEW   91 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             eeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEE
Confidence            578999999999999999999999999999996443

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

Probab=98.93  E-value=3.6e-09  Score=61.18  Aligned_cols=35  Identities=23%  Similarity=0.435  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|++||+.|||..+.|++|.+.
T Consensus        57 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   91 (94)
T 2e5h_A           57 SKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKAS   91 (94)
T ss_dssp             CTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEE
Confidence            57999999999999999999999999999999754

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

Probab=98.93  E-value=1.7e-09  Score=62.56  Aligned_cols=58  Identities=19%  Similarity=0.236  Sum_probs=42.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||..|||..+.|++|.+
T Consensus        29 ~~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v   89 (95)
T 2cqc_A           29 ERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   89 (95)
T ss_dssp             HHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             HHHHHHHHHhcCCeeEEEEEEcCCCCCcccEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            3444455555565443332221   136899999999999999999999999999999964

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

Probab=98.93  E-value=1.4e-09  Score=62.73  Aligned_cols=36  Identities=22%  Similarity=0.443  Sum_probs=33.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||. |||..+.|+.|.+...
T Consensus        49 ~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a   84 (91)
T 2dgw_A           49 KTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFRE   84 (91)
T ss_dssp             EEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEE
T ss_pred             CceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEEC
Confidence            58999999999999999999 9999999999976554

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

Probab=98.92  E-value=9.9e-10  Score=64.93  Aligned_cols=36  Identities=25%  Similarity=0.316  Sum_probs=32.5

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCc----eecCeEEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGR----TVLGQTLVSY   72 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~----~l~gr~i~~~   72 (89)
                      .+||||||+|.++++|++||+.|||.    .++||+|.+.
T Consensus        51 ~srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V~   90 (95)
T 2lkz_A           51 QNRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVD   90 (95)
T ss_dssp             SCSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEEE
T ss_pred             CCceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEEE
Confidence            47999999999999999999999997    5999999644

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

Probab=98.92  E-value=4.2e-09  Score=62.08  Aligned_cols=37  Identities=19%  Similarity=0.344  Sum_probs=33.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.+.++|++|| .|||..+.|++|.+....
T Consensus        55 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   91 (103)
T 2dng_A           55 FKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAE   91 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECC
T ss_pred             cceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEec
Confidence            5899999999999999999 899999999999765443

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

Probab=98.92  E-value=3.2e-09  Score=61.86  Aligned_cols=35  Identities=31%  Similarity=0.412  Sum_probs=32.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||+.|||..+.|+.|.+.
T Consensus        43 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   77 (96)
T 2x1f_A           43 SKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCG   77 (96)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEE
Confidence            58999999999999999999999999999999643

>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=98.92  E-value=1.8e-09  Score=64.69  Aligned_cols=48  Identities=29%  Similarity=0.350  Sum_probs=37.9

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCC
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTP   87 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~   87 (89)
                      .++|||||+|.+.++|++||..|||..+.|++|.+   .+....+=-+|+|
T Consensus        65 ~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v---~~a~~~~~~~~~~  112 (115)
T 2cpx_A           65 RMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI---EFGKNKKQRSSGP  112 (115)
T ss_dssp             SSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE---EECCCCSCCCCCC
T ss_pred             ccceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEE---EEccCCCCCCCCC
Confidence            46899999999999999999999999999999964   4443333334444

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

Probab=98.91  E-value=9e-10  Score=66.58  Aligned_cols=58  Identities=14%  Similarity=-0.039  Sum_probs=42.8

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcC--CceecCeEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGED--GRTVLGQTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~--g~~l~gr~i~~~~   73 (89)
                      .++....++.-.|.+..-+.   -..||||||+|++.++|++||..|+  +..+.|++|.+..
T Consensus        29 te~dL~~lF~~fG~V~~v~i---~~~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~   88 (105)
T 1sjq_A           29 TEGEVISLGLPFGKVTNLLM---LKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQF   88 (105)
T ss_dssp             CHHHHHHHHHHHCCEEEEEE---ETTTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCC
T ss_pred             CHHHHHHHHHhcCCEEEEEE---EcCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEE
Confidence            44555566656666544332   2468999999999999999999886  4799999996433

>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=98.90  E-value=3.3e-09  Score=60.46  Aligned_cols=37  Identities=30%  Similarity=0.459  Sum_probs=33.1

Q ss_pred             EEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        35 v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +..++|||||+|.+.++|++|+ .|||..+.|++|.+.
T Consensus        49 ~~~~kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~   85 (87)
T 2hzc_A           49 INQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIR   85 (87)
T ss_dssp             ECSSSSEEEEEESSHHHHHHHG-GGTTCEETTEECEEE
T ss_pred             ecCCCcEEEEEcCCHHHHHHHH-hcCCCEECCeEEEEe
Confidence            3346999999999999999999 999999999999753

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

Probab=98.90  E-value=2.5e-09  Score=62.09  Aligned_cols=61  Identities=16%  Similarity=0.198  Sum_probs=44.5

Q ss_pred             HHHHHHHhhcCCceecC-eEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLG-QTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g-~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..- +.+.-   ..++|||||+|.++++|++||..|||..+.|++|.+...
T Consensus        19 ~~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A           19 EKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             HHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             HHHHHHHHHhcCCeeEEEEEEEcCCCCCcCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            44445555556665444 33321   136899999999999999999999999999999975443

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

Probab=98.90  E-value=2.7e-09  Score=63.81  Aligned_cols=37  Identities=27%  Similarity=0.333  Sum_probs=33.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        64 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  100 (113)
T 2cpe_A           64 PKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLA  100 (113)
T ss_dssp             BCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECS
T ss_pred             eeeEEEEEECCHHHHHHHHHHcCCCccCCCEEEEEEC
Confidence            5899999999999999999999999999999965443

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

Probab=98.90  E-value=2.1e-09  Score=63.12  Aligned_cols=38  Identities=26%  Similarity=0.558  Sum_probs=34.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.++++|++||..|||..+.|++|.+....
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   90 (102)
T 1x5s_A           53 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQAG   90 (102)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            68999999999999999999999999999999765543

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

Probab=98.90  E-value=2.3e-09  Score=65.14  Aligned_cols=39  Identities=10%  Similarity=0.112  Sum_probs=36.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.++
T Consensus        66 ~rGfaFV~F~~~e~A~~Ai~~lng~~l~Gr~i~V~~a~~  104 (111)
T 2jvr_A           66 FDGTGALEFPSEEILVEALERLNNIEFRGSVITVERDDN  104 (111)
T ss_dssp             SSCCEEEEESSHHHHHHHHHHTTTEEETTEEEEEEESCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECCC
Confidence            589999999999999999999999999999999987654

>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=98.90  E-value=3.5e-09  Score=63.50  Aligned_cols=64  Identities=17%  Similarity=0.152  Sum_probs=45.9

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCc--eecCeEEEEEeeeeecce
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGR--TVLGQTLVSYKLQYYNGC   80 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~--~l~gr~i~~~~~~~~~~~   80 (89)
                      ...++....++.-.|.+..   +.+...||||||+|+++++|++|+..|++.  .+.|++|.   ++|.+..
T Consensus        26 ~~te~~L~~~F~~fG~V~~---v~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~---V~~a~~~   91 (104)
T 1wex_A           26 SVVEADLVEALEKFGTICY---VMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAF---FNYSTSK   91 (104)
T ss_dssp             SCCHHHHHHHHTTTSCEEE---EEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE---EEECSSS
T ss_pred             CCCHHHHHHHHHhCCCEEE---EEEECCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEE---EEEccCc
Confidence            3345556666666676544   333347999999999999999999998765  59999996   4444443

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

Probab=98.89  E-value=1.8e-09  Score=65.13  Aligned_cols=38  Identities=18%  Similarity=0.308  Sum_probs=35.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        47 ~rG~aFV~f~~~~~A~~Ai~~lng~~~~gr~i~V~~a~   84 (110)
T 3s8s_A           47 HLGLARVLFTSTRGAKETVKNLHLTSVMGNIIHAQLDI   84 (110)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            68999999999999999999999999999999998753

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

Probab=98.89  E-value=3.6e-09  Score=62.12  Aligned_cols=55  Identities=15%  Similarity=0.167  Sum_probs=41.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|.+.   .+.+..++|||||+|.+.++|++||..|||..+.|++|.+
T Consensus        41 ~~~l~~~f~~~G~i~---~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   95 (101)
T 2la4_A           41 EADLIPLFQNFGFIL---DFKHYPEKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRT   95 (101)
T ss_dssp             HHHHHHHHHTTSCCS---EEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECCC
T ss_pred             HHHHHHHHHhCCCEE---EEEEecCCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEE
Confidence            333444444555433   2333358999999999999999999999999999999964

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

Probab=98.89  E-value=1.8e-09  Score=63.29  Aligned_cols=36  Identities=28%  Similarity=0.327  Sum_probs=33.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||+.|||..+.|++|.+..
T Consensus        62 ~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~   97 (99)
T 2la6_A           62 LKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSF   97 (99)
T ss_dssp             EEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEe
Confidence            589999999999999999999999999999997543

>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=98.89  E-value=2.4e-09  Score=63.23  Aligned_cols=36  Identities=14%  Similarity=0.199  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++|| .|||..+.|++|.+...
T Consensus        56 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           56 LKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             BCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             cCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEc
Confidence            5899999999999999999 89999999999975544

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

Probab=98.89  E-value=1.7e-09  Score=62.92  Aligned_cols=38  Identities=26%  Similarity=0.434  Sum_probs=34.0

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        51 ~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   88 (96)
T 1fjc_A           51 KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             EEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             CcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            36899999999999999999999999999999965443

>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=98.89  E-value=1.8e-09  Score=64.77  Aligned_cols=61  Identities=18%  Similarity=0.042  Sum_probs=43.9

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCc--eecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGR--TVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~--~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+..-+.+   ..+|||||+|+++++|++||..||+.  .+.||+|.+...
T Consensus        27 ~~te~dL~~lF~~fG~V~~v~i~---~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a   89 (102)
T 1x4d_A           27 KNLRYQLLQLVEPFGVISNHLIL---NKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLS   89 (102)
T ss_dssp             SSHHHHHHTTTGGGSCEEEEEEC---SSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEE
T ss_pred             cCCHHHHHHHHHhcCCEEEEEEE---cCCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEEC
Confidence            34455555666555654443322   36799999999999999999999865  599999965444

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

Probab=98.88  E-value=2.3e-09  Score=63.73  Aligned_cols=61  Identities=20%  Similarity=0.249  Sum_probs=42.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCe-EEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQ-TLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr-~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.- ..++|||||+|.+.++|++||..|||..+.|+ +|.+..+
T Consensus        35 ~~~l~~~F~~~G~v~~v~i~~~~g~~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~a   97 (105)
T 2nlw_A           35 KNVIHKIFSKFGKITNDFYPEEDGKTKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNLF   97 (105)
T ss_dssp             HHHHHHHHGGGSCEEEEECCCBTTBSCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEECS
T ss_pred             HHHHHHHHhcCCCEEEEEeeCCCCCeeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEEc
Confidence            3444555555554333222200 02589999999999999999999999999998 9976543

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

Probab=98.88  E-value=3e-09  Score=64.70  Aligned_cols=35  Identities=23%  Similarity=0.180  Sum_probs=32.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        75 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  109 (124)
T 2kt5_A           75 SLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQ  109 (124)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEE
T ss_pred             EeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEE
Confidence            68999999999999999999999999999999643

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

Probab=98.88  E-value=2e-09  Score=62.69  Aligned_cols=35  Identities=29%  Similarity=0.506  Sum_probs=31.1

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcC-CceecCeEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGED-GRTVLGQTLVS   71 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~-g~~l~gr~i~~   71 (89)
                      .+||||||+|.++++|++||+.|+ +..+.|++|.+
T Consensus        42 ~~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V   77 (91)
T 2lxi_A           42 QSRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSM   77 (91)
T ss_dssp             CCSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEE
T ss_pred             CcCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEE
Confidence            478999999999999999999884 56899999964

>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=98.88  E-value=7.2e-09  Score=58.85  Aligned_cols=53  Identities=21%  Similarity=0.182  Sum_probs=40.1

Q ss_pred             HHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhc-CCceecCeEEEEE
Q psy4383          17 RSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLVSY   72 (89)
Q Consensus        17 ~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l-~g~~l~gr~i~~~   72 (89)
                      ...++.-.|.+..   +.+..++|||||+|.+.++|++|+..| ||..+.|++|.+.
T Consensus        29 l~~~f~~~G~i~~---~~~~~~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~   82 (85)
T 2ytc_A           29 LRNHFYQFGEIRT---ITVVQRQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVK   82 (85)
T ss_dssp             HHHHHHTTSCEEE---EEEEGGGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEE
T ss_pred             HHHHHHhCCCEeE---EEEECCCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEE
Confidence            3444444554332   333347899999999999999999999 9999999999653

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.88  E-value=1.4e-09  Score=64.21  Aligned_cols=37  Identities=30%  Similarity=0.423  Sum_probs=33.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        56 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   92 (105)
T 1x5u_A           56 HQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   92 (105)
T ss_dssp             BCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEC
Confidence            6799999999999999999999999999999976544

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

Probab=98.88  E-value=1.2e-09  Score=64.32  Aligned_cols=37  Identities=30%  Similarity=0.493  Sum_probs=33.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2dnm_A           54 PRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVA   90 (103)
T ss_dssp             BCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEEC
T ss_pred             CCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEC
Confidence            6899999999999999999999999999999964433

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

Probab=98.87  E-value=3.1e-09  Score=64.25  Aligned_cols=36  Identities=14%  Similarity=0.259  Sum_probs=33.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++|| .|||..++||.|.+...
T Consensus        55 ~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a   90 (109)
T 2dnn_A           55 NNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPA   90 (109)
T ss_dssp             CCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEEC
T ss_pred             CCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEEC
Confidence            6899999999999999999 69999999999987655

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

Probab=98.87  E-value=3.9e-09  Score=61.70  Aligned_cols=59  Identities=19%  Similarity=0.092  Sum_probs=44.4

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      .++....++.-.|.+. - .+....++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        32 t~~~l~~~F~~~G~v~-~-~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   90 (97)
T 2e5j_A           32 RVSDLKRALRELGSVP-L-RLTWQGPRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVAL   90 (97)
T ss_dssp             CHHHHHHHHHHTTCCC-S-EEEEETTTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEE
T ss_pred             cHHHHHHHHHhcCCEE-E-EEEcCCCCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEE
Confidence            3444455555566543 2 233346899999999999999999999999999999996543

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

Probab=98.87  E-value=3e-09  Score=62.25  Aligned_cols=36  Identities=17%  Similarity=0.381  Sum_probs=32.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||. |||..+.|++|.+...
T Consensus        51 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A           51 PRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             CCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEEC
T ss_pred             CCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEEC
Confidence            68999999999999999999 9999999999965443

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

Probab=98.86  E-value=6.2e-10  Score=65.43  Aligned_cols=37  Identities=32%  Similarity=0.612  Sum_probs=34.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++|+..|||..+.|++|.+...
T Consensus        36 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   72 (101)
T 2hvz_A           36 PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELS   72 (101)
T ss_dssp             SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEES
T ss_pred             CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEc
Confidence            6999999999999999999999999999999976554

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.86  E-value=8.9e-09  Score=64.35  Aligned_cols=60  Identities=22%  Similarity=0.312  Sum_probs=47.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCe-EEEEeCCHHHHHHHHHhcCCceecC--eEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGY-AFIQFSNPHDARSACLGEDGRTVLG--QTLVS   71 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~-afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~   71 (89)
                      |...++....++.-.|.+..-+.+.  ..+|| |||+|.+.++|++|+++|||..|.|  +.|++
T Consensus        38 ~~vte~~L~~lFs~yG~V~~V~i~~--~~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI  100 (130)
T 3zzy_A           38 YPVTLDVLHQIFSKFGTVLKIITFT--KNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRI  100 (130)
T ss_dssp             SCCCHHHHHHHHTTSSCEEEEEEEE--ETTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEE
T ss_pred             CCCCHHHHHHHHhCcCCEEEEEEEc--CCCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEE
Confidence            4556677778887788766554432  35788 9999999999999999999999998  77754

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=98.86  E-value=6e-09  Score=61.62  Aligned_cols=35  Identities=23%  Similarity=0.206  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        69 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~  103 (107)
T 3ulh_A           69 SLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQ  103 (107)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEE
Confidence            58999999999999999999999999999999754

>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=98.86  E-value=2.3e-08  Score=59.62  Aligned_cols=57  Identities=12%  Similarity=-0.087  Sum_probs=41.7

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhc--CCceecCeEEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLVSY   72 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l--~g~~l~gr~i~~~   72 (89)
                      .++....++.-.|.+..-   .+...||||||+|++.++|++|+..|  ++..+.|++|.+.
T Consensus        28 te~~L~~~F~~fG~v~~v---~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~   86 (101)
T 2cq1_A           28 TETEVIALGLPFGKVTNI---LMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQ   86 (101)
T ss_dssp             CHHHHHHTTTTTSCEEEE---EEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEE
T ss_pred             CHHHHHHHHHhcCCEEEE---EEECCCCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEE
Confidence            344455555556654432   33346899999999999999999977  5788999999643

>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=98.86  E-value=8.2e-09  Score=59.95  Aligned_cols=35  Identities=20%  Similarity=0.260  Sum_probs=32.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++|+..|||..+.|++|.+.
T Consensus        50 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~   84 (97)
T 1nu4_A           50 MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQ   84 (97)
T ss_dssp             HTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             cCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            58999999999999999999999999999999643

>3mdf_A Peptidyl-prolyl CIS-trans isomerase E; RRM domain, PHD finger, CYP33, MLL, RNA binding protein, ISO mRNA processing, mRNA splicing, nucleus; 1.85A {Homo sapiens} SCOP: d.58.7.1 PDB: 2kyx_A 3lpy_A*

Probab=98.85  E-value=3.7e-09  Score=60.01  Aligned_cols=38  Identities=29%  Similarity=0.608  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.|
T Consensus        48 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~ak   85 (85)
T 3mdf_A           48 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   85 (85)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            58999999999999999999999999999999998643

>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=98.85  E-value=2.7e-09  Score=63.86  Aligned_cols=36  Identities=22%  Similarity=0.394  Sum_probs=34.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||+.+.||+|.|.+
T Consensus        67 ~~G~~fV~f~~~~~A~~A~~~lng~~~~Gr~i~v~~  102 (104)
T 1jmt_A           67 LVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAEL  102 (104)
T ss_dssp             SEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEE
T ss_pred             ccEEEEEEECCHHHHHHHHHHHCCCEECCEEEEEEE
Confidence            589999999999999999999999999999998865

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

Probab=98.85  E-value=4e-09  Score=63.22  Aligned_cols=61  Identities=23%  Similarity=0.275  Sum_probs=42.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.++++|++||..|||..+.|+.|.+...
T Consensus        29 ~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (115)
T 2dgo_A           29 TEDIKAAFAPFGRISDARVVKDMATGKSKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   92 (115)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             HHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            3334444444555433322221   125799999999999999999999999999999976554

>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=98.85  E-value=3.8e-09  Score=64.02  Aligned_cols=37  Identities=32%  Similarity=0.670  Sum_probs=33.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||+.|||..+.|++|.+...
T Consensus        47 ~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   83 (116)
T 2fy1_A           47 SRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQA   83 (116)
T ss_dssp             CCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEEC
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            5699999999999999999999999999999976554

>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=98.85  E-value=1.4e-08  Score=60.50  Aligned_cols=39  Identities=31%  Similarity=0.556  Sum_probs=34.3

Q ss_pred             EEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        35 v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +...+|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        57 i~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   95 (109)
T 1x4g_A           57 VFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYW   95 (109)
T ss_dssp             EETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             EeCCCCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEe
Confidence            334589999999999999999999999999999996443

>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=98.85  E-value=8.7e-10  Score=63.46  Aligned_cols=36  Identities=19%  Similarity=0.378  Sum_probs=32.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.+ |++|+..|||..+.|++|.+...
T Consensus        42 ~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a   77 (90)
T 2ki2_A           42 PKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEA   77 (90)
T ss_dssp             CCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC
T ss_pred             cceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEc
Confidence            5899999999999 99999999999999999965443

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.84  E-value=9.5e-09  Score=60.44  Aligned_cols=37  Identities=27%  Similarity=0.480  Sum_probs=33.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        54 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2cqi_A           54 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWA   90 (103)
T ss_dssp             SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEEC
Confidence            5799999999999999999999999999999975443

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=98.84  E-value=3.2e-09  Score=61.52  Aligned_cols=35  Identities=20%  Similarity=0.357  Sum_probs=32.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        56 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~   90 (95)
T 2ywk_A           56 PKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVS   90 (95)
T ss_dssp             EEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEE
Confidence            57999999999999999999999999999999643

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

Probab=98.84  E-value=7.4e-09  Score=60.94  Aligned_cols=37  Identities=32%  Similarity=0.508  Sum_probs=33.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a   90 (103)
T 2d9p_A           54 SKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALA   90 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             cCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEe
Confidence            5899999999999999999999999999999965443

>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=98.84  E-value=3.8e-09  Score=63.80  Aligned_cols=37  Identities=22%  Similarity=0.356  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      +||||||+|.+.++|+.|+..|+|..+.|+.|.|.+.
T Consensus        44 ~kg~afV~f~~~~~A~~Ai~~l~~~~~~g~~i~V~~a   80 (115)
T 4f25_A           44 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   80 (115)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             CCceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            5899999999999999999999999999999999864

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

Probab=98.84  E-value=6.5e-09  Score=62.12  Aligned_cols=61  Identities=13%  Similarity=0.112  Sum_probs=42.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+..  ..++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        29 ~~~l~~~f~~~G~i~~~~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   91 (114)
T 2do0_A           29 WKKLKEVFSMAGVVVRADILEDKDGKSRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMD   91 (114)
T ss_dssp             HHHHHHHHTTTSCEEEEEEEECTTCSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             HHHHHHHHHhcCCeEEEEEEECCCCCeeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEc
Confidence            3334444445554433222211  125799999999999999999999999999999976544

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

Probab=98.84  E-value=3.7e-09  Score=63.30  Aligned_cols=35  Identities=31%  Similarity=0.478  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++|+..|||..+.|++|.+.
T Consensus        68 ~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~  102 (109)
T 2err_A           68 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVN  102 (109)
T ss_dssp             CTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            58999999999999999999999999999999754

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

Probab=98.83  E-value=6.8e-09  Score=61.30  Aligned_cols=36  Identities=25%  Similarity=0.514  Sum_probs=33.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        64 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~   99 (106)
T 1p27_B           64 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   99 (106)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             eeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEe
Confidence            589999999999999999999999999999996543

>2cpi_A CCR4-NOT transcription complex subunit 4; RNA recognition motif, RRM, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.83  E-value=5.2e-09  Score=62.74  Aligned_cols=37  Identities=24%  Similarity=0.267  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        62 ~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a   98 (111)
T 2cpi_A           62 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKASLG   98 (111)
T ss_dssp             CCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEESC
T ss_pred             CCeEEEEEECcHHHHHHHHHHhCCCEECCEEEEEEec
Confidence            4699999999999999999999999999999999874

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

Probab=98.83  E-value=9.9e-09  Score=60.08  Aligned_cols=36  Identities=25%  Similarity=0.399  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        57 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   92 (100)
T 2do4_A           57 PKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAI   92 (100)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEE
T ss_pred             EEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            569999999999999999999999999999996543

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=98.83  E-value=6.6e-09  Score=62.52  Aligned_cols=35  Identities=29%  Similarity=0.398  Sum_probs=32.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||+.|||..+.|++|.+.
T Consensus        81 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~  115 (118)
T 2khc_A           81 SKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQ  115 (118)
T ss_dssp             CCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEE
T ss_pred             cCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            58999999999999999999999999999999653

>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=98.83  E-value=2.3e-09  Score=65.37  Aligned_cols=64  Identities=11%  Similarity=0.093  Sum_probs=46.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +...++....++.-.|.+.....+...   .++|||||+|.+.++|++||. |||..|.|+.|.+...
T Consensus        35 ~~~te~~l~~~F~~~G~v~~~~~~~~~~~g~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           35 FEAENKHVIDFFKKLDIVEDSIYIAYGPNGKATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             TTCCHHHHHHHSCSSCBCTTTCEEEECTTSSEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCCCHHHHHHHHHhcCCccceEEEEECCCCCCCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            333444455555556655444444432   368999999999999999999 9999999999976554

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.83  E-value=1.1e-08  Score=63.43  Aligned_cols=60  Identities=17%  Similarity=0.139  Sum_probs=48.6

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCe-EEEEeCCHHHHHHHHHhcCCceecC--eEEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGY-AFIQFSNPHDARSACLGEDGRTVLG--QTLVSY   72 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~-afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~~   72 (89)
                      |...++....++...|.+...+.+.   ..|| |||+|.+.++|++|+.+|||..|.|  ++|++.
T Consensus        35 ~~vt~~~L~~~Fs~yG~V~~v~i~~---~~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~   97 (124)
T 2e5i_A           35 YPITVDVLYTVCNPVGKVQRIVIFK---RNGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIE   97 (124)
T ss_dssp             SCCCHHHHHHHHTTTSCEEEEEEEE---SSSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEE
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEEe---CCCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEE
Confidence            5666778888888888876665432   2597 9999999999999999999999988  588654

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

Probab=98.83  E-value=4.1e-09  Score=64.01  Aligned_cols=37  Identities=19%  Similarity=0.301  Sum_probs=33.9

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.++++|++||. |||..++||.|.+...
T Consensus        59 ~~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a   95 (118)
T 2db1_A           59 RQSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKS   95 (118)
T ss_dssp             CEEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEE
T ss_pred             CCCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEEC
Confidence            368999999999999999999 9999999999987655

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

Probab=98.83  E-value=2.5e-09  Score=63.14  Aligned_cols=38  Identities=29%  Similarity=0.495  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc----eecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR----TVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~----~l~g~~i~v~~~r   39 (89)
                      +||||||+|.+.++|+.|+..|||.    .+.||+|.|++.+
T Consensus        52 srG~aFV~f~~~~~A~~Ai~~lng~~~~~~i~Gr~i~V~~Ak   93 (95)
T 2lkz_A           52 NRGFAFVQLSSAMDASQLLQILQSLHPPLKIDGKTIGVDFAK   93 (95)
T ss_dssp             CSSEEEEECSSSHHHHHHHHHHHSSSSCEEETTEEEEEEECC
T ss_pred             CceEeEEEECCHHHHHHHHHHhcCCCCCceECCEEEEEEEcc
Confidence            6899999999999999999999997    5899999998755

>2cqp_A RNA-binding protein 12; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: d.58.7.1

Probab=98.82  E-value=6.3e-09  Score=60.63  Aligned_cols=38  Identities=16%  Similarity=0.332  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        56 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   93 (98)
T 2cqp_A           56 PTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVLGS   93 (98)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcC
Confidence            57999999999999999999999999999999998754

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

Probab=98.82  E-value=5.7e-09  Score=62.66  Aligned_cols=37  Identities=19%  Similarity=0.259  Sum_probs=34.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||+.+.||+|.|.+.
T Consensus        55 ~~G~~FV~f~~~~~A~~Ai~~lnG~~~~Gr~i~v~~a   91 (105)
T 2pe8_A           55 EAVRIFLEFERVESAIKAVVDLNGRYFGGRVVKACFY   91 (105)
T ss_dssp             TSEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CcEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEEc
Confidence            5899999999999999999999999999999988753

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

Probab=98.82  E-value=9.3e-09  Score=63.18  Aligned_cols=35  Identities=29%  Similarity=0.541  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|++||..|||..+.|++|.+.
T Consensus       104 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~  138 (140)
T 2ku7_A          104 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVN  138 (140)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEE
T ss_pred             cCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            68999999999999999999999999999999753

>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=98.81  E-value=3e-09  Score=63.75  Aligned_cols=60  Identities=18%  Similarity=0.180  Sum_probs=43.0

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+.+.-..++|||||+|.+.++|++|+..|||..+.|+.|.+..
T Consensus        22 ~~~l~~~F~~~G~v~~v~i~~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~   81 (115)
T 3lqv_A           22 AEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLY   81 (115)
T ss_dssp             HHHHHHHHHTTSCEEEEEEECSTTTTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEE
T ss_pred             HHHHHHHHHhcCCeEEEEEeeCCCCCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEE
Confidence            333444554555544332222223689999999999999999999999999999996543

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

Probab=98.81  E-value=6.2e-09  Score=60.16  Aligned_cols=37  Identities=24%  Similarity=0.452  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        57 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   93 (94)
T 2e5h_A           57 SKGVAFILFLDKDSAQNCTRAINNKQLFGRVIKASIA   93 (94)
T ss_dssp             CTTCEEEEESCHHHHHHHHHHTTTEEETTEEEEEEEC
T ss_pred             cccEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEec
Confidence            5799999999999999999999999999999999864

>3md1_A Nuclear and cytoplasmic polyadenylated RNA-bindin PUB1; RRM, RBD, RNP, poly(U) binding, nucleus, RNA-binding, binding protein; 1.60A {Saccharomyces cerevisiae} SCOP: d.58.7.0

Probab=98.81  E-value=7e-09  Score=58.57  Aligned_cols=38  Identities=29%  Similarity=0.566  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        42 ~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   79 (83)
T 3md1_A           42 SRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWAA   79 (83)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccceEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEecC
Confidence            48999999999999999999999999999999998754

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

Probab=98.81  E-value=7.3e-09  Score=63.94  Aligned_cols=61  Identities=18%  Similarity=0.220  Sum_probs=43.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+...   .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        56 ~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a  119 (139)
T 1u6f_A           56 EVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             HHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             HHHHHHHHHhcCCeEEEEEEEcCCCCCcceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            33444444445554443333221   25899999999999999999999999999999975544

>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=98.81  E-value=6e-09  Score=68.81  Aligned_cols=60  Identities=12%  Similarity=0.051  Sum_probs=44.9

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++...|.+...+.+.  -++|||||+|.+.++|++||+.|||..+.|++|.+...
T Consensus        18 ~~~~L~~~F~~~G~v~~v~i~~--~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~s   77 (205)
T 3tyt_A           18 NCDRVFNVFCLYGNVEKVKFMK--SKPGAAMVEMADGYAVDRAITHLNNNFMFGQKMNVCVS   77 (205)
T ss_dssp             CHHHHHHHHTTTSCEEEEEECT--TSTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CHHHHHHHHHhcCCeEEEEEec--CCCCEEEEEECCHHHHHHHHHHhCCCEECCceEEEEEc
Confidence            3455566665666554333321  15799999999999999999999999999999976543

>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}

Probab=98.81  E-value=6.5e-09  Score=59.21  Aligned_cols=38  Identities=29%  Similarity=0.444  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        47 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   84 (87)
T 3bs9_A           47 SKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWAT   84 (87)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEecC
Confidence            57999999999999999999999999999999998643

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

Probab=98.81  E-value=3.2e-09  Score=65.79  Aligned_cols=38  Identities=24%  Similarity=0.371  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+.+
T Consensus        71 ~rG~aFV~F~~~~~A~~Ai~~lng~~l~gr~l~V~~a~  108 (127)
T 2a3j_A           71 NSGKAYIVFATQESAQAFVEAFQGYPFQGNPLVITFSE  108 (127)
T ss_dssp             SCCCEEEEESSHHHHHHHHHHSTTCCCTTSCCEEEECC
T ss_pred             cCCEEEEEECCHHHHHHHHHHHCCCEeCCCEEEEEEcc
Confidence            58999999999999999999999999999999998755

>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=98.81  E-value=3.9e-09  Score=63.23  Aligned_cols=59  Identities=27%  Similarity=0.256  Sum_probs=42.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.-.   .++|||||+|.+.++|++||+.|||..+.|++|.+.
T Consensus        40 e~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~  101 (108)
T 2jrs_A           40 EDMLRGIFEPFGRIESIQLMMDSETGRSKGYGFITFSDSECAKKALEQLNGFELAGRPMKVG  101 (108)
T ss_dssp             HHHHHHHHTTTSCEEEEEEEEETTTTEEEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEE
T ss_pred             HHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            44444555555654443333221   258999999999999999999999999999999643

>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=98.80  E-value=6.2e-09  Score=61.46  Aligned_cols=37  Identities=19%  Similarity=0.289  Sum_probs=33.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCcee---cCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTV---LGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l---~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+   .|++|.+...
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a   93 (106)
T 2dgp_A           54 HKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPA   93 (106)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEEC
Confidence            689999999999999999999999998   8999976544

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

Probab=98.80  E-value=3e-09  Score=62.43  Aligned_cols=38  Identities=18%  Similarity=0.350  Sum_probs=33.9

Q ss_pred             EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          36 SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        36 ~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ..++|||||+|.+.++|++||+ |||..+.|++|.+...
T Consensus        55 g~~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a   92 (101)
T 1fj7_A           55 GTNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKP   92 (101)
T ss_dssp             ETTTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECC
T ss_pred             CCcCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEc
Confidence            4589999999999999999999 9999999999975443

>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=98.80  E-value=1.1e-08  Score=59.63  Aligned_cols=58  Identities=17%  Similarity=0.169  Sum_probs=42.2

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceec--CeEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVL--GQTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~--gr~i~~~~   73 (89)
                      .++....++.-.|.+..   +.+...+|||||+|.+.++|++|+..|||..+.  |++|.+..
T Consensus        30 t~~~l~~~F~~~G~v~~---v~~~~~~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~   89 (97)
T 1why_A           30 SLAALAREFDRFGSIRT---IDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDF   89 (97)
T ss_dssp             CHHHHHHHHHTTSCEEE---EEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEE
T ss_pred             CHHHHHHHHHhcCCeeE---EEEeCCCCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEE
Confidence            34444555555554332   223335899999999999999999999999999  99996443

>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=98.80  E-value=8.6e-09  Score=61.22  Aligned_cols=60  Identities=22%  Similarity=0.208  Sum_probs=42.3

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcC------CceecCeEEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGED------GRTVLGQTLVSY   72 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~------g~~l~gr~i~~~   72 (89)
                      .++....++.-.|.+..-+.+..   ..++|||||+|.+.++|++||..||      |..+.|++|.+.
T Consensus        28 t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~   96 (111)
T 1x4h_A           28 EEEALGEVLQQFGDLKYVRVVLHPDTEHSKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVD   96 (111)
T ss_dssp             CHHHHHHHHHTTSCEEEEECCBCSSSCCBCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEE
T ss_pred             CHHHHHHHHHhcCCeEEEEEEecCCCCCCccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEE
Confidence            34444555555554332222211   1368999999999999999999999      999999999643

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

Probab=98.80  E-value=1.6e-08  Score=61.23  Aligned_cols=63  Identities=21%  Similarity=0.236  Sum_probs=44.7

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++|| +|||..+.|+.|.+...
T Consensus        47 ~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a  112 (124)
T 2jwn_A           47 GSTAQDLEAHFSSCGSINRITILCDKFSGHPKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPK  112 (124)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEEEEEECTTSSCEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEES
T ss_pred             CCCHHHHHHHHHhcCCEEEEEEEecCCCCCcccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEEC
Confidence            3334445555555665544433332   135899999999999999999 79999999999965443

>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=98.80  E-value=8.9e-09  Score=64.83  Aligned_cols=61  Identities=11%  Similarity=0.035  Sum_probs=43.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.++++|++||..|||..|.|++|.+...
T Consensus        53 ~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  116 (156)
T 1h2v_Z           53 EEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWD  116 (156)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEE
T ss_pred             HHHHHHHHHhcCCeEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            3444444445555433222221   126799999999999999999999999999999976555

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

Probab=98.80  E-value=3e-09  Score=63.50  Aligned_cols=63  Identities=17%  Similarity=0.163  Sum_probs=45.3

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+..-+.+.-  ..++|||||+|.++++|++||. +||..++|++|.+...
T Consensus        22 ~~te~~L~~~F~~~G~v~~v~i~~d~~g~~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~   86 (103)
T 1s79_A           22 DATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFK   86 (103)
T ss_dssp             TCCHHHHHHHHHTSSCEEEEEEECCCTTSCCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEH
T ss_pred             CCCHHHHHHHHhhcCCEEEEEEEECCCCCCccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEc
Confidence            3445555566656665444332221  2378999999999999999999 9999999999976543

>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=98.80  E-value=7.1e-09  Score=62.11  Aligned_cols=59  Identities=17%  Similarity=0.258  Sum_probs=41.4

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+.+..   ..++|||||+|.+.++|++|| .|||..+.|+.|.+..
T Consensus        39 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~  100 (114)
T 2cq4_A           39 PRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQA  100 (114)
T ss_dssp             HHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEE
T ss_pred             HHHHHHHHHhCCCEeEEEEEecCCCCccCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEe
Confidence            3444455545554433222211   136899999999999999999 9999999999996543

>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=98.79  E-value=1e-08  Score=61.93  Aligned_cols=55  Identities=15%  Similarity=0.126  Sum_probs=40.6

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEccc-CeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHK-GYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r-G~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ...++....++.-.|     .+..|.+.+ |||||+|.+.++|++||+.|||..|.|++|.
T Consensus        27 ~~t~~~l~~~F~~~G-----~v~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~~~   82 (115)
T 3beg_B           27 SGSWQDLKDHMREAG-----DVCYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGE   82 (115)
T ss_dssp             SCCTTHHHHHHGGGS-----CEEEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSC
T ss_pred             CCCHHHHHHHHHhcC-----CeEEEEEecCCEEEEEECCHHHHHHHHHHhCCCEECCcEee
Confidence            334444455554444     344455444 9999999999999999999999999999843

>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=98.79  E-value=7.6e-09  Score=60.46  Aligned_cols=37  Identities=19%  Similarity=0.129  Sum_probs=34.9

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        52 rg~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a~   88 (96)
T 2dgx_A           52 QLKAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLAT   88 (96)
T ss_dssp             TCCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CeEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEcC
Confidence            7999999999999999999999999999999998754

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

Probab=98.79  E-value=6.5e-09  Score=60.98  Aligned_cols=38  Identities=24%  Similarity=0.481  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2fc8_A           53 SKGFGFVDFNSEEDAKAAKEAMEDGEIDGNKVTLDWAK   90 (102)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             cCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEec
Confidence            57999999999999999999999999999999998743

>3v4m_A Splicing factor U2AF 65 kDa subunit; canonical RNA binding protein, RNA splicing, structural GENO joint center for structural genomics, JCSG; HET: MSE; 1.80A {Mus musculus} PDB: 1o0p_A 1opi_A

Probab=98.79  E-value=7.1e-09  Score=62.18  Aligned_cols=36  Identities=22%  Similarity=0.365  Sum_probs=34.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++||+||+|.+.++|++|+..|||+.+.||+|.|.+
T Consensus        58 ~~G~~fV~f~~~~~A~~Ai~~lnG~~f~GR~i~v~~   93 (105)
T 3v4m_A           58 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKY   93 (105)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEE
Confidence            479999999999999999999999999999999864

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

Probab=98.79  E-value=6.1e-09  Score=60.82  Aligned_cols=55  Identities=22%  Similarity=0.351  Sum_probs=40.1

Q ss_pred             HHHHHHHhhcCCcee-cCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeE
Q psy4383          14 HDARSACLGEDGRTV-LGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQT   68 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l-~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~   68 (89)
                      ++....++.-.|.+. .-+.+...   .++|||||+|.+.++|++||..|||..+.|+.
T Consensus        23 ~~~l~~~F~~~G~i~~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~   81 (99)
T 2div_A           23 ENFISRAFATMGETVMSVKIIRNRLTGIPAGYCFVEFADLATAEKCLHKINGKPLPGAT   81 (99)
T ss_dssp             HHHHHHHHHHTTCCCCEEEEEECSSSCCEEEEEEEECSCHHHHHHHHHTTTTSEESSCS
T ss_pred             HHHHHHHHHHhCCcceEEEEeecCCCCCcCCEEEEEeCCHHHHHHHHHHHcCCccCCCC
Confidence            344444555556544 33333221   36799999999999999999999999999998

>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=98.79  E-value=1.7e-09  Score=62.53  Aligned_cols=38  Identities=16%  Similarity=0.196  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        44 ~kG~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~~~   81 (90)
T 3p5t_L           44 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPSN   81 (90)
T ss_dssp             EEEEEEECC-CHHHHHHHHHHGGGSCSSSCCCEECCC-
T ss_pred             cCcEEEEEECCHHHHHHHHHHcCCCeeCCEEEEEEECC
Confidence            58999999999999999999999999999999997643

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

Probab=98.79  E-value=1.6e-08  Score=58.71  Aligned_cols=61  Identities=11%  Similarity=0.118  Sum_probs=43.0

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccC-eEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKG-YAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG-~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ...++....++.-.|.+..   +......| ||||+|.++++|++||. |||..+.|++|.+....
T Consensus        19 ~~t~~~l~~~F~~~G~v~~---v~~~~~~g~~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~a~   80 (94)
T 2e5g_A           19 GVDSAQLSEYFLAFGPVAS---VVMDKDKGVFAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRPRE   80 (94)
T ss_dssp             TCCHHHHHHHGGGTSCEEE---EEECSSSCCEEEEEESSHHHHHHHHT-CSCCEETTEECCCBCSC
T ss_pred             CCCHHHHHHHHHhcCCeEE---EEEcCCCCcEEEEEECCHHHHHHHHh-cCCeEECCEEEEEEECC
Confidence            3445555556656665543   22222222 99999999999999999 99999999999765443

>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=98.78  E-value=2.6e-09  Score=71.84  Aligned_cols=65  Identities=12%  Similarity=0.110  Sum_probs=48.4

Q ss_pred             ecCHHHHHHHHhhcCC--ceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDG--RTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g--~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +...++....++.-.|  .+...+++...   .+||||||+|.+.++|++||..|||..|.|++|.+...
T Consensus        78 ~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a  147 (229)
T 3q2s_C           78 WWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPV  147 (229)
T ss_dssp             TTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEEC
T ss_pred             CCCCHHHHHHHHHHHCCcceEEEEEEecCCCCccceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEEC
Confidence            3344555666666677  55444433321   37899999999999999999999999999999987644

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

Probab=98.78  E-value=5.4e-09  Score=60.19  Aligned_cols=59  Identities=19%  Similarity=0.258  Sum_probs=41.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.. ..++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        22 ~~~l~~~f~~~G~v~~~~i~~~~g~~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~   81 (92)
T 2dgv_A           22 WKMLKDKFNECGHVLYADIKMENGKSKGCGVVKFESPEVAERACRMMNGMKLSGREIDVR   81 (92)
T ss_dssp             HHHHHHHHHTTSCEEEEEEEESSSCEEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCE
T ss_pred             HHHHHHHHHhcCCEEEEEEEccCCCcceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEE
Confidence            3334444445555443332220 1268999999999999999999999999999998643

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

Probab=98.78  E-value=2.2e-09  Score=60.87  Aligned_cols=34  Identities=32%  Similarity=0.584  Sum_probs=32.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCe-EeEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQ-TLGI   35 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~-~i~v   35 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+ +|+|
T Consensus        46 ~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~~l~V   80 (81)
T 2krb_A           46 TKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRV   80 (81)
T ss_dssp             CCCEEEEEESSHHHHHHHHTTSSSCCCSSSSCCCC
T ss_pred             EeEEEEEEECCHHHHHHHHHHhcCcccCCceeEEe
Confidence            589999999999999999999999999999 8876

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

Probab=98.78  E-value=1e-08  Score=59.28  Aligned_cols=38  Identities=29%  Similarity=0.490  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        56 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   93 (95)
T 2cqc_A           56 SRGFAFVYFENVDDAKEAKERANGMELDGRRIRVSGPS   93 (95)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEECCS
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecC
Confidence            57999999999999999999999999999999998754

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

Probab=98.78  E-value=5.6e-09  Score=61.48  Aligned_cols=61  Identities=13%  Similarity=0.138  Sum_probs=43.4

Q ss_pred             HHHHHHHhhc-CCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCce-ecCeEEEEEee
Q psy4383          14 HDARSACLGE-DGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRT-VLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l-~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~-l~gr~i~~~~~   74 (89)
                      ++....++.- .|.+..-+.+..  ..++|||||+|.+.++|++||..|||.. +.|++|.+...
T Consensus        23 ~~~l~~~F~~~~G~v~~v~i~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a   87 (104)
T 2dhg_A           23 DGMLYEFFVKVYPSCRGGKVVLDQTGVSKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVA   87 (104)
T ss_dssp             HHHHHHHHHHHCTTEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBC
T ss_pred             HHHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEc
Confidence            3444444444 665543333221  1268999999999999999999999999 99999965443

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

Probab=98.78  E-value=3.3e-09  Score=59.05  Aligned_cols=34  Identities=15%  Similarity=0.363  Sum_probs=31.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|++|++ |||..+.|++|.+.
T Consensus        40 ~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~   73 (75)
T 2mss_A           40 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECK   73 (75)
T ss_dssp             SCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEE
T ss_pred             cCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEE
Confidence            57999999999999999998 99999999999754

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

Probab=98.77  E-value=1.1e-08  Score=59.57  Aligned_cols=38  Identities=29%  Similarity=0.410  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        43 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   80 (96)
T 2x1f_A           43 SKGYAFIEFRDLESSASAVRNLNGYQLGSRFLKCGYSS   80 (96)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEcC
Confidence            58999999999999999999999999999999998754

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

Probab=98.77  E-value=1.1e-08  Score=59.36  Aligned_cols=37  Identities=27%  Similarity=0.473  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        47 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   83 (96)
T 1x5t_A           47 SKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   83 (96)
T ss_dssp             CCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             cCeEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            5799999999999999999999999999999999874

>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=98.77  E-value=9.6e-09  Score=63.44  Aligned_cols=34  Identities=29%  Similarity=0.519  Sum_probs=32.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.+.++|++||..|||..|.|++|.+
T Consensus        87 ~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V  120 (129)
T 2kxn_B           87 SRGFAFVYFENVDDAKEAKERANGMELDGRRIRV  120 (129)
T ss_dssp             CCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            6899999999999999999999999999999964

>2ek1_A RNA-binding protein 12; RNA recognition motif, dimer, structural genomics, NPPSFA, national project on protein structural and functional analyses; 2.00A {Homo sapiens} PDB: 2ek6_A

Probab=98.77  E-value=1.1e-08  Score=59.20  Aligned_cols=37  Identities=19%  Similarity=0.315  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.++
T Consensus        56 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~l~v~~a   92 (95)
T 2ek1_A           56 PTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLSGP   92 (95)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEECC
T ss_pred             EeeEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEec
Confidence            5799999999999999999999999999999999864

>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=98.77  E-value=7.8e-09  Score=59.09  Aligned_cols=35  Identities=26%  Similarity=0.472  Sum_probs=32.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++|+ .|||..+.|++|.+..
T Consensus        47 ~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~   81 (89)
T 3ucg_A           47 PKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIP   81 (89)
T ss_dssp             CCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEE
T ss_pred             cceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEE
Confidence            5899999999999999999 8999999999997543

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=98.77  E-value=1.4e-08  Score=61.72  Aligned_cols=37  Identities=24%  Similarity=0.487  Sum_probs=33.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        63 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   99 (126)
T 3ex7_B           63 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC   99 (126)
T ss_dssp             BCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEe
Confidence            4899999999999999999999999999999976544

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

Probab=98.76  E-value=1.2e-08  Score=60.25  Aligned_cols=36  Identities=28%  Similarity=0.496  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhc-CCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l-~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++||..| ||..+.|++|.+..
T Consensus        57 ~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~   93 (107)
T 2cph_A           57 HRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEW   93 (107)
T ss_dssp             SCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEE
T ss_pred             cCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEe
Confidence            4899999999999999999999 99999999996443

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

Probab=98.76  E-value=1.3e-08  Score=59.27  Aligned_cols=38  Identities=26%  Similarity=0.560  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        49 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   86 (98)
T 2cpf_A           49 SMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRISE   86 (98)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECSS
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEEcc
Confidence            47999999999999999999999999999999998743

>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=98.76  E-value=4.7e-09  Score=61.77  Aligned_cols=35  Identities=14%  Similarity=0.216  Sum_probs=31.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.+.++|++|| .|||..+.|+.|.+..
T Consensus        60 ~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~   94 (100)
T 2j76_E           60 LKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDV   94 (100)
T ss_dssp             CCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEE
T ss_pred             cCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEe
Confidence            5899999999999999999 8999999999986443

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

Probab=98.76  E-value=5.2e-09  Score=61.75  Aligned_cols=37  Identities=19%  Similarity=0.259  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC-eEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG-QTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g-~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.| +.|.|.+.
T Consensus        53 ~kG~afV~f~~~~~A~~Ai~~lng~~~~g~r~l~V~~a   90 (100)
T 3ns6_A           53 TKGFLFVECGSMNDAKKIIKSFHGKRLDLKHRLFLYTM   90 (100)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCcccCCCeEEEEEEC
Confidence            58999999999999999999999999999 99998753

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

Probab=98.76  E-value=1.4e-08  Score=61.04  Aligned_cols=61  Identities=13%  Similarity=0.184  Sum_probs=42.8

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++.-.|.+..-+.+.-   ..++|||||+|.++++|++||..||+ .+.|++|.+...
T Consensus        30 t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a   93 (116)
T 2cqd_A           30 TDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLA   93 (116)
T ss_dssp             CHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEES
T ss_pred             CHHHHHHHHHhCCCeeEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEc
Confidence            34444555555555433322221   12689999999999999999999999 899999976554

>2ywk_A Putative RNA-binding protein 11; RRM-domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; 1.54A {Homo sapiens}

Probab=98.76  E-value=9.4e-09  Score=59.49  Aligned_cols=38  Identities=21%  Similarity=0.385  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        56 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   93 (95)
T 2ywk_A           56 PKSFGFVCFKHPESVSYAIALLNGIRLYGRPINVSGPS   93 (95)
T ss_dssp             EEEEEEEEESSTHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CceEEEEEECCHHHHHHHHHHhCCCEECCCEEEEEEcC
Confidence            57999999999999999999999999999999998754

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

Probab=98.76  E-value=1.1e-08  Score=59.41  Aligned_cols=37  Identities=24%  Similarity=0.454  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|++.
T Consensus        52 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   88 (96)
T 1fjc_A           52 SKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEc
Confidence            5899999999999999999999999999999999874

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

Probab=98.76  E-value=1e-08  Score=59.59  Aligned_cols=38  Identities=26%  Similarity=0.516  Sum_probs=33.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..+ ++..+.|++|.|++++
T Consensus        43 ~rg~aFV~F~~~~~A~~Ai~~~~~~~~~~gr~i~V~~a~   81 (91)
T 2lxi_A           43 SRGFAFVEFSHLQDATRWMEANQHSLNILGQKVSMHYSD   81 (91)
T ss_dssp             CSSEEEEECSSHHHHHHHHHTTTTEEEETTEEEEEECCC
T ss_pred             cCceEEEEecCHHHHHHHHHhcCCCeEECCEEEEEEEcC
Confidence            6899999999999999999887 4567999999998743

>1wg1_A KIAA1579 protein, homolog EXC-7; RBD, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 1wi6_A

Probab=98.76  E-value=7.6e-09  Score=59.50  Aligned_cols=38  Identities=21%  Similarity=0.228  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++..
T Consensus        39 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a~   76 (88)
T 1wg1_A           39 NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCcEEEEEECCHHHHHHHHHHhCCCeECCcEEEEEEcC
Confidence            68999999999999999999999999999999998754

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.75  E-value=1.1e-08  Score=60.09  Aligned_cols=61  Identities=23%  Similarity=0.255  Sum_probs=43.4

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.-.   .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        22 ~~~l~~~f~~~G~i~~~~i~~~~~~g~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   85 (104)
T 1p1t_A           22 EEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNA   85 (104)
T ss_dssp             HHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEET
T ss_pred             HHHHHHHHHhcCCeeEEEEEeCCCCCccceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeC
Confidence            34444555555654333332221   25899999999999999999999999999999975443

>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=98.75  E-value=6.5e-09  Score=64.00  Aligned_cols=61  Identities=13%  Similarity=-0.033  Sum_probs=44.3

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCC--ceecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDG--RTVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g--~~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+..-+   +-..||||||+|++.++|++||..|++  ..+.|++|.+...
T Consensus        42 ~vte~dL~~lF~~fG~V~~v~---i~~~kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a  104 (119)
T 2ad9_A           42 DVTEGEVISLGLPFGKVTNLL---MLKGKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFS  104 (119)
T ss_dssp             TCCHHHHHHHHTTTSCCCEEE---EEGGGTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEEC
T ss_pred             CCCHHHHHHHHHhcCCEEEEE---EeCCCCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEc
Confidence            334455556665666544333   334689999999999999999999984  6899999965443

>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=98.75  E-value=4.4e-09  Score=68.11  Aligned_cols=62  Identities=21%  Similarity=0.231  Sum_probs=44.8

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecC--eEEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLVSY   72 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~~   72 (89)
                      +...++....++.-.|.+..-+.. -..++|||||+|.+.++|++|+++|||..|.|  ++|++.
T Consensus        56 ~~vted~L~~~Fs~fG~V~~V~i~-~k~~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~  119 (164)
T 1sjr_A           56 YPVTLDVLHQIFSKFGTVLKIITF-TKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRID  119 (164)
T ss_dssp             SCCCHHHHHHHHHHHSCEEEEEEE-ESSSCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEE
T ss_pred             CCCCHHHHHHHHHhcCCEEEEEEE-eCCCCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEE
Confidence            444456666666666665443322 12257899999999999999999999999965  888654

>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=98.75  E-value=3.5e-09  Score=64.60  Aligned_cols=58  Identities=16%  Similarity=-0.058  Sum_probs=41.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCC--ceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDG--RTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g--~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-   .+-.+||||||+|++.++|++||..||+  ..+.||+|.+...
T Consensus        40 e~~L~~lF~~fG~V~~v---~i~~~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a   99 (112)
T 1x4f_A           40 DSAVLKLAEPYGKIKNY---ILMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLS   99 (112)
T ss_dssp             SHHHHTTTTTTSCCSEE---EEETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEE
T ss_pred             HHHHHHHHHhcCCEEEE---EEecCCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEC
Confidence            34455555555554332   3335789999999999999999998864  5699999965443

>2cqi_A Nucleolysin TIAR; RNA recognition motif, RRM, RNA binding domain, RBD, RNP, ST genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.75  E-value=1.6e-08  Score=59.51  Aligned_cols=38  Identities=26%  Similarity=0.555  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        54 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2cqi_A           54 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   91 (103)
T ss_dssp             SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCCcCCCeEEEEECC
Confidence            57999999999999999999999999999999998743

>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=98.75  E-value=1.5e-08  Score=59.49  Aligned_cols=39  Identities=28%  Similarity=0.514  Sum_probs=36.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.++
T Consensus        56 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   94 (97)
T 2xnq_A           56 KNAFGFIQFDNPQSVRDAIEXESQEMNFGKKLILEVSSS   94 (97)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHTTSEETTEECEEEECCC
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEecCC
Confidence            589999999999999999999999999999999987553

>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=98.75  E-value=1.9e-08  Score=62.51  Aligned_cols=65  Identities=18%  Similarity=0.139  Sum_probs=46.3

Q ss_pred             ecCHHHHHHHHhhcCCceecC--------eEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGRTVLG--------QTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g--------~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +...++....++.-.|.+...        +...-..++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        55 ~~~te~~L~~~F~~~G~i~~~~~~~~~di~~~~~g~~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a  127 (143)
T 3egn_A           55 KHVQEKDLKYIFGRYVDFSSETQRIMFDIRLMKEGRMKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFA  127 (143)
T ss_dssp             TTCCHHHHHHHHGGGCCTTCHHHHHHCEEEEEEETTTEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEEEC
T ss_pred             CCCCHHHHHHHHHHhCCcccccccceeeEEeccCCCcccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEEC
Confidence            344455555666566654331        11122357899999999999999999999999999999965443

>4a8x_A RNA-binding protein with serine-rich domain 1; transcription, splicing, RNA processing, nonsense mediated D NMD, HDAC, histone deacetylation; 1.90A {Homo sapiens}

Probab=98.74  E-value=1.2e-08  Score=58.02  Aligned_cols=37  Identities=35%  Similarity=0.613  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        46 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   82 (88)
T 4a8x_A           46 SKGYAYVEFENPDEAEKALKHMDGGQIDGQEITATAV   82 (88)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEE
T ss_pred             CCcEEEEEEecHHHHHHHHHHcCCCeECCeEEEEEEC
Confidence            6899999999999999999999999999999999764

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

Probab=98.74  E-value=1.5e-08  Score=59.44  Aligned_cols=38  Identities=32%  Similarity=0.578  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        52 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   89 (101)
T 2fc9_A           52 SKGYAFIEFASFEDAKEALNSCNKREIEGRAIRLELQG   89 (101)
T ss_dssp             BCSEEEEECSSHHHHHHHHHHTSSEEETTEEEEEEECS
T ss_pred             EeeEEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEcC
Confidence            58999999999999999999999999999999998743

>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=98.74  E-value=1.5e-08  Score=60.28  Aligned_cols=38  Identities=32%  Similarity=0.608  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        60 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   97 (109)
T 1x4a_A           60 GPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   97 (109)
T ss_dssp             SSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcc
Confidence            57999999999999999999999999999999998743

>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=98.74  E-value=4.9e-09  Score=65.71  Aligned_cols=64  Identities=14%  Similarity=0.143  Sum_probs=44.3

Q ss_pred             ecCHHHHHHHHhhcCCc---eecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGR---TVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~---~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      |...++.....+.-.|.   +..-+.+..  ..++|||||+|.++++|++||+ |||..++||.|.+...
T Consensus        54 ~~~te~dL~~~F~~~G~v~~v~~v~i~~d~~g~srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a  122 (136)
T 2hgl_A           54 WSCSVEDVQNFLSDCTIHDGAAGVHFIYTREGRQSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKS  122 (136)
T ss_dssp             TTCCHHHHHHHTTTCCCSSSSTTEEEEECSSSCEEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEEC
T ss_pred             CCCCHHHHHHHHHHhCCcCceeEEEEEECCCCCCCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEEC
Confidence            33444444555544554   222222221  2368999999999999999999 9999999999987654

>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=98.74  E-value=1.5e-08  Score=60.85  Aligned_cols=38  Identities=24%  Similarity=0.335  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+..
T Consensus        63 ~~G~afV~f~~~~~A~~Ai~~lng~~~~gr~l~v~~a~  100 (112)
T 2dit_A           63 PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWD  100 (112)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECC
T ss_pred             CCEEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEeC
Confidence            58999999999999999999999999999999998743

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.74  E-value=4e-08  Score=58.65  Aligned_cols=54  Identities=22%  Similarity=0.193  Sum_probs=40.4

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|.+..-+.+  ..++|||||+|.++++|++||..+++  +.|++|.+
T Consensus        31 e~~L~~~F~~~G~V~~v~i~--~~~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V   84 (100)
T 2d9o_A           31 KDVLLRLLQKYGEVLNLVLS--SKKPGTAVVEFATVKAAELAVQNEVG--LVDNPLKI   84 (100)
T ss_dssp             HHHHHHHHHTTSCEEEEEEE--SSSSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEE
T ss_pred             HHHHHHHHHhcCCEEEEEEc--cCCCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEE
Confidence            45556666667765544332  35899999999999999999998665  67898864

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

Probab=98.74  E-value=1.8e-08  Score=58.80  Aligned_cols=38  Identities=18%  Similarity=0.334  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        48 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a~   85 (97)
T 1x5p_A           48 PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   85 (97)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHTTTEEETTEEEEEECCS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEECC
Confidence            68999999999999999999999999999999998743

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

Probab=98.74  E-value=6.5e-09  Score=60.84  Aligned_cols=37  Identities=30%  Similarity=0.434  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.
T Consensus        62 ~~G~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~A   98 (99)
T 2la6_A           62 LKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   98 (99)
T ss_dssp             EEEEEEEEBSSHHHHHHHHHHHTTCBSSSSBCEEEEC
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEec
Confidence            5799999999999999999999999999999998753

>3ulh_A THO complex subunit 4; nuclear protein, RNA binding, structural genomi center for structural genomics, JCSG, protein structure INI PSI-biology; 2.54A {Homo sapiens} PDB: 1no8_A

Probab=98.74  E-value=1.5e-08  Score=59.91  Aligned_cols=38  Identities=24%  Similarity=0.287  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++..
T Consensus        69 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  106 (107)
T 3ulh_A           69 SLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVT  106 (107)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEeC
Confidence            58999999999999999999999999999999998643

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

Probab=98.74  E-value=1.6e-08  Score=60.40  Aligned_cols=38  Identities=29%  Similarity=0.471  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        64 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  101 (113)
T 2cpe_A           64 PKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR  101 (113)
T ss_dssp             BCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSS
T ss_pred             eeeEEEEEECCHHHHHHHHHHcCCCccCCCEEEEEECC
Confidence            57999999999999999999999999999999998744

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

Probab=98.74  E-value=7.8e-09  Score=61.39  Aligned_cols=39  Identities=28%  Similarity=0.542  Sum_probs=35.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCe-EeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQ-TLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~-~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+ +|.|.+.+.
T Consensus        60 ~~G~afV~f~~~~~A~~Ai~~l~g~~~~g~~~l~V~~a~~   99 (105)
T 2nlw_A           60 TKGYIFLEYASPAHAVDAVKNADGYKLDKQHTFRVNLFTD   99 (105)
T ss_dssp             SCCEEEEEECSSSHHHHHHHHCSSEECSTTCEEEEECSCC
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCcccCCCceEEEEEcch
Confidence            589999999999999999999999999998 999987543

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

Probab=98.73  E-value=1.6e-08  Score=59.45  Aligned_cols=37  Identities=32%  Similarity=0.416  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        56 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   92 (103)
T 2cq0_A           56 SKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWA   92 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             eeeEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEC
Confidence            5799999999999999999999999999999999874

>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=98.73  E-value=4.3e-09  Score=62.55  Aligned_cols=36  Identities=19%  Similarity=0.185  Sum_probs=32.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++||. +|+..+.||.|.+...
T Consensus        54 ~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~~   89 (102)
T 1wez_A           54 VTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLN   89 (102)
T ss_dssp             EEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEE
T ss_pred             EeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            68999999999999999995 8999999999977554

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

Probab=98.73  E-value=1.4e-08  Score=59.18  Aligned_cols=37  Identities=32%  Similarity=0.501  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        49 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   85 (99)
T 1whw_A           49 PKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             cCeEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            5799999999999999999999999999999999864

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

Probab=98.73  E-value=1.8e-08  Score=59.28  Aligned_cols=37  Identities=19%  Similarity=0.460  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|.+.+
T Consensus        55 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~   91 (103)
T 2dng_A           55 FKGFCYVEFDEVDSLKEAL-TYDGALLGDRSLRVDIAE   91 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHG-GGTTCEETTEECEEEECC
T ss_pred             cceEEEEEECCHHHHHHHH-hhCCCeECCeEEEEEEec
Confidence            5799999999999999999 899999999999998743

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.72  E-value=3.5e-09  Score=60.27  Aligned_cols=33  Identities=30%  Similarity=0.479  Sum_probs=31.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++|||||+|.+.++|++||..|||..+.|+.|+
T Consensus        46 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~   78 (85)
T 1x4e_A           46 CKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   78 (85)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             cCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEe
Confidence            589999999999999999999999999999884

>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=98.72  E-value=1.9e-08  Score=60.53  Aligned_cols=37  Identities=24%  Similarity=0.277  Sum_probs=33.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.+.++|++||.. ||..|.|++|.+....
T Consensus        56 ~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a~   92 (114)
T 2cpy_A           56 GLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVVT   92 (114)
T ss_dssp             CSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEECC
Confidence            789999999999999999996 9999999999876653

>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=98.72  E-value=1.3e-08  Score=60.35  Aligned_cols=36  Identities=22%  Similarity=0.249  Sum_probs=32.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++||.. ||..++||.|.+...
T Consensus        56 ~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~   91 (104)
T 1wg5_A           56 STGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKS   91 (104)
T ss_dssp             BCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEEC
Confidence            689999999999999999997 999999999976544

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

Probab=98.72  E-value=1.4e-08  Score=59.57  Aligned_cols=38  Identities=29%  Similarity=0.608  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   90 (102)
T 2cqb_A           53 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLAK   90 (102)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEeCC
Confidence            58999999999999999999999999999999998743

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=98.72  E-value=3e-08  Score=72.22  Aligned_cols=64  Identities=19%  Similarity=0.235  Sum_probs=46.1

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ..++....++.-.|.+...+++.-   ..++|||||+|.+.++|++||..|||..|.|++|.|....
T Consensus       114 ~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~  180 (437)
T 3pgw_S          114 TTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER  180 (437)
T ss_pred             CCHHHHHHHHHHcCCeeEEEeeccCCCCCccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            334445555555555444333221   1268999999999999999999999999999999776654

>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=98.71  E-value=3e-08  Score=63.09  Aligned_cols=37  Identities=27%  Similarity=0.424  Sum_probs=33.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..|.|++|.+...
T Consensus       113 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  149 (165)
T 1rk8_A          113 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  149 (165)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             EeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            5799999999999999999999999999999965443

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

Probab=98.71  E-value=2e-08  Score=58.74  Aligned_cols=38  Identities=32%  Similarity=0.571  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        50 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpd_A           50 IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   87 (99)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             eCCeEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            57999999999999999999999999999999998744

>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=98.71  E-value=1.7e-08  Score=57.29  Aligned_cols=37  Identities=27%  Similarity=0.345  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..| +|..+.|+.|.|++.
T Consensus        47 ~kg~afV~f~~~~~A~~a~~~l~~~~~~~g~~l~v~~a   84 (85)
T 2ytc_A           47 RQQCAFIQFATRQAAEVAAEKSFNKLIVNGRRLNVKWG   84 (85)
T ss_dssp             GGTEEEEEESSHHHHHHHHHTTTTTCEETTEECCEEEC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhcCCeeECCCEEEEEec
Confidence            4799999999999999999999 999999999998764

>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=98.71  E-value=1.3e-08  Score=58.82  Aligned_cols=38  Identities=21%  Similarity=0.372  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCC-ceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDG-RTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g-~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..||| ..+.|+.|.|++.+
T Consensus        43 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~g~~l~v~~a~   81 (93)
T 2cqh_A           43 KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYSV   81 (93)
T ss_dssp             ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEECC
T ss_pred             CCCEEEEEECCHHHHHHHHHHccCCeeECCEEEEEEEcc
Confidence            589999999999999999999999 99999999998743

>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=98.71  E-value=1.7e-08  Score=60.46  Aligned_cols=38  Identities=21%  Similarity=0.439  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        66 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~  103 (115)
T 2cpz_A           66 SKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR  103 (115)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             cCccEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            57999999999999999999999999999999998743

>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=98.71  E-value=5.8e-09  Score=62.16  Aligned_cols=37  Identities=16%  Similarity=0.247  Sum_probs=33.4

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.+.++|++||. |||..++||.|.+...
T Consensus        53 ~~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a   89 (107)
T 2lmi_A           53 KRRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEI   89 (107)
T ss_dssp             TTCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEEC
T ss_pred             CEeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEEC
Confidence            378999999999999999999 9999999999976554

>2khc_A Testis-specific RNP-type RNA binding protein; RRM, RNA recognition motif, bruno; NMR {Drosophila melanogaster}

Probab=98.71  E-value=1.1e-08  Score=61.44  Aligned_cols=37  Identities=27%  Similarity=0.467  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.
T Consensus        81 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a  117 (118)
T 2khc_A           81 SKCFGFVSFDNPDSAQVAIKAMNGFQVGTKRLKVQLK  117 (118)
T ss_dssp             CCCEEEEEEESSHHHHHHHHHCCCCEETTEECCEEEC
T ss_pred             cCcEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            5899999999999999999999999999999999764

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

Probab=98.71  E-value=2e-08  Score=57.78  Aligned_cols=37  Identities=24%  Similarity=0.424  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|.+.+
T Consensus        49 ~~g~afV~f~~~~~a~~A~~-~~g~~~~gr~i~v~~a~   85 (91)
T 2dgw_A           49 KTGYIFVDFSNEEEVKQALK-CNREYMGGRYIEVFREK   85 (91)
T ss_dssp             EEEEEEEECSSHHHHHHHHH-SCSEEETTEEEEEEEES
T ss_pred             CceEEEEEECCHHHHHHHHH-hCCceeCCcEEEEEECC
Confidence            58999999999999999999 99999999999998643

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

Probab=98.71  E-value=9e-09  Score=60.10  Aligned_cols=38  Identities=18%  Similarity=0.313  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        55 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   92 (97)
T 2e5j_A           55 PRRRAFLHYPDSAAAQQAVSCLQGLRLGTDTLRVALAR   92 (97)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHTTCCSSSSCCEEEECC
T ss_pred             CCcEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            58999999999999999999999999999999998654

>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=98.70  E-value=1.6e-08  Score=58.70  Aligned_cols=38  Identities=24%  Similarity=0.335  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        50 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   87 (97)
T 1nu4_A           50 MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   87 (97)
T ss_dssp             HTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             cCcEEEEEeCCHHHHHHHHHHhCCCEECCcEEEEEEcc
Confidence            47999999999999999999999999999999998754

>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=98.70  E-value=2.4e-08  Score=56.91  Aligned_cols=58  Identities=12%  Similarity=0.135  Sum_probs=40.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||+ +++..+.|++|.+.
T Consensus        25 ~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~   85 (87)
T 3s7r_A           25 KKDLKDYFTKFGEVVDCTIKMDPNTGRSRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPK   85 (87)
T ss_dssp             HHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEE
T ss_pred             HHHHHHHHHhCCCEEEEEEeecCCCCccccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEE
Confidence            3444455545555443332221   1258999999999999999996 68899999999764

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

Probab=98.70  E-value=2.2e-08  Score=59.93  Aligned_cols=37  Identities=30%  Similarity=0.455  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|.+.
T Consensus        56 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   92 (115)
T 2dgo_A           56 SKGYGFVSFFNKWDAENAIQQMGGQWLGGRQIRTNWA   92 (115)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            4799999999999999999999999999999999874

>2cq3_A RNA-binding protein 9; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.70  E-value=2.4e-08  Score=58.72  Aligned_cols=37  Identities=30%  Similarity=0.493  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        54 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   90 (103)
T 2cq3_A           54 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA   90 (103)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            4899999999999999999999999999999999864

>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=98.70  E-value=1.6e-08  Score=59.59  Aligned_cols=61  Identities=21%  Similarity=0.188  Sum_probs=42.3

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecC---eEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLG---QTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~g---r~i~~~~   73 (89)
                      .++....++.-.|.+..-+.+.-  ..++|||||+|.+.++|++||..|||..+.|   ++|.+..
T Consensus        28 t~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~   93 (105)
T 2dnh_A           28 SEEDVLRLFQPFGVIDECTVLRGPDGSSKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKF   93 (105)
T ss_dssp             CHHHHHHHHTTTSCEEEEEEEECSSSCEEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEE
T ss_pred             CHHHHHHHHHhcCCeEEEEEEECCCCCcCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEE
Confidence            34445555555555433222211  1248999999999999999999999999998   9886543

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

Probab=98.70  E-value=2e-08  Score=64.00  Aligned_cols=37  Identities=16%  Similarity=0.239  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        98 skGfaFV~f~~~~~A~~Ai~~lng~~~~Gr~l~V~~a  134 (156)
T 3n9u_C           98 SKGYAEVVVASENSVHKLLELLPGKVLNGEKVDVRPA  134 (156)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHSTTCEETTEECEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCeEeEEEEc
Confidence            5899999999999999999999999999999999764

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.70  E-value=3.8e-08  Score=58.10  Aligned_cols=44  Identities=16%  Similarity=0.266  Sum_probs=38.7

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +|..+.+++-.+.+||+|++.++|.+||. |||..+.||.|++..
T Consensus        39 ~G~Vi~vr~~~d~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~l   82 (91)
T 2dnr_A           39 FGEVILIRFVEDKMWVTFLEGSSALNVLS-LNGKELLNRTITIAL   82 (91)
T ss_dssp             TCCEEEEEECSSSEEEEESSHHHHHHGGG-GTTCEETTEEEEEEE
T ss_pred             CCCeEEEEEecCCEEEEECChHHHHHHHh-cCCeEeCCeEEEEEe
Confidence            55677778788889999999999999999 999999999997543

>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=98.70  E-value=1.3e-08  Score=60.37  Aligned_cols=38  Identities=16%  Similarity=0.223  Sum_probs=33.2

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcC--CceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGED--GRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~--g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.++++|++||..||  +..+.|++|.+...
T Consensus        50 ~~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~a   89 (109)
T 2dis_A           50 KNRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWA   89 (109)
T ss_dssp             TTCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEES
T ss_pred             CcCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEEc
Confidence            368999999999999999999996  59999999965443

>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=98.70  E-value=2.3e-08  Score=57.05  Aligned_cols=37  Identities=24%  Similarity=0.493  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|++.+
T Consensus        47 ~~g~afV~f~~~~~a~~a~-~~~g~~~~g~~l~V~~a~   83 (89)
T 3ucg_A           47 PKGFAYIEFSDKESVRTSL-ALDESLFRGRQIKVIPKR   83 (89)
T ss_dssp             CCEEEEEEESSTHHHHHHG-GGTTCEETTEECEEEETT
T ss_pred             cceEEEEEECCHHHHHHHH-hcCCCEECCcEEEEEEcc
Confidence            5899999999999999999 899999999999998754

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

Probab=98.70  E-value=1.8e-08  Score=58.89  Aligned_cols=38  Identities=24%  Similarity=0.494  Sum_probs=35.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        57 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   94 (100)
T 2do4_A           57 PKGLAYVEYENESQASQAVMKMDGMTIKENIIKVAISN   94 (100)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             EEeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            57999999999999999999999999999999998743

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

Probab=98.69  E-value=1.6e-08  Score=60.47  Aligned_cols=38  Identities=29%  Similarity=0.481  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        68 ~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  105 (109)
T 2err_A           68 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT  105 (109)
T ss_dssp             CTTEEEEECCCSHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            48999999999999999999999999999999998754

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

Probab=98.69  E-value=1.3e-08  Score=58.94  Aligned_cols=37  Identities=32%  Similarity=0.500  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        46 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a   82 (95)
T 2dnz_A           46 SKGYGFITFSDSECARRALEQLNGFELAGRPMRVGHV   82 (95)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEEES
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEc
Confidence            5799999999999999999999999999999999863

>3ue2_A Poly(U)-binding-splicing factor PUF60; RNA recognition motif, RRM, RNA binding domain, ST genomics, joint center for structural genomics, JCSG; HET: MSE; 1.23A {Homo sapiens} SCOP: d.58.7.0 PDB: 3us5_A 2dny_A

Probab=98.68  E-value=2.2e-08  Score=61.37  Aligned_cols=36  Identities=19%  Similarity=0.241  Sum_probs=33.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++||+||+|.+.++|..|+..|||+.+.||+|.|.+
T Consensus        70 ~~G~~FV~F~~~e~A~~Ai~~LnGr~f~GR~i~v~~  105 (118)
T 3ue2_A           70 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV  105 (118)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             ceEEEEEEECCHHHHHHHHHHHCCCEECCcEEEEEE
Confidence            469999999999999999999999999999999865

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

Probab=98.13  E-value=2.2e-09  Score=64.65  Aligned_cols=38  Identities=26%  Similarity=0.287  Sum_probs=34.5

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        55 ~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (116)
T 2lcw_A           55 KLKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   92 (116)
Confidence            36899999999999999999999999999999976554

>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=98.67  E-value=2.9e-08  Score=58.99  Aligned_cols=37  Identities=27%  Similarity=0.519  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        67 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  103 (110)
T 1oo0_B           67 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  103 (110)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEc
Confidence            5799999999999999999999999999999999864

>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=98.67  E-value=3.4e-08  Score=56.14  Aligned_cols=34  Identities=32%  Similarity=0.540  Sum_probs=32.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|+
T Consensus        52 ~kg~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~   85 (87)
T 2hzc_A           52 DKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIR   85 (87)
T ss_dssp             SSSEEEEEESSHHHHHHHG-GGTTCEETTEECEEE
T ss_pred             CCcEEEEEcCCHHHHHHHH-hcCCCEECCeEEEEe
Confidence            3799999999999999999 999999999999986

>1x5u_A Splicing factor 3B subunit 4 (spliceosome associated protein 49) (SAP 49) (SF3B50)...; structure genomics,RRM domain,splicing factor 3B; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.67  E-value=1.7e-08  Score=59.44  Aligned_cols=37  Identities=27%  Similarity=0.451  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        56 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   92 (105)
T 1x5u_A           56 HQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKA   92 (105)
T ss_dssp             BCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEET
T ss_pred             CCcEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEC
Confidence            5799999999999999999999999999999999864

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

Probab=98.67  E-value=1.6e-08  Score=59.32  Aligned_cols=37  Identities=19%  Similarity=0.434  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|.+.+
T Consensus        57 ~~g~afV~f~~~~~a~~A~~-l~g~~~~g~~l~V~~a~   93 (101)
T 1fj7_A           57 NRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPK   93 (101)
T ss_dssp             TTTEEEEEESSHHHHHHHHH-GGGCCBTTBCCEEECCS
T ss_pred             cCcEEEEEECCHHHHHHHHh-cCCcEECCcEEEEEEcC
Confidence            68999999999999999998 99999999999998743

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.67  E-value=3.4e-08  Score=58.21  Aligned_cols=58  Identities=14%  Similarity=0.286  Sum_probs=41.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||.. ||..+.|++|.+.
T Consensus        30 ~~~l~~~F~~~G~v~~v~i~~~~~~g~~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~   90 (105)
T 2dh8_A           30 QETLRSYFSQYGEVVDCVIMKDKTTNQSRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPK   90 (105)
T ss_dssp             HHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCC
T ss_pred             HHHHHHHHHhcCCeEEEEEeeCCCCCCcceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEE
Confidence            3444445545565444333322   13679999999999999999998 9999999999643

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

Probab=98.66  E-value=2.3e-08  Score=60.94  Aligned_cols=36  Identities=17%  Similarity=0.253  Sum_probs=34.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++||+||+|.+.++|+.|+..|||+.+.||.|.|.+
T Consensus        54 ~~G~~fV~f~~~e~A~~Ai~~lnG~~f~GR~i~v~~   89 (114)
T 3s6e_A           54 AQGNVYVKCPSIAAAIAAVNALHGRWFAGKMITAAY   89 (114)
T ss_dssp             TTCCEEEECSSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CcEEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            479999999999999999999999999999999875

>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=98.66  E-value=2.1e-08  Score=59.91  Aligned_cols=37  Identities=32%  Similarity=0.380  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        66 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~v~~a  102 (115)
T 2cpx_A           66 MRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFG  102 (115)
T ss_dssp             SCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEc
Confidence            5799999999999999999999999999999999874

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

Probab=98.66  E-value=1.2e-08  Score=56.89  Aligned_cols=59  Identities=10%  Similarity=0.170  Sum_probs=41.0

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|....-+.+.-   ..++|||||+|.++++|++|+..++ ..+.|++|.+..
T Consensus        14 ~~~l~~~F~~~G~v~~v~i~~~~~~~~~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~   75 (77)
T 1uaw_A           14 QEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKV   75 (77)
T ss_dssp             SHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEE
T ss_pred             HHHHHHHHHhcCCEEEEEEecCCCCCCcCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEe
Confidence            3334444445554433222211   1368999999999999999999999 999999997543

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.66  E-value=4.9e-08  Score=64.51  Aligned_cols=42  Identities=24%  Similarity=0.372  Sum_probs=35.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceec
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRY   82 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~   82 (89)
                      ++|++||+|.+.++|++||..|||++++||+|.   +.|++...|
T Consensus       174 ~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~---~~~~~~~~f  215 (222)
T 3dxb_A          174 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVV---AEVYDQERF  215 (222)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCE---EEECCHHHH
T ss_pred             ceeEEEEEECCHHHHHHHHHHhcCceECCeEEE---EEEcCHHHh
Confidence            679999999999999999999999999999996   444444333

>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=98.65  E-value=3.4e-08  Score=58.21  Aligned_cols=36  Identities=14%  Similarity=0.311  Sum_probs=33.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|.+.
T Consensus        56 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a   91 (104)
T 1wi8_A           56 LKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             BCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             cCeEEEEEECCHHHHHHHH-hcCCCEeCCcEEEEEEc
Confidence            5899999999999999999 89999999999999864

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

Probab=98.65  E-value=1.6e-08  Score=59.28  Aligned_cols=38  Identities=21%  Similarity=0.321  Sum_probs=35.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        62 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   99 (101)
T 2la4_A           62 EKGCCFIKYDTHEQAAVCIVALANFPFQGRNLRTGWGK   99 (101)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHTTCEETTEECCCCBCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEecc
Confidence            68999999999999999999999999999999987643

>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=98.65  E-value=2.2e-08  Score=60.61  Aligned_cols=38  Identities=34%  Similarity=0.728  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        47 ~~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~   84 (116)
T 2fy1_A           47 SRGFAFITFENPADAKNAAKDMNGKSLHGKAIKVEQAK   84 (116)
T ss_dssp             CCCEEEEECSSHHHHHHHHHHCSSCBCSSSBCEEEECC
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            57999999999999999999999999999999998744

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

Probab=98.65  E-value=3.6e-08  Score=58.82  Aligned_cols=38  Identities=16%  Similarity=0.317  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        55 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   92 (114)
T 2do0_A           55 SRGIGTVTFEQSIEAVQAISMFNGQLLFDRPMHVKMDE   92 (114)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             eeeEEEEEECCHHHHHHHHHHhCCCEeCCCEEEEEEcc
Confidence            57999999999999999999999999999999998743

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

Probab=98.64  E-value=1.3e-08  Score=58.56  Aligned_cols=38  Identities=24%  Similarity=0.550  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        47 ~~g~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   84 (92)
T 2dgv_A           47 SKGCGVVKFESPEVAERACRMMNGMKLSGREIDVRIDR   84 (92)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCBTTBCCCCEECS
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEcC
Confidence            57999999999999999999999999999999988754

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

Probab=98.64  E-value=3.2e-08  Score=57.36  Aligned_cols=65  Identities=14%  Similarity=0.039  Sum_probs=43.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +...++....++.-.|.+..-+.+......|.|||+|.+.++|++||..|||..+.|++|.+...
T Consensus        25 ~~~t~~~l~~~F~~~G~v~~~~~i~~~~~~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   89 (96)
T 2e44_A           25 PHLQWEVLDSLLVQYGVVESCEQVNTDSETAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYI   89 (96)
T ss_dssp             SSSCHHHHHHHHHHHSCEEEEEEECCSSSSEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEEC
T ss_pred             CCCCHHHHHHHHHhcCCeEEEEEeecCCCCCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            33444445555544554433321211224456999999999999999999999999999975443

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=98.64  E-value=4.4e-08  Score=58.59  Aligned_cols=59  Identities=10%  Similarity=0.166  Sum_probs=40.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+.+..   ..++|||||+|.+.++|++||..+ +..+.|+.|.+..
T Consensus        39 e~~L~~~F~~~G~i~~v~i~~~~~tg~~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~  100 (109)
T 2rs2_A           39 QEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKV  100 (109)
T ss_dssp             HHHHHHHHTTTSCEEEEEECCCTTTCCCTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEE
T ss_pred             HHHHHHHHHccCCeEEEEEEECCCCCCcCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEE
Confidence            4444455545555433222221   136899999999999999999976 5999999996543

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

Probab=98.64  E-value=2.1e-08  Score=58.96  Aligned_cols=38  Identities=32%  Similarity=0.593  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2d9p_A           54 SKGFGFVCFSSPEEATKAVTEMNGRIVATKPLYVALAQ   91 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEECS
T ss_pred             cCEEEEEEECCHHHHHHHHHHhCCCEeCCcEEEEEEec
Confidence            57999999999999999999999999999999998743

>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=98.64  E-value=3.8e-08  Score=61.09  Aligned_cols=38  Identities=26%  Similarity=0.443  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        91 ~~g~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~  128 (143)
T 3egn_A           91 MKGQAFIGLPNEKAAAKALKEANGYVLFGKPMVVQFAR  128 (143)
T ss_dssp             TEEEEEEECSSHHHHHHHHHHHTTBEETTEECEEEECC
T ss_pred             cccEEEEEeCCHHHHHHHHHHhCCCEeCCcEEEEEECC
Confidence            58999999999999999999999999999999998764

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.64  E-value=6e-08  Score=58.15  Aligned_cols=60  Identities=12%  Similarity=0.206  Sum_probs=41.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||.. ||..+.|++|.+...
T Consensus        41 e~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a  103 (116)
T 1x4b_A           41 EESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRA  103 (116)
T ss_dssp             HHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECC
T ss_pred             HHHHHHHHHhcCCEEEEEEEECCCCCCcCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEEC
Confidence            3444445545554433222211   12689999999999999999997 999999999975544

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

Probab=98.64  E-value=2.7e-08  Score=64.48  Aligned_cols=37  Identities=22%  Similarity=0.168  Sum_probs=33.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+..+
T Consensus       128 ~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a  164 (177)
T 2f3j_A          128 SLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  164 (177)
T ss_dssp             CSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEE
T ss_pred             EeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            6899999999999999999999999999999965433

>1p1t_A Cleavage stimulation factor, 64 kDa subunit; RNA recognition motif, C-terminal helix, N-terminal helix, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.64  E-value=2.2e-08  Score=58.82  Aligned_cols=38  Identities=29%  Similarity=0.483  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        49 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   86 (104)
T 1p1t_A           49 PKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEeCC
Confidence            47999999999999999999999999999999988644

>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=98.64  E-value=2e-08  Score=60.04  Aligned_cols=38  Identities=29%  Similarity=0.472  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|++.+
T Consensus        67 ~~g~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  104 (108)
T 2jrs_A           67 SKGYGFITFSDSECAKKALEQLNGFELAGRPMKVGHVT  104 (108)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCCSSSSCCEEECSC
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcc
Confidence            47999999999999999999999999999999998754

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

Probab=98.64  E-value=3.5e-08  Score=60.81  Aligned_cols=37  Identities=27%  Similarity=0.611  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        83 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a  119 (139)
T 1u6f_A           83 SRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            4899999999999999999999999999999999863

>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=98.63  E-value=4.5e-08  Score=61.57  Aligned_cols=39  Identities=18%  Similarity=0.329  Sum_probs=36.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.++
T Consensus        80 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~  118 (156)
T 1h2v_Z           80 ACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG  118 (156)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            579999999999999999999999999999999998653

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

Probab=98.63  E-value=1.8e-08  Score=59.03  Aligned_cols=37  Identities=27%  Similarity=0.638  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        53 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   89 (102)
T 1x5s_A           53 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   89 (102)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEEC
Confidence            5799999999999999999999999999999999863

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

Probab=98.63  E-value=1.2e-08  Score=59.96  Aligned_cols=38  Identities=29%  Similarity=0.597  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   91 (103)
T 2dnm_A           54 PRGFAFVRFHDRRDAQDAEAAMDGAELDGRELRVQVAR   91 (103)
T ss_dssp             BCSCEEEEESSSSHHHHHHHHHSSCCBTTBCCEEEECS
T ss_pred             CCeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEECC
Confidence            57999999999999999999999999999999998743

>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=98.63  E-value=4.6e-08  Score=58.13  Aligned_cols=37  Identities=32%  Similarity=0.548  Sum_probs=34.8

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +|||||+|.+.++|+.|+..|+|..+.|+.|.|.+.+
T Consensus        61 ~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   97 (109)
T 1x4g_A           61 KGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   97 (109)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEecC
Confidence            7999999999999999999999999999999998743

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

Probab=98.63  E-value=4.5e-08  Score=58.55  Aligned_cols=37  Identities=27%  Similarity=0.497  Sum_probs=35.0

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        65 kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~  101 (108)
T 2jvo_A           65 NGFAFVEFEEAESAAKAIEEVHGKSFANQPLEVVYSK  101 (108)
T ss_dssp             TTEEEEECSSHHHHHHHHHHHTTCEETTEECEEESCS
T ss_pred             CCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEec
Confidence            7999999999999999999999999999999998754

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

Probab=98.63  E-value=2.8e-08  Score=58.60  Aligned_cols=37  Identities=24%  Similarity=0.508  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..| ||..+.|+.|.|.+.
T Consensus        57 ~~g~afV~f~~~~~a~~A~~~l~~~~~~~g~~l~v~~a   94 (107)
T 2cph_A           57 HRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWA   94 (107)
T ss_dssp             SCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEEC
T ss_pred             cCceEEEEECCHHHHHHHHHHhccCCeECCCEEEEEeC
Confidence            5899999999999999999999 999999999999874

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

Probab=98.63  E-value=4.9e-08  Score=58.68  Aligned_cols=40  Identities=23%  Similarity=0.350  Sum_probs=30.3

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhc---CCc--------eecCeEEEEEeeee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGE---DGR--------TVLGQTLVSYKLQY   76 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l---~g~--------~l~gr~i~~~~~~~   76 (89)
                      .++|||||+|.++++|++||+.|   ||+        .+.++++.+.++..
T Consensus        50 ~~~G~aFV~f~~~~~a~~Ai~~~~~~~G~~~~~~~~~~~~~~~~~v~p~~~  100 (114)
T 2dnl_A           50 PPKGYAFLLFQEESSVQALIDACLEEDGKLYLCVSSPTIKDKPVQIRPWNL  100 (114)
T ss_dssp             CTTSEEEECCSSHHHHHHHHHHSEEETTEEEEEECCSSSCSEEEEEECCCC
T ss_pred             CcccEEEEEECCHHHHHHHHHhhhhcCCcEEEeccCCCcCCCeeeccCCcc
Confidence            35899999999999999999998   666        34455555554433

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=98.62  E-value=1.4e-08  Score=62.39  Aligned_cols=61  Identities=20%  Similarity=0.145  Sum_probs=43.0

Q ss_pred             HHHHHHHHhhcCCceec--CeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCc----eecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVL--GQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGR----TVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~--g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~----~l~gr~i~~~~~   74 (89)
                      .++....++.-.|.+..  -+.+..   ..+||||||+|.+. +|++||..|||.    .+.|++|.+...
T Consensus        36 te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V~~a  105 (131)
T 2m2b_A           36 TMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINVEFA  105 (131)
T ss_dssp             CSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCCEEC
T ss_pred             CHHHHHHHHHHhCCcceeeEEEEEcCCCCCcceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEEEEC
Confidence            34445555555555432  222221   13789999999999 999999999999    999999976544

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

Probab=98.62  E-value=2.4e-08  Score=58.93  Aligned_cols=37  Identities=24%  Similarity=0.590  Sum_probs=34.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        64 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a  100 (106)
T 1p27_B           64 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDWC  100 (106)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEES
T ss_pred             eeeEEEEEECCHHHHHHHHHHhcCCEECCcEEEEEee
Confidence            4799999999999999999999999999999999764

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

Probab=98.62  E-value=2.5e-08  Score=59.76  Aligned_cols=38  Identities=16%  Similarity=0.176  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCce--ecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRT--VLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~--l~g~~i~v~~~r   39 (89)
                      +||||||+|.+.++|..|+..|+|..  +.|++|.|++++
T Consensus        56 ~kg~AFVef~~~~~A~~Av~~ln~~~~~i~Gr~i~V~~S~   95 (100)
T 3r27_A           56 KKRQALVEFEDVLGACNAVNYAADNQIYIAGHPAFVNYST   95 (100)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCEEETTEEEEEEECS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhcCCCceeCCcEEEEEecc
Confidence            58999999999999999999999875  789999998765

>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=98.62  E-value=6.2e-08  Score=65.55  Aligned_cols=56  Identities=16%  Similarity=0.094  Sum_probs=42.2

Q ss_pred             HHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          19 ACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        19 Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++.-.|.+..-+.++-..++|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        32 ~~F~~~G~i~~v~~~~~~~~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   87 (282)
T 3pgw_A           32 AIFSQFGQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYA   87 (282)
T ss_pred             HHHhccCCeEEEEEcCCCCcceEEEEEECCHHHHHHHHHHhcCCeeCCcEEEEEEe
Confidence            44444555444333332347899999999999999999999999999999976544

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.62  E-value=7.4e-08  Score=65.60  Aligned_cols=56  Identities=16%  Similarity=0.091  Sum_probs=43.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCcee------------cCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTV------------LGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l------------~gr~i~~~   72 (89)
                      ++....++.-.|.+..-   .|-.++|||||+|.++++|+.|+.+|||..|            .|+.|.+.
T Consensus       157 Ee~L~~~F~~fG~I~~v---~v~~~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~  224 (240)
T 3u1l_A          157 ESRIRFVFSRLGDIDRI---RYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVK  224 (240)
T ss_dssp             HHHHHHHHHTTSCEEEE---EEEGGGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEE
T ss_pred             HHHHHHHHHccCCEEEE---EEECCCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCCCEEEEE
Confidence            45555556556655443   3335899999999999999999999999999            89998654

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

Probab=98.62  E-value=4.9e-08  Score=59.90  Aligned_cols=36  Identities=28%  Similarity=0.620  Sum_probs=34.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++
T Consensus       104 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~  139 (140)
T 2ku7_A          104 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNL  139 (140)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHSTEEEETTEEEEEEC
T ss_pred             cCcEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            589999999999999999999999999999999875

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

Probab=98.62  E-value=2.1e-08  Score=59.71  Aligned_cols=37  Identities=22%  Similarity=0.274  Sum_probs=34.5

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      .|||||.|.+.++|++|+++|+|..+.||+|+|++.+
T Consensus        46 gG~AfV~F~~~esA~~A~~~l~G~~l~gr~i~v~~A~   82 (96)
T 2diu_A           46 GCSAILRFINQDSAERAQKRMENEDVFGNRIIVSFTP   82 (96)
T ss_dssp             TTCEEEEESSHHHHHHHHHHHTTCCSSSSCCEEESSC
T ss_pred             cCEEEEEECCHHHHHHHHHHhcCCccCCceEEEEecC
Confidence            3899999999999999999999999999999998743

>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=98.61  E-value=4.6e-08  Score=61.20  Aligned_cols=47  Identities=13%  Similarity=0.171  Sum_probs=39.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHh
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLG   58 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~   58 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|..+         +.++.+.+++.
T Consensus        87 srG~aFV~F~~~e~a~~Al~-~~g~~l~gr~i~V~~a---------~~~e~~~~~~~  133 (136)
T 2hgl_A           87 QSGEAFVELGSEDDVKMALK-KDRESMGHRYIEVFKS---------HRTEMDWVLKH  133 (136)
T ss_dssp             EEEEEEEECSSHHHHHHHHT-TTEEESSSSEEEEEEC---------CHHHHHHHHTT
T ss_pred             CCeEEEEEECCHHHHHHHHh-cCCCEECCEEEEEEEC---------ChHHHHHHHhh
Confidence            68999999999999999999 9999999999988664         45666666553

>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=98.61  E-value=1.8e-08  Score=59.19  Aligned_cols=37  Identities=14%  Similarity=0.307  Sum_probs=34.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+ .|+|..+.|+.|.|++.+
T Consensus        60 ~~g~afV~f~~~~~a~~Ai-~l~g~~~~g~~l~V~~a~   96 (100)
T 2j76_E           60 LKGFGYAEFEDLDSLLSAL-SLNEESLGNRRIRVDVAD   96 (100)
T ss_dssp             CCSCEEEEECCHHHHHHHH-HTTTCCBTTBCCCCEECC
T ss_pred             cCeEEEEEECCHHHHHHHH-hcCCCEECCeEEEEEecc
Confidence            5899999999999999999 899999999999887644

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

Probab=98.61  E-value=6e-08  Score=55.95  Aligned_cols=38  Identities=26%  Similarity=0.461  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      .++||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        43 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   80 (92)
T 2dgt_A           43 VKDYAFVHMERAEDAVEAIRGLDNTEFQGKRMHVQLST   80 (92)
T ss_dssp             CSSEEEEEESCHHHHHHHHHHHTTEEETTEEEEEEESS
T ss_pred             ECCEEEEEECCHHHHHHHHHHhCCCeeCCcEEEEEEcc
Confidence            46899999999999999999999999999999998743

>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=98.61  E-value=6.1e-08  Score=57.88  Aligned_cols=29  Identities=10%  Similarity=0.236  Sum_probs=27.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecC
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLG   66 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~g   66 (89)
                      ++|||||+|.+.++|++||..|||..+.+
T Consensus        65 ~~g~afV~f~~~~~a~~A~~~l~g~~~~~   93 (114)
T 1x5o_A           65 SRGVGFARMESTEKCEAVIGHFNGKFIKT   93 (114)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHBTCCCCC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEEcC
Confidence            58999999999999999999999999943

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

Probab=98.61  E-value=3.5e-08  Score=56.73  Aligned_cols=37  Identities=19%  Similarity=0.335  Sum_probs=34.7

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        42 ~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a~   78 (90)
T 2dnq_A           42 KNYGFVHIEDKTAAEDAIRNLHHYKLHGVNINVEASK   78 (90)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEECSS
T ss_pred             CCEEEEEECCHHHHHHHHHHhcCCccCCcEEEEEECC
Confidence            7999999999999999999999999999999998743

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

Probab=98.61  E-value=3.1e-08  Score=54.99  Aligned_cols=35  Identities=14%  Similarity=0.359  Sum_probs=32.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. |+|..+.|+.|.|++
T Consensus        40 ~~g~afV~f~~~~~a~~a~~-~~~~~~~g~~l~v~~   74 (75)
T 2mss_A           40 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             SCBEEEEECSCHHHHHHHHS-SSCCCSSSCCCEEEC
T ss_pred             cCcEEEEEECCHHHHHHHHH-CCCCEECCEEEEEEe
Confidence            57999999999999999998 999999999998864

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

Probab=98.60  E-value=6.6e-08  Score=58.51  Aligned_cols=37  Identities=27%  Similarity=0.515  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|.+.+
T Consensus        77 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a~  113 (124)
T 2jwn_A           77 PKGYAYIEFAERNSVDAAV-AMDETVFRGRTIKVLPKR  113 (124)
T ss_dssp             CEEEEEEEESSHHHHHHHH-TTTTCEETTEECEEEESS
T ss_pred             cccEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEECC
Confidence            5899999999999999999 799999999999998754

>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=98.60  E-value=4.8e-08  Score=57.51  Aligned_cols=37  Identities=30%  Similarity=0.481  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      .+|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        44 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a   80 (103)
T 2dgu_A           44 LKDYAFIHFDERDGAVKAMEEMNGKDLEGENIEIVFA   80 (103)
T ss_dssp             CSSCEEEEESSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             ECCEEEEEeCCHHHHHHHHHHHCCCccCCCEEEEEEc
Confidence            4789999999999999999999999999999999874

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

Probab=98.60  E-value=6e-08  Score=58.51  Aligned_cols=36  Identities=17%  Similarity=0.332  Sum_probs=33.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|...
T Consensus        55 ~~G~afV~F~~~~~a~~Al-~~~~~~~~gr~i~V~~a   90 (109)
T 2dnn_A           55 NNGNGLVKFLSPQDTFEAL-KRNRMLMIQRYVEVSPA   90 (109)
T ss_dssp             CCSEEEEECSSHHHHHHHH-HTTTEEETTEEEEEEEC
T ss_pred             CCeEEEEEECCHHHHHHHH-hcCCCeECCeEEEEEEC
Confidence            6899999999999999999 69999999999988653

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

Probab=98.60  E-value=2.8e-08  Score=59.69  Aligned_cols=39  Identities=18%  Similarity=0.028  Sum_probs=36.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+.+.
T Consensus        45 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a~~   83 (111)
T 1whx_A           45 GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWAPI   83 (111)
T ss_dssp             SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEEET
T ss_pred             CCCEEEEEeCCHHHHHHHHHHhCCCEECCeEEEEEECCC
Confidence            589999999999999999999999999999999987554

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

Probab=98.60  E-value=3e-08  Score=57.78  Aligned_cols=38  Identities=21%  Similarity=0.460  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeE----eEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQT----LGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~----i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.    |+|++.+
T Consensus        51 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~l~v~~a~   92 (99)
T 2div_A           51 PAGYCFVEFADLATAEKCLHKINGKPLPGATPAKRFKLNYAT   92 (99)
T ss_dssp             EEEEEEEECSCHHHHHHHHHTTTTSEESSCSSCEECCEEETT
T ss_pred             cCCEEEEEeCCHHHHHHHHHHHcCCccCCCCcceeEEEeecC
Confidence            5799999999999999999999999999998    8887643

>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=98.60  E-value=2.6e-08  Score=59.33  Aligned_cols=38  Identities=61%  Similarity=0.986  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|.+.+
T Consensus        61 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   98 (110)
T 1wf1_A           61 HKGYAFVQYSNERHARAAVLGENGRVLAGQTLDINMAG   98 (110)
T ss_dssp             ETTEEEEECSSSHHHHHHHHHHTTCEETTEECCEEESC
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEECC
Confidence            58999999999999999999999999999999998743

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

Probab=98.59  E-value=6e-08  Score=58.78  Aligned_cols=49  Identities=12%  Similarity=0.160  Sum_probs=41.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGED   60 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~   60 (89)
                      ++|||||+|.+.++|+.|+. +||..+.|+.|.|.+.         +.++.+.++....
T Consensus        60 ~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a---------~~~~~~~~~~~~~  108 (118)
T 2db1_A           60 QSGEAFVELESEDDVKLALK-KDRESMGHRYIEVFKS---------HRTEMDWVLKHSG  108 (118)
T ss_dssp             EEEEEEEEBSSHHHHHHHGG-GTTEEETTEEEEEEEE---------CHHHHHHHHHTTS
T ss_pred             CCeEEEEEECCHHHHHHHHh-cCCCeECCeEEEEEEC---------CHHHHHHHHHHhC
Confidence            58999999999999999999 9999999999988654         4566677766444

>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=98.59  E-value=4.9e-08  Score=61.26  Aligned_cols=38  Identities=32%  Similarity=0.616  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus       111 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  148 (158)
T 2kn4_A          111 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  148 (158)
T ss_dssp             SCCEEEEEESBHHHHHHHHHHSTTEESSSSEEEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEECC
Confidence            68999999999999999999999999999999998743

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

Probab=98.59  E-value=6.4e-08  Score=55.60  Aligned_cols=38  Identities=26%  Similarity=0.537  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      .++||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus        42 ~~~~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~   79 (90)
T 2dnp_A           42 VKDYAFVHMEKEADAKAAIAQLNGKEVKGKRINVELST   79 (90)
T ss_dssp             CSSCEEEEESCHHHHHHHHHHHTTCEETTEECEEEESC
T ss_pred             ECCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEECC
Confidence            46799999999999999999999999999999998743

>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=98.58  E-value=7.1e-08  Score=57.18  Aligned_cols=37  Identities=27%  Similarity=0.434  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcC------CceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGED------GRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~------g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..||      |..+.|+.|.|++.
T Consensus        56 ~~g~afV~f~~~~~A~~A~~~~~~~~~~~~~~~~g~~l~v~~a   98 (111)
T 1x4h_A           56 SKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLA   98 (111)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECC
T ss_pred             CccEEEEEECCHHHHHHHHHHhccccccCCcEEcCEEEEEEEC
Confidence            58999999999999999999999      99999999999874

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

Probab=98.58  E-value=4.3e-08  Score=57.17  Aligned_cols=36  Identities=17%  Similarity=0.412  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. |+|..+.|+.|.|.+.
T Consensus        51 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~l~V~~a   86 (99)
T 2dgs_A           51 PRGFGFITFEDEQSVDQAVN-MHFHDIMGKKVEVKRA   86 (99)
T ss_dssp             CCSEEEEEESSHHHHHHHHH-HCCCBSSSCBCEEEEC
T ss_pred             CCceEEEEECCHHHHHHHHH-hCCCEECCeEEEEEEC
Confidence            58999999999999999998 9999999999999864

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

Probab=98.58  E-value=5.5e-08  Score=59.01  Aligned_cols=37  Identities=24%  Similarity=0.274  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        75 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  111 (124)
T 2kt5_A           75 SLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  111 (124)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEEE
T ss_pred             EeeEEEEEECCHHHHHHHHHHcCCCEECCcEEEEEEe
Confidence            5899999999999999999999999999999999864

>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=98.58  E-value=2.8e-08  Score=58.11  Aligned_cols=38  Identities=24%  Similarity=0.350  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|++.+
T Consensus        50 ~kg~afV~f~~~~~a~~a~~~l~g~~~~g~~l~v~~a~   87 (99)
T 2cpj_A           50 DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFAC   87 (99)
T ss_dssp             TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEESS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEeCCceEEEEEcC
Confidence            47999999999999999999999999999999998743

>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=98.57  E-value=3.5e-08  Score=60.90  Aligned_cols=38  Identities=26%  Similarity=0.508  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        87 ~~G~afV~F~~~~~A~~Ai~~lng~~i~g~~l~V~~a~  124 (129)
T 2kxn_B           87 SRGFAFVYFENVDDAKEAKERANGMELDGRRIRVDFSI  124 (129)
T ss_dssp             CCCEEEEEESCHHHHHHHHHHHTTCCSSSSCCEESCCS
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            58999999999999999999999999999999997643

>3zzy_A Polypyrimidine tract-binding protein 1; protein binding, peptide binding, RNA recognition motif; 1.40A {Homo sapiens} PDB: 3zzz_A

Probab=98.57  E-value=1e-07  Score=59.45  Aligned_cols=38  Identities=32%  Similarity=0.566  Sum_probs=34.7

Q ss_pred             ccee-EEEEecCHHHHHHHHhhcCCceecC--eEeEEEccc
Q psy4383           2 HKGY-AFIQFSNPHDARSACLGEDGRTVLG--QTLGISMHK   39 (89)
Q Consensus         2 ~~Gf-~fV~f~~~~~a~~Ai~~l~g~~l~g--~~i~v~~~r   39 (89)
                      ++|| |||+|.+.++|+.|+..|||..++|  +.|+|+++|
T Consensus        64 ~~gfqAFVef~~~~~A~~Ai~~LnG~~i~g~~~~LrI~~ak  104 (130)
T 3zzy_A           64 NNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK  104 (130)
T ss_dssp             TTEEEEEEEESCHHHHHHHHHHHTTCEEETTEEEEEEEECS
T ss_pred             CCCcEEEEEECCHHHHHHHHHHcCCCeecCCCcEEEEEecC
Confidence            3688 9999999999999999999999999  899998765

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

Probab=98.57  E-value=7.6e-08  Score=59.73  Aligned_cols=37  Identities=30%  Similarity=0.584  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|..|+..|||..+.|+.|.|.+.
T Consensus       128 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a  164 (166)
T 3md3_A          128 SRGYGFVSFTSQDDAQNAMDSMQGQDLNGRPLRINWA  164 (166)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             cceEEEEEeCCHHHHHHHHHHhCCCccCCcEEEEEec
Confidence            5799999999999999999999999999999999764

>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=98.57  E-value=1.2e-08  Score=64.18  Aligned_cols=36  Identities=17%  Similarity=0.192  Sum_probs=32.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++|| .+|+..+.||.|.+...
T Consensus        85 srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~a  120 (139)
T 2hgn_A           85 VTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFLN  120 (139)
T ss_dssp             SSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEEC
T ss_pred             CceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEEC
Confidence            6899999999999999999 79999999999976554

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

Probab=98.57  E-value=2e-08  Score=58.87  Aligned_cols=38  Identities=32%  Similarity=0.726  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|.|++.+
T Consensus        36 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~V~~a~   73 (101)
T 2hvz_A           36 PPGFAFVEFEDPRDAEDAVRGLDGKVICGSRVRVELST   73 (101)
T ss_dssp             SSSEEEEECSSHHHHHHHHHHHHHSCSSSCCCEEEESS
T ss_pred             CCCEEEEEECCHHHHHHHHHHHCCCeECCcEEEEEEcc
Confidence            58999999999999999999999999999999998754

>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=98.57  E-value=6.2e-08  Score=59.23  Aligned_cols=37  Identities=22%  Similarity=0.428  Sum_probs=32.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee-----cCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV-----LGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l-----~g~~i~v~~~   38 (89)
                      .||||||+|.+.++|++|+..|||+.+     .++++.|.+.
T Consensus        62 ~rgfaFV~f~~~~~A~~Ai~~lnG~~~~~~lg~g~~l~v~~a  103 (114)
T 2cq2_A           62 NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFV  103 (114)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEEE
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEEccccCCCcEEEEEec
Confidence            479999999999999999999999998     6788877653

>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=98.57  E-value=1.5e-07  Score=59.00  Aligned_cols=39  Identities=28%  Similarity=0.451  Sum_probs=34.5

Q ss_pred             EEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          34 GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        34 ~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      .+..++|||||+|.++++|++|| +|||..+.|++|.+..
T Consensus        46 ~~~~~~g~afV~f~~~~~A~~A~-~~~~~~~~g~~i~v~~   84 (172)
T 2g4b_A           46 QINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRR   84 (172)
T ss_dssp             EEETTTTEEEEEESSHHHHHHHG-GGTTCEETTEECEEEC
T ss_pred             EecCCCCEEEEEeCCHHHHHHHH-HhCCcEecCceeeecC
Confidence            34458999999999999999999 8999999999997644

>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=98.57  E-value=4.9e-08  Score=56.83  Aligned_cols=37  Identities=24%  Similarity=0.464  Sum_probs=34.4

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceec--CeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVL--GQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~--g~~i~v~~~r   39 (89)
                      +|||||+|.+.++|+.|+..|||..+.  |+.|.|++.+
T Consensus        53 ~g~afV~f~~~~~A~~A~~~l~g~~~~~~g~~l~V~~a~   91 (97)
T 1why_A           53 DSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             SCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHHCCCEeCCCCcEEEEEECC
Confidence            789999999999999999999999999  9999998754

>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=98.57  E-value=4.3e-08  Score=57.69  Aligned_cols=37  Identities=27%  Similarity=0.460  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC---eEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG---QTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g---~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.+   +.|.|.+.
T Consensus        55 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~gg~~~~l~V~~a   94 (105)
T 2dnh_A           55 SKGCAFVKFSSHTEAQAAIHALHGSQTMPGASSSLVVKFA   94 (105)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHSSCCCCTTCSSCCEEEES
T ss_pred             cCcEEEEEeCCHHHHHHHHHHHcCCccCCCCCccEEEEEC
Confidence            48999999999999999999999999998   99999864

>2yh0_A Splicing factor U2AF 65 kDa subunit; PRE-mRNA splicing, transcription, RNA binding protein, mRNA processing; NMR {Homo sapiens} PDB: 2yh1_A

Probab=98.56  E-value=2e-07  Score=59.65  Aligned_cols=40  Identities=28%  Similarity=0.420  Sum_probs=35.1

Q ss_pred             EEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          34 GISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        34 ~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .+..++|||||+|.++++|++|| .|||..+.|++|.+...
T Consensus        46 ~~~~~~g~afV~F~~~~~A~~Al-~l~g~~~~g~~i~v~~~   85 (198)
T 2yh0_A           46 QINQDKNFAFLEFRSVDETTQAM-AFDGIIFQGQSLKIRRP   85 (198)
T ss_dssp             EEETTTTEEEEEESCSHHHHHHG-GGTTEEETTEEEEEECC
T ss_pred             EecCCCCEEEEEeCCHHHHHHHH-HhcCCEEcCceEEEeCC
Confidence            34458999999999999999999 89999999999976544

>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=98.56  E-value=5.5e-08  Score=58.17  Aligned_cols=36  Identities=25%  Similarity=0.465  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+ .|||..+.|+.|.|.+.
T Consensus        66 ~~g~afV~f~~~~~a~~A~-~l~g~~~~g~~l~V~~a  101 (114)
T 2cq4_A           66 SKGIAYVEFCEIQSVPLAI-GLTGQRLLGVPIIVQAS  101 (114)
T ss_dssp             CCCCEEEEESCGGGHHHHH-HHTTEEETTEEEEEEEH
T ss_pred             cCcEEEEEeCcHHHHHHHH-HcCCCEeCCeEEEEEec
Confidence            5799999999999999999 89999999999999863

>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=98.56  E-value=2e-07  Score=58.13  Aligned_cols=59  Identities=22%  Similarity=0.186  Sum_probs=41.8

Q ss_pred             HHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          15 DARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +....++.-.|.+..-+.+...   .++|||||+|.++++|++|+..|||..+.|++|.+..
T Consensus        18 ~~l~~~f~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~   79 (168)
T 1b7f_A           18 RELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSY   79 (168)
T ss_dssp             HHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             HHHHHHHHhcCCeeEEEEEEeCCCCccceEEEEEECCHHHHHHHHHhcCCCEeCCcEEEEEe
Confidence            3344444455544333322221   2679999999999999999999999999999996543

>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=98.56  E-value=4.4e-08  Score=61.23  Aligned_cols=38  Identities=34%  Similarity=0.664  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+
T Consensus       109 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~a~  146 (150)
T 2i2y_A          109 PPGFAFVEFEDPRDAADAVRELDGRTLCGCRVRVELSN  146 (150)
T ss_dssp             SCSEEEEEESSHHHHHHHHHHHSSSCSSSSCCEEEECC
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEcC
Confidence            48999999999999999999999999999999998754

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

Probab=98.56  E-value=7e-08  Score=63.38  Aligned_cols=38  Identities=24%  Similarity=0.375  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.+
T Consensus       142 ~~g~~fV~f~~~~~a~~Ai~~lng~~~~g~~i~V~~a~  179 (213)
T 4f02_A          142 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRFK  179 (213)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CceEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            57999999999999999999999999999999987643

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.55  E-value=3e-08  Score=61.11  Aligned_cols=36  Identities=17%  Similarity=0.165  Sum_probs=32.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++||.. |+..+.||.|.+...
T Consensus        67 ~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a  102 (123)
T 2dha_A           67 PTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRS  102 (123)
T ss_dssp             EEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEE
T ss_pred             EeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEEC
Confidence            689999999999999999995 999999999977654

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.55  E-value=2.5e-07  Score=65.90  Aligned_cols=53  Identities=17%  Similarity=0.276  Sum_probs=41.7

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceec
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVL   65 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~   65 (89)
                      |...++....++.-.|.+..   +.+-.+||||||+|.+.++|++||++|||+.+.
T Consensus        30 ~~~te~~L~~~F~~~G~V~~---v~~~~~kgfaFV~f~~~~~A~~Ai~~lnG~~~~   82 (345)
T 3tht_A           30 NGVSRNQLLPVLEKCGLVDA---LLMPPNKPYSFARYRTTEESKRAYVTLNGKEVV   82 (345)
T ss_dssp             GTCCHHHHHHHHHTTSCEEE---EECCTTCSEEEEEESSHHHHHHHHHHTTTCEEE
T ss_pred             CCCCHHHHHHHHHhcCCeEE---EEEeCCCCEEEEEECCHHHHHHHHHHhCCCccc
Confidence            45566777777777776532   333348999999999999999999999999984

>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=98.55  E-value=3e-08  Score=54.98  Aligned_cols=34  Identities=15%  Similarity=0.183  Sum_probs=31.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|++||. +++..+.|++|.+.
T Consensus        40 ~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~   73 (75)
T 1iqt_A           40 RRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIK   73 (75)
T ss_dssp             SCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEE
T ss_pred             cCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEE
Confidence            68999999999999999999 59999999998653

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

Probab=98.54  E-value=5.6e-08  Score=58.62  Aligned_cols=38  Identities=21%  Similarity=0.214  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcC--CceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGED--GRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~--g~~l~g~~i~v~~~r   39 (89)
                      .||||||+|.+.++|+.|+..|+  +..+.|++|.|++.+
T Consensus        51 ~kGfaFVeF~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~A~   90 (105)
T 1sjq_A           51 GKNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN   90 (105)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTSCCEETTEECCBCCCS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcC
Confidence            37999999999999999999876  478999999998754

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

Probab=98.54  E-value=4.3e-08  Score=58.41  Aligned_cols=37  Identities=22%  Similarity=0.272  Sum_probs=34.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|+.|.|.+.+
T Consensus        51 ~rG~aFV~F~~~e~a~~Ai~-~~~~~~~gr~l~V~~~~   87 (103)
T 1s79_A           51 FKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKD   87 (103)
T ss_dssp             CCCEEEEEESSHHHHHHHHT-SSCCCCTTTTCEEEEHH
T ss_pred             CccEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEch
Confidence            68999999999999999999 99999999999997643

>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=98.54  E-value=6.6e-08  Score=57.21  Aligned_cols=38  Identities=16%  Similarity=0.339  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcC--CceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGED--GRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~--g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+  +..+.|+.|.|.+.+
T Consensus        51 ~~g~afV~f~~~~~A~~A~~~l~~g~~~~~g~~l~V~~a~   90 (109)
T 2dis_A           51 NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE   90 (109)
T ss_dssp             TCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESC
T ss_pred             cCcEEEEEecCHHHHHHHHHHhhCCCceecCCeEEEEEcC
Confidence            58999999999999999999996  589999999998743

>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=98.54  E-value=4.6e-08  Score=58.54  Aligned_cols=39  Identities=21%  Similarity=0.293  Sum_probs=34.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc--eecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR--TVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~--~l~g~~i~v~~~rG   40 (89)
                      .+|||||+|.+.++|+.|+..|++.  .+.|++|.|++.+.
T Consensus        51 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~~   91 (102)
T 1x4d_A           51 KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQK   91 (102)
T ss_dssp             SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEECC
T ss_pred             CCCEEEEEECCHHHHHHHHHHHcCCCceECCcEEEEEECCC
Confidence            4699999999999999999998864  59999999987553

>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=98.54  E-value=6.5e-08  Score=56.97  Aligned_cols=37  Identities=19%  Similarity=0.337  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee---cCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV---LGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l---~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+   .+++|.|.+.
T Consensus        54 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~g~~l~v~~a   93 (106)
T 2dgp_A           54 HKGCAFLTYCERESALKAQSALHEQKTLPGMNRPIQVKPA   93 (106)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHTTTCCCTTCSSCCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHhcCCcccCCCCceEEEEEC
Confidence            579999999999999999999999988   8899999864

>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=98.54  E-value=7.3e-08  Score=62.36  Aligned_cols=39  Identities=31%  Similarity=0.426  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC--eEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g--~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..++|  +.|+|++++.
T Consensus        83 ~rgfAFVeF~d~~~A~~Ai~~LnG~~i~g~g~~L~V~~Ak~  123 (164)
T 1sjr_A           83 NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSKL  123 (164)
T ss_dssp             SCEEEEEEESCHHHHHHHHHHSTTBCSSSSCSCEEEEECSS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEecCCCcEEEEEEecC
Confidence            46899999999999999999999999976  9999987653

>3ex7_B RNA-binding protein 8A; protein-RNA complex, mRNA processing, mRNA splicing, mRNA transport, nonsense-mediated mRNA decay, nucleus; HET: ADP; 2.30A {Homo sapiens} PDB: 2j0q_D*

Probab=98.54  E-value=4.9e-08  Score=59.23  Aligned_cols=36  Identities=25%  Similarity=0.618  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+
T Consensus        63 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~l~v~~   98 (126)
T 3ex7_B           63 LKGYTLVEYETYKEAQAAMEGLNGQDLMGQPISVDW   98 (126)
T ss_dssp             BCSCEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCeeCCeEEEEEE
Confidence            589999999999999999999999999999999986

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

Probab=98.54  E-value=3.4e-08  Score=57.59  Aligned_cols=38  Identities=29%  Similarity=0.514  Sum_probs=35.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        44 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~V~~a~   81 (96)
T 2kvi_A           44 KNAFGFIQFDNPQSVRDAIECESQEMNFGKKLILEVSS   81 (96)
T ss_dssp             ETTEEEEEESCHHHHHHHHHHHTCSSCBTTTBCEEEEE
T ss_pred             eCCEEEEEECCHHHHHHHHHHcCCCeeCCcEEEEEEcC
Confidence            48999999999999999999999999999999998743

>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=98.53  E-value=3.3e-08  Score=56.69  Aligned_cols=36  Identities=19%  Similarity=0.431  Sum_probs=33.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.+ |+.|+..|||..+.|+.|.|++.
T Consensus        42 ~~g~afV~f~~~~-a~~a~~~l~g~~~~g~~l~V~~a   77 (90)
T 2ki2_A           42 PKGFGFVEMQEES-VSEAIAKLDNTDFMGRTIRVTEA   77 (90)
T ss_dssp             CCEEEEEEECTTH-HHHHHHTSCSSCCSSSSCSEEEC
T ss_pred             cceEEEEEECCHH-HHHHHHHhCCCEECCeEEEEEEc
Confidence            5899999999999 99999999999999999998764

>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=98.53  E-value=3.6e-08  Score=60.00  Aligned_cols=36  Identities=17%  Similarity=0.250  Sum_probs=33.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|.+.
T Consensus        66 ~~G~afV~F~~~~~a~~Al~-~~g~~~~gr~i~V~~a  101 (124)
T 1wel_A           66 ATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI  101 (124)
T ss_dssp             EEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             CCeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEEC
Confidence            58999999999999999999 9999999999988654

>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.53  E-value=8.2e-09  Score=58.70  Aligned_cols=37  Identities=30%  Similarity=0.394  Sum_probs=33.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.++++++
T Consensus        46 ~~g~afV~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~   82 (85)
T 1x4e_A           46 CKGYGFVDFDSPSAAQKAVTALKASGVQAQMAKQSGP   82 (85)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHTCCEESCCSSCC
T ss_pred             cCcEEEEEECCHHHHHHHHHHhcCCeEeeEEEeecCC
Confidence            5899999999999999999999999999999887653

>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=98.53  E-value=2.7e-07  Score=57.26  Aligned_cols=60  Identities=18%  Similarity=0.260  Sum_probs=42.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....+..-.|.+..-+.+.-.   .++|||||+|.++++|++|+..|||..+.|++|.+..
T Consensus        16 ~~~l~~~f~~~G~i~~v~~~~~~~~~~~~g~afV~f~~~~~A~~a~~~l~~~~~~g~~l~v~~   78 (167)
T 1fxl_A           16 QEEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSY   78 (167)
T ss_dssp             HHHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             HHHHHHHHHhcCCeEEEEEEeCCCCCcceeEEEEEECCHHHHHHHHHHcCCCccCCceEEEEe
Confidence            33344455555654433332211   2569999999999999999999999999999997543

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

Probab=98.52  E-value=3.2e-08  Score=58.13  Aligned_cols=37  Identities=22%  Similarity=0.465  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCce-ecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRT-VLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~-l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|+|.. +.|+.|.|.+.
T Consensus        50 ~~g~afV~f~~~~~a~~A~~~l~g~~~~~g~~l~v~~a   87 (104)
T 2dhg_A           50 SKGYGFVKFTDELEQKRALTECQGAVGLGSKPVRLSVA   87 (104)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHTTTCCSSSSSCCCCCBC
T ss_pred             ccceEEEEECCHHHHHHHHHHccCCcccCCEeEEEEEc
Confidence            58999999999999999999999999 99999998764

>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=98.52  E-value=1.6e-07  Score=55.06  Aligned_cols=59  Identities=12%  Similarity=0.132  Sum_probs=40.7

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      .++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++||.  ++..+.|++|.+..
T Consensus        28 t~~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~   89 (103)
T 2cqg_A           28 TEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKL   89 (103)
T ss_dssp             CHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEEC
T ss_pred             CHHHHHHHHHhcCCeEEEEEEecCCCCCccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEe
Confidence            34445555555555444333222   2368999999999999999999  47899999996443

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

Probab=98.52  E-value=1.2e-07  Score=56.73  Aligned_cols=36  Identities=19%  Similarity=0.528  Sum_probs=33.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..+++ .+.|+.|.|++.
T Consensus        58 ~~g~afV~f~~~~~a~~Ai~~~~~-~~~g~~l~V~~a   93 (116)
T 2cqd_A           58 SRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLA   93 (116)
T ss_dssp             CCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEES
T ss_pred             cceEEEEEECCHHHHHHHHHhCCC-cCCCEEEEEEEc
Confidence            579999999999999999999998 899999999863

>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=98.52  E-value=3.5e-08  Score=61.13  Aligned_cols=36  Identities=22%  Similarity=0.236  Sum_probs=31.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++||. +++..|+||.|.+...
T Consensus        83 srGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~a  118 (126)
T 2hgm_A           83 ITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFKS  118 (126)
T ss_dssp             SCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEEE
T ss_pred             CceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEEC
Confidence            68999999999999999999 5889999999976443

>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=98.51  E-value=1.3e-07  Score=56.83  Aligned_cols=36  Identities=25%  Similarity=0.288  Sum_probs=33.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.. ||..+.|+.|.|.+.
T Consensus        56 ~~G~afV~F~~~~~a~~Al~~-~~~~~~gr~i~v~~a   91 (114)
T 2cpy_A           56 GLGQALVQFKNEDDARKSERL-HRKKLNGREAFVHVV   91 (114)
T ss_dssp             CSSCEEEECSSHHHHHHHGGG-CSEEETTEEEEEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHh-CCCccCCeEEEEEEC
Confidence            689999999999999999986 999999999988653

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

Probab=98.51  E-value=4.9e-08  Score=60.59  Aligned_cols=38  Identities=32%  Similarity=0.616  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        88 ~~G~afV~F~~~~~A~~Ai~~l~g~~i~g~~l~V~~a~  125 (135)
T 2lea_A           88 SRGFAFVRFHDKRDAEDAMDAMDGAVLDGRELRVQMAR  125 (135)
T ss_dssp             CCSCCEEECSCHHHHHHHHTTTTTCCSSSSCCEEEECC
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            58999999999999999999999999999999998754

>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=98.50  E-value=7.4e-08  Score=57.59  Aligned_cols=37  Identities=22%  Similarity=0.280  Sum_probs=34.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        46 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~l~v~~a   82 (115)
T 3lqv_A           46 TRGTAYVVYEDIFDAKNAVDHLSGFNVSNRYLVVLYY   82 (115)
T ss_dssp             TTTCEEEEESSHHHHHHHHHHHTTCBSSSCBCEEEEC
T ss_pred             CCcEEEEEECCHHHHHHHHHHcCCCEECCeEEEEEEe
Confidence            4799999999999999999999999999999999863

>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=98.50  E-value=1.6e-07  Score=55.79  Aligned_cols=34  Identities=15%  Similarity=0.219  Sum_probs=32.8

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecC-----eEeEEEc
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLG-----QTLGISM   37 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g-----~~i~v~~   37 (89)
                      |||||+|.+.++|+.|+..|||..+.|     +.|.|.+
T Consensus        51 g~afV~f~~~~~a~~Ai~~l~g~~~~g~~~~~~~i~V~~   89 (108)
T 1x4c_A           51 GTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYIRVKV   89 (108)
T ss_dssp             TEEEEEESSHHHHHHHHHHSSSEEEECTTSCEEEEEEEE
T ss_pred             CEEEEEECCHHHHHHHHHHHCcCCccCCcCcceEEEEEe
Confidence            899999999999999999999999999     9999986

>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=98.50  E-value=1.2e-07  Score=59.83  Aligned_cols=38  Identities=24%  Similarity=0.433  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|||..+.|+.|.|++.+
T Consensus       135 ~~g~afV~f~~~~~A~~A~~~l~g~~~~g~~i~v~~a~  172 (175)
T 1fje_B          135 SKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYTG  172 (175)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTEEEETTEEEEEEECS
T ss_pred             CceEEEEEECCHHHHHHHHHHhCCCEECCeEEEEEecC
Confidence            68999999999999999999999999999999998643

>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=98.50  E-value=1.7e-07  Score=55.75  Aligned_cols=37  Identities=16%  Similarity=0.102  Sum_probs=33.1

Q ss_pred             ceeEEEEecCHHHHHHHHhhc--CCceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGE--DGRTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l--~g~~l~g~~i~v~~~r   39 (89)
                      ||||||+|.+.++|+.|+..|  ++..+.|++|.|++.+
T Consensus        51 kg~aFVef~~~~~A~~Ai~~l~~~~~~~~Gr~l~V~~a~   89 (101)
T 2cq1_A           51 KNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   89 (101)
T ss_dssp             TTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCcEEEEEEcC
Confidence            799999999999999999976  5788999999998754

>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=98.49  E-value=1.4e-07  Score=59.96  Aligned_cols=37  Identities=27%  Similarity=0.519  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+.
T Consensus       113 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a  149 (165)
T 1rk8_A          113 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC  149 (165)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             EeeEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            5799999999999999999999999999999999863

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

Probab=98.48  E-value=1.5e-07  Score=60.90  Aligned_cols=35  Identities=26%  Similarity=0.429  Sum_probs=32.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        69 ~~g~afV~f~~~~~A~~A~~~l~~~~~~g~~l~v~  103 (216)
T 2qfj_A           69 HKGFAFVEYEVPEAAQLALEQMNSVMLGGRNIKVG  103 (216)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHHSSCCCC-CCCEEE
T ss_pred             cCceEEEEeCCHHHHHHHHHHccCCeeCCeeEEEe
Confidence            68999999999999999999999999999999763

>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=98.47  E-value=6.9e-08  Score=64.82  Aligned_cols=37  Identities=16%  Similarity=0.178  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      +||||||+|.+.++|+.||..|||..|.|+.|.|.+.
T Consensus       111 skGfaFV~f~~~~~a~~Ai~~lng~~~~Gr~l~V~~a  147 (229)
T 3q2s_C          111 SKGFALVGVGSEASSKKLMDLLPKRELHGQNPVVTPV  147 (229)
T ss_dssp             EEEEEEEEESCTTHHHHHHTTSTTSCBTTBCCEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHHHcCCCeECCEEeEEEEC
Confidence            6899999999999999999999999999999999763

>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}

Probab=98.46  E-value=3.3e-08  Score=60.73  Aligned_cols=38  Identities=32%  Similarity=0.487  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc----eecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR----TVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~----~l~g~~i~v~~~rG   40 (89)
                      +||||||+|.+. +|+.|+..|||.    .+.|+.|.|.+.++
T Consensus        66 ~rG~aFV~f~~~-~a~~Ai~~l~g~~~~~~~~gr~l~V~~a~~  107 (131)
T 2m2b_A           66 NRGFAFIQLSTI-EAAQLLQILQALHPPLTIDGKTINVEFAKG  107 (131)
T ss_dssp             BCSCEEEECCHH-HHHHHHHHHTTCCCSCCGGGCCCCCEECCC
T ss_pred             cceEEEEEECCH-HHHHHHHHhcCCCCCccCCCEEEEEEECCC
Confidence            689999999999 999999999999    99999999987543

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

Probab=97.83  E-value=2.1e-08  Score=60.24  Aligned_cols=37  Identities=30%  Similarity=0.434  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        56 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~a   92 (116)
T 2lcw_A           56 LKGEATVSFDDPPSAKAAIDWFDGKEFSGNPIKVSFA   92 (116)
Confidence            5799999999999999999999999999999999874

>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=98.45  E-value=7.3e-08  Score=57.15  Aligned_cols=35  Identities=20%  Similarity=0.247  Sum_probs=32.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +|+..+.++.|.|..
T Consensus        54 ~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~   88 (102)
T 1wez_A           54 VTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFL   88 (102)
T ss_dssp             EEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEE
T ss_pred             EeeEEEEEECCHHHHHHHHH-hCCCeECCcEEEEEE
Confidence            68999999999999999995 899999999999875

>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=98.45  E-value=2.1e-07  Score=61.72  Aligned_cols=36  Identities=19%  Similarity=0.225  Sum_probs=33.1

Q ss_pred             cCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          39 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        39 rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        72 ~g~afV~F~~~~~A~~Ai~~l~g~~~~g~~l~v~~a  107 (229)
T 2adc_A           72 KENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS  107 (229)
T ss_dssp             SCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCeECCeEEEEEEe
Confidence            799999999999999999999999999999976443

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.45  E-value=1.8e-07  Score=58.79  Aligned_cols=64  Identities=13%  Similarity=0.076  Sum_probs=46.0

Q ss_pred             EecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCC----HHH----HHHHHH--hcCCceecCeEEEEE
Q psy4383           9 QFSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSN----PHD----ARSACL--GEDGRTVLGQTLVSY   72 (89)
Q Consensus         9 ~f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~----~~~----a~~Ai~--~l~g~~l~gr~i~~~   72 (89)
                      .+..+++....++.-.|.+..-+.+...   .++|||||+|.+    +++    |.+|+.  +|||..|+||+|++.
T Consensus        15 ~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~   91 (136)
T 2j8a_A           15 TTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVI   91 (136)
T ss_dssp             CCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEE
T ss_pred             CCCCCHHHHHHHHHhcCCeEEEEEEecCCCCceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEE
Confidence            3455667777777777755444444333   379999999996    444    899999  899999999999754

>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=98.44  E-value=2.5e-07  Score=52.58  Aligned_cols=35  Identities=14%  Similarity=0.338  Sum_probs=31.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.|.|++
T Consensus        52 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~v~~   86 (87)
T 3s7r_A           52 SRGFGFILFKDAASVEKVLD-QKEHRLDGRVIDPKK   86 (87)
T ss_dssp             EEEEEEEEESSTHHHHHHHH-SSCEEETTEEEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHH-hCCCEECCEEEEEEe
Confidence            58999999999999999996 688899999999864

>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=98.43  E-value=7.8e-08  Score=57.18  Aligned_cols=48  Identities=15%  Similarity=0.129  Sum_probs=39.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGE   59 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l   59 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|+.|.|...         +..+...++...
T Consensus        54 ~~G~afV~F~~~~~a~~Al~-~~~~~~~gr~i~V~~a---------~~~~~~~~~~~~  101 (107)
T 2lmi_A           54 RRGDALIEMESEQDVQKALE-KHRMYMGQRYVEVYEI---------NNEDVDALMKSL  101 (107)
T ss_dssp             TCSEEEEEBSSHHHHHHHHT-TTTCCSSSSCCCCEEC---------CHHHHHHHHHTT
T ss_pred             EeeEEEEEECCHHHHHHHHH-hCcceeCCeEEEEEEC---------CHHHHHHHHHhh
Confidence            68999999999999999999 9999999998877543         456666666543

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

Probab=98.43  E-value=8e-08  Score=53.37  Aligned_cols=35  Identities=11%  Similarity=0.312  Sum_probs=32.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..++ ..+.|+.|.|++
T Consensus        41 ~~g~afV~f~~~~~a~~a~~~~~-~~~~g~~l~v~~   75 (77)
T 1uaw_A           41 SRGFGFVTFMDQAGVDKVLAQSR-HELDSKTIDPKV   75 (77)
T ss_dssp             CSSEEEECCCCTTHHHHHHHTTT-CCCSSCCCEEEE
T ss_pred             cCceEEEEEcCHHHHHHHHHhCC-CccCCEEEEEEe
Confidence            57999999999999999999999 999999998864

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

Probab=98.43  E-value=2e-07  Score=54.55  Aligned_cols=59  Identities=17%  Similarity=0.189  Sum_probs=39.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+..  ..++|||||+|.+.++|++||.  +|..+.|++|.+...
T Consensus        23 ~~~l~~~F~~~G~i~~v~i~~~~~g~~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~a   83 (102)
T 2xs2_A           23 ETEIRSFFARYGSVKEVKIITDRTGVSKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGPA   83 (102)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTSCEEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEEE
T ss_pred             HHHHHHHHHhCCCeEEEEEEECCCCCccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEEC
Confidence            3444444444554433222211  1267999999999999999999  999999999975444

>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=98.42  E-value=7e-08  Score=58.76  Aligned_cols=39  Identities=18%  Similarity=0.163  Sum_probs=33.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcC--CceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGED--GRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~--g~~l~g~~i~v~~~rG   40 (89)
                      +||||||+|.+.++|+.|+..|+  +..+.|++|.|++.+.
T Consensus        61 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~l~Gr~l~V~~a~~  101 (112)
T 1x4f_A           61 MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSEK  101 (112)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEECS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEECcc
Confidence            58999999999999999999885  4569999999987543

>1x4b_A Heterogeneous nuclear ribonucleoproteins A2/B1; structure genomics, RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.41  E-value=3.4e-07  Score=54.77  Aligned_cols=36  Identities=17%  Similarity=0.367  Sum_probs=33.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.. +|..+.|+.|.|.+.
T Consensus        68 ~~g~afV~f~~~~~a~~Ai~~-~~~~~~g~~l~V~~a  103 (116)
T 1x4b_A           68 SRGFGFVTFSSMAEVDAAMAA-RPHSIDGRVVEPKRA  103 (116)
T ss_dssp             CCSEEEEECSSHHHHHHHHTS-CSEEETTEEEEEECC
T ss_pred             cCceEEEEeCCHHHHHHHHHh-CCcEECCEEEEEEEC
Confidence            579999999999999999997 999999999999873

>1ufw_A Synaptojanin 2; RNP domain, structural genomics, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=98.41  E-value=3e-07  Score=54.59  Aligned_cols=43  Identities=23%  Similarity=0.383  Sum_probs=36.7

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .|..+.+++-.+-+||+|.+.++|.+||+ |||..+.||.|++.
T Consensus        48 ~G~Vilvr~v~d~~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~   90 (95)
T 1ufw_A           48 YGTIVLVRINQGQMLVTFADSHSALSVLD-VDGMKVKGRAVKIS   90 (95)
T ss_dssp             HSCCSEEEEETTEEEEECSCSHHHHHHHH-GGGSEETTEEEEEE
T ss_pred             CCCEEEEEEecCcEEEEEcChHHHHHHHh-cCCeeeCCeEEEEe
Confidence            45566666666669999999999999998 99999999999754

>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=98.41  E-value=1.9e-07  Score=55.15  Aligned_cols=36  Identities=22%  Similarity=0.215  Sum_probs=33.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.. ++..+.|+.|.|..+
T Consensus        56 ~~G~afV~F~~~~~a~~A~~~-~~~~~~gr~i~v~~~   91 (104)
T 1wg5_A           56 STGEAFVQFASQEIAEKALKK-HKERIGHRYIEIFKS   91 (104)
T ss_dssp             BCSEEEEEESSHHHHHHHHTT-TTCCSSSSCCEEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHh-CcchhCCcEEEEEEC
Confidence            589999999999999999997 999999999998653

>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=98.39  E-value=1e-07  Score=57.04  Aligned_cols=38  Identities=18%  Similarity=0.182  Sum_probs=33.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc--eecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR--TVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~--~l~g~~i~v~~~r   39 (89)
                      .||||||+|.+.++|+.|+..|++.  .+.|++|.|++.+
T Consensus        50 ~kg~aFVef~~~~~A~~Ai~~l~~~~~~i~Gr~l~V~~a~   89 (104)
T 1wex_A           50 FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             CCCEEEEEECCHHHHHHHHHHhccCCceECCEEEEEEEcc
Confidence            4799999999999999999988664  5899999998754

>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=98.39  E-value=8.5e-07  Score=59.84  Aligned_cols=56  Identities=18%  Similarity=0.206  Sum_probs=41.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+.   .+.+..++|||||+|.+.++|++||..|||..+.|++|.+.
T Consensus        36 e~~l~~~F~~~G~i~---~v~i~~~kg~afV~f~~~~~A~~A~~~l~g~~i~g~~l~v~   91 (261)
T 3sde_A           36 EEDFKRLFERYGEPS---EVFINRDRGFGFIRLESRTLAEIAKAELDGTILKSRPLRIR   91 (261)
T ss_dssp             HHHHHHHTGGGCCCS---EEEEETTTTEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHHHHHHHhcCCEE---EEEEeCCCcEEEEEECCHHHHHHHHHHcCCcEECCceeEee
Confidence            333444444444422   23444579999999999999999999999999999999654

>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=98.39  E-value=2e-07  Score=55.58  Aligned_cols=36  Identities=11%  Similarity=0.207  Sum_probs=31.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee--------cCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV--------LGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l--------~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+        .+++|.|.+
T Consensus        65 ~~g~afV~f~~~~~a~~A~~~l~g~~~~~~~~~~~~~~~l~v~~  108 (114)
T 1x5o_A           65 SRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTEPLLCKF  108 (114)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSSCBEEEE
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEEcCCccccCCCCceeEEc
Confidence            579999999999999999999999999        466677654

>2dh8_A DAZ-associated protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.39  E-value=1.7e-07  Score=55.18  Aligned_cols=36  Identities=17%  Similarity=0.408  Sum_probs=33.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.. +|..+.|+.|.|.+.
T Consensus        57 ~~g~afV~f~~~~~a~~a~~~-~~~~~~g~~l~V~~a   92 (105)
T 2dh8_A           57 SRGFGFVKFKDPNCVGTVLAS-RPHTLDGRNIDPKPC   92 (105)
T ss_dssp             EEEEEEEEESSTTHHHHHHHH-CSEEETTEEEBCCCS
T ss_pred             cceEEEEEECCHHHHHHHHHh-CCCeECCEEEEEEEc
Confidence            579999999999999999998 999999999998763

>3tht_A Alkylated DNA repair protein ALKB homolog 8; structural genomics, PSI-biology, northeast structural genom consortium, NESG; HET: AKG; 3.01A {Homo sapiens} PDB: 3thp_A*

Probab=98.38  E-value=1.3e-06  Score=62.14  Aligned_cols=59  Identities=20%  Similarity=0.435  Sum_probs=46.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec---Ce--EeEEEc--------------ccCeEEE-EeCCHHHHHHHHHhcC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL---GQ--TLGISM--------------HKGYAFI-QFSNPHDARSACLGED   60 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~---g~--~i~v~~--------------~rG~afV-~F~~~~~a~~Ai~~l~   60 (89)
                      +||||||+|.+.++|++|+..|||+.+.   |+  ++.+.+              ..|.-++ .|-+.++++.-++.++
T Consensus        55 ~kgfaFV~f~~~~~A~~Ai~~lnG~~~~~~~g~~~~ly~~~~~~~~~~~~~~~~lp~Gl~~~p~fis~~Ee~~Ll~~i~  133 (345)
T 3tht_A           55 NKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKITLYLNFVEKVQWKELRPQALPPGLMVVEEIISSEEEKMLLESVD  133 (345)
T ss_dssp             TCSEEEEEESSHHHHHHHHHHTTTCEEECTTSCEEECEEEECSSEEEEEEECCSCCTTEEEETTCSCHHHHHHHHTTCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCccccccCCceEEEEEEeecccccccccccCCCceEEEcCcCCHHHHHHHHHhcc
Confidence            6899999999999999999999999883   44  454442              4564444 6778888888777776

>2e5i_A Heterogeneous nuclear ribonucleoprotein L-like; RRM domain, RBD, structural genomics, NPPSFA; NMR {Mus musculus}

Probab=98.38  E-value=4.4e-07  Score=56.04  Aligned_cols=38  Identities=24%  Similarity=0.316  Sum_probs=33.7

Q ss_pred             cee-EEEEecCHHHHHHHHhhcCCceecC--eEeEEEcccC
Q psy4383           3 KGY-AFIQFSNPHDARSACLGEDGRTVLG--QTLGISMHKG   40 (89)
Q Consensus         3 ~Gf-~fV~f~~~~~a~~Ai~~l~g~~l~g--~~i~v~~~rG   40 (89)
                      .|| |||+|.+.++|+.|+..|||..+.|  +.|+|.+.+.
T Consensus        61 ~Gf~aFVef~~~~~A~~A~~~LnG~~i~g~~~~l~V~~Ak~  101 (124)
T 2e5i_A           61 NGIQAMVEFESVLCAQKAKAALNGADIYAGCCTLKIEYARP  101 (124)
T ss_dssp             SSEEEEEEESSHHHHHHHHHHHTTCCCBTTBSEEEEECCSC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhCCCEecCCCeEEEEEEecC
Confidence            386 9999999999999999999999988  5899987653

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

Probab=98.37  E-value=2.7e-07  Score=59.74  Aligned_cols=37  Identities=24%  Similarity=0.274  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus       128 ~kG~afV~F~~~~~A~~Ai~~lng~~l~Gr~l~V~~a  164 (177)
T 2f3j_A          128 SLGTADVHFERRADALKAMKQYKGVPLDGRPMDIQLV  164 (177)
T ss_dssp             CSCCEEEEESCHHHHHHHHHHSTTCBCSSSBCEEEEE
T ss_pred             EeeEEEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEe
Confidence            5799999999999999999999999999999999864

>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=98.37  E-value=2.1e-07  Score=58.20  Aligned_cols=53  Identities=19%  Similarity=0.127  Sum_probs=39.2

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEE-----cccCeEEEEeCCHHHHHHHHHhcCCceec
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGIS-----MHKGYAFIQFSNPHDARSACLGEDGRTVL   65 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~-----~~rG~afV~F~~~~~a~~Ai~~l~g~~l~   65 (89)
                      .++....++.-.|.+..-+.+.-.     .++|||||+|.+.++|++|+..|||..+.
T Consensus        16 te~~l~~~F~~~G~i~~v~i~~~~~~~~~~~~g~afV~f~~~~~A~~A~~~l~~~~~~   73 (175)
T 3nmr_A           16 SEKDLRELFEQYGAVYEINVLRDRSQNPPQSKGCCFVTFYTRKAALEAQNALHNMKVL   73 (175)
T ss_dssp             CHHHHHHHHHTTSCEEEEEEEEECSSSSCEEEEEEEEEESSHHHHHHHHHHHTTTCCC
T ss_pred             CHHHHHHHHHhCCCEEEEEEEecCCCCCCCcceEEEEEECCHHHHHHHHHHhcCcEEc
Confidence            344455555566765554444432     47899999999999999999999999886

>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=98.36  E-value=1.9e-07  Score=57.37  Aligned_cols=37  Identities=22%  Similarity=0.246  Sum_probs=33.3

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCC--ceecCeEeEEEccc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDG--RTVLGQTLGISMHK   39 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g--~~l~g~~i~v~~~r   39 (89)
                      ||||||+|.+.++|+.|+..|++  ..+.|++|.|.+.+
T Consensus        67 kG~AFVeF~~~e~A~~Ai~~l~~~~~~l~Gr~l~V~~a~  105 (119)
T 2ad9_A           67 KNQAFIEMNTEEAANTMVNYYTSVTPVLRGQPIYIQFSN  105 (119)
T ss_dssp             GTEEEEECSCHHHHHHHHHHHHHHCCCBTTBCCEEEECS
T ss_pred             CCEEEEEECCHHHHHHHHHHhccCCceECCeEEEEEEcc
Confidence            79999999999999999998874  68999999998754

>1qm9_A Polypyrimidine tract-binding protein; ribonucleoprotein, RNP, RNA, spicing, translation; NMR {Homo sapiens} SCOP: d.58.7.1 d.58.7.1

Probab=98.36  E-value=2.4e-07  Score=59.61  Aligned_cols=56  Identities=16%  Similarity=0.190  Sum_probs=41.7

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEc---ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISM---HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~---~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.     ...|.+   .+|||||+|.+.++|++||..|||..+.|++|.+...
T Consensus        18 ~~~l~~~F~~~G~-----i~~v~i~~~~~g~afV~f~~~~~a~~A~~~l~~~~~~g~~l~v~~a   76 (198)
T 1qm9_A           18 PQSLFILFGVYGD-----VQRVKILFNKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLS   76 (198)
T ss_dssp             HHHHHHHHHTTCC-----CSEEECSTTCSSCCEEECTTTHHHHHHHHHHTTCCCSSCCCEEEEC
T ss_pred             HHHHHHHHHhcCC-----EEEEEEEeCCCCEEEEEECCHHHHHHHHHHhCCCeecCeEEEEEEe
Confidence            3444445545554     333333   3799999999999999999999999999999976544

>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*

Probab=98.35  E-value=5.2e-07  Score=65.70  Aligned_cols=38  Identities=29%  Similarity=0.612  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.||..|||..|.|+.|.|.+.+
T Consensus       143 ~kG~aFV~F~~~e~A~~Ai~~lng~~i~gr~i~V~~a~  180 (437)
T 3pgw_S          143 PRGYAFIEYEHERDMHSAYKHADGKKIDGRRVLVDVER  180 (437)
T ss_pred             ccceEEEeeccHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            58999999999999999999999999999999998754

>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=98.35  E-value=7.3e-07  Score=58.33  Aligned_cols=62  Identities=18%  Similarity=0.158  Sum_probs=42.1

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ..++....++.-.|.+..-+.+..  ..++|||||+|+++++|++||..+ +..+.|++|.+...
T Consensus       121 ~t~~~L~~~F~~~G~v~~v~i~~~~~~~~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~  184 (193)
T 2voo_A          121 ATLDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFK  184 (193)
T ss_dssp             CCHHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEET
T ss_pred             CCHHHHHHHHhcCCCEEEEEEEECCCCCcccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEh
Confidence            344445555555555443332221  126899999999999999999865 45999999976543

>2rs2_A Musashi-1, RNA-binding protein musashi homolog 1; protein-RNA complex, RRM, RBD, RNA binding protein- complex; NMR {Mus musculus}

Probab=98.34  E-value=5.8e-07  Score=53.60  Aligned_cols=36  Identities=11%  Similarity=0.290  Sum_probs=32.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..+ +..+.|+.|.|.+.
T Consensus        66 ~kg~afV~f~~~~~A~~Ai~~~-~~~l~g~~l~V~~a  101 (109)
T 2rs2_A           66 SRGFGFVTFMDQAGVDKVLAQS-RHELDSKTIDPKVA  101 (109)
T ss_dssp             CTTCEEEEESSHHHHHHHHHSS-CEEETTEEEEEEEC
T ss_pred             cCcEEEEEECCHHHHHHHHHHC-CCcCCCEEEEEEEc
Confidence            5899999999999999999976 59999999998764

>2dha_A FLJ20171 protein; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.34  E-value=4.2e-07  Score=55.90  Aligned_cols=47  Identities=13%  Similarity=0.089  Sum_probs=39.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHh
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLG   58 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~   58 (89)
                      ++|||||+|.+.++|+.|+.. |+..+.++.|.|...         +.++...++..
T Consensus        67 ~~G~aFV~F~~~~~A~~Al~~-~~~~l~gR~i~V~~a---------~~~e~~~~~~~  113 (123)
T 2dha_A           67 PTGDAFVLFACEEYAQNALRK-HKDLLGKRYIELFRS---------TAAEVQQVLNR  113 (123)
T ss_dssp             EEEEEEECCSSHHHHHHHHTT-TTEESSSCEECCEEE---------CHHHHHHHHHH
T ss_pred             EeeEEEEEECCHHHHHHHHHh-CCCeeCCeEEEEEEC---------CHHHHHHHHHh
Confidence            589999999999999999985 999999998877543         56777777764

>2d9o_A DNAJ (HSP40) homolog, subfamily C, member 17; RRM domain, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.34  E-value=4.7e-07  Score=53.91  Aligned_cols=36  Identities=28%  Similarity=0.374  Sum_probs=31.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..+++  +.+++|+|.+.+
T Consensus        53 ~rGfaFVeF~~~~~A~~Ai~~~~~--~~g~~l~V~~a~   88 (100)
T 2d9o_A           53 KPGTAVVEFATVKAAELAVQNEVG--LVDNPLKISWLE   88 (100)
T ss_dssp             SSSEEEEEESCHHHHHHHHHTCCB--CSSSBCEEECSS
T ss_pred             CCCEEEEEECCHHHHHHHHHhcCC--CCCCeEEEEEcc
Confidence            689999999999999999998655  579999998743

>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=98.33  E-value=7.8e-07  Score=56.71  Aligned_cols=60  Identities=10%  Similarity=0.180  Sum_probs=42.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+..   ..++|||||+|.+.++|++||.. ++..+.|+.|.+...
T Consensus        27 e~~l~~~F~~~G~i~~v~i~~~~~~g~~~g~afV~f~~~~~A~~A~~~-~~~~~~g~~l~v~~~   89 (196)
T 1l3k_A           27 DESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMNA-RPHKVDGRVVEPKRA   89 (196)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHT-CSCEETTEECEEEEC
T ss_pred             HHHHHHHHHhCCCEEEEEEEEcCCCCCccceEEEEeCCHHHHHHHHhc-CCCEECCEEeeeecc
Confidence            4444455555565444333322   12689999999999999999985 999999999976554

>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=98.32  E-value=1.9e-07  Score=51.60  Aligned_cols=35  Identities=17%  Similarity=0.280  Sum_probs=31.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.+.|++
T Consensus        40 ~~g~afV~f~~~~~a~~Ai~-~~~~~~~g~~l~v~~   74 (75)
T 1iqt_A           40 RRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIKV   74 (75)
T ss_dssp             SCCCEEEECSSSHHHHHHHT-TSSCCBTTBCCCEEE
T ss_pred             cCCEEEEEECCHHHHHHHHH-hCCCeECCEEEEEEE
Confidence            58999999999999999998 589999999988763

>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=98.28  E-value=1.4e-06  Score=50.91  Aligned_cols=35  Identities=14%  Similarity=0.301  Sum_probs=31.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.  ++..+.|+.|.|.+.
T Consensus        56 ~~g~afV~f~~~~~a~~A~~--~~~~~~g~~l~v~~a   90 (103)
T 2cqg_A           56 SKGFGFVRFTEYETQVKVMS--QRHMIDGRWCDCKLP   90 (103)
T ss_dssp             EEEEEEEEESSHHHHHHHHH--SCEEETTEEEEEECC
T ss_pred             ccceEEEEECCHHHHHHHHH--cCCeeCCeEEEEEec
Confidence            57999999999999999998  477899999999874

>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=98.28  E-value=4.5e-07  Score=54.55  Aligned_cols=29  Identities=17%  Similarity=0.218  Sum_probs=28.3

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeE
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQT   32 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~   32 (89)
                      |||||+|.+.++|+.|+..|||..+.|+.
T Consensus        52 g~afV~f~~~~~a~~Ai~~l~g~~~~gr~   80 (115)
T 3beg_B           52 GTGVVEFVRKEDMTYAVRKLDNTKFRSHE   80 (115)
T ss_dssp             SEEEEEESSHHHHHHHHHHHTTCBCCCTT
T ss_pred             CEEEEEECCHHHHHHHHHHhCCCEECCcE
Confidence            89999999999999999999999999988

>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=98.25  E-value=1.4e-06  Score=50.24  Aligned_cols=59  Identities=15%  Similarity=0.133  Sum_probs=37.0

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCcee--cCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTV--LGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l--~gr~i~~~~~   74 (89)
                      +...++....++.-.|.+..-+.+.  -+||||||+|+++++|++    |+|..+  .|++|.+...
T Consensus        21 ~~~te~~L~~~F~~~G~i~~v~i~~--~srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~a   81 (89)
T 3d2w_A           21 EDMTAEELQQFFCQYGEVVDVFIPK--PFRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISNA   81 (89)
T ss_dssp             TTCCHHHHHHHHTTTSCEEEEECCS--SCCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEEC
T ss_pred             CCCCHHHHHHHHhccCCEEEEEEee--CCCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEEc
Confidence            3344555555555555433322221  168999999999999983    566655  4888875543

>3dxb_A Thioredoxin N-terminally fused to PUF60(UHM); splicing, FBP interacting repressor, RRM, electron TRAN redox-active center, transport; 2.20A {Escherichia coli O157}

Probab=98.24  E-value=7.1e-07  Score=58.87  Aligned_cols=36  Identities=19%  Similarity=0.241  Sum_probs=33.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|++||+|.+.++|++|+..|||+.+.||+|.+.+
T Consensus       174 ~~G~~fv~f~~~~~a~~a~~~l~gr~~~gr~i~~~~  209 (222)
T 3dxb_A          174 IIVKIFVEFSIASETHKAIQALNGRWFAGRKVVAEV  209 (222)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCBSSSSBCEEEE
T ss_pred             ceeEEEEEECCHHHHHHHHHHhcCceECCeEEEEEE
Confidence            579999999999999999999999999999998864

>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=98.24  E-value=1.7e-07  Score=58.90  Aligned_cols=35  Identities=17%  Similarity=0.254  Sum_probs=32.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+ .+|+..+.++.|.|..
T Consensus        85 srGfaFV~F~~~e~A~~Al-~~~g~~l~gR~i~V~~  119 (139)
T 2hgn_A           85 VTGEADVEFATHEEAVAAM-SKDRANMQHRYIELFL  119 (139)
T ss_dssp             SSCCCEEECSHHHHHHHHT-TCCSCSSSSCCCCCEE
T ss_pred             CceEEEEEeCCHHHHHHHH-hhCCCEECCEEEEEEE
Confidence            6899999999999999999 7999999999998865

>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=98.24  E-value=6.9e-07  Score=55.63  Aligned_cols=36  Identities=11%  Similarity=0.357  Sum_probs=33.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|+.|.|.+.
T Consensus       128 ~~g~afV~f~~~~~a~~A~~-~~~~~~~g~~i~V~~a  163 (167)
T 2cjk_A          128 SRGFGFVTYDSADAVDRVCQ-NKFIDFKDRKIEIKRA  163 (167)
T ss_dssp             TSEEEEEEESSHHHHHHHHH-CSEECSSSSCEEEEEC
T ss_pred             cceEEEEEECCHHHHHHHHh-CCCEEeCCeEEEEeec
Confidence            57999999999999999998 8999999999999764

>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=98.21  E-value=4.1e-07  Score=56.29  Aligned_cols=35  Identities=20%  Similarity=0.193  Sum_probs=31.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.|.|..
T Consensus        83 srGfaFV~F~~~e~A~~Al~-~~~~~l~gR~I~V~~  117 (126)
T 2hgm_A           83 ITGEAFVQFASQELAEKALG-KHKERIGHRYIEVFK  117 (126)
T ss_dssp             SCSEEEEEESSTTHHHHHHT-TTTCCBTTBCCCCEE
T ss_pred             CceEEEEEECCHHHHHHHHH-HCCCEECCEEEEEEE
Confidence            68999999999999999998 578999999988764

>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}

Probab=98.19  E-value=1.3e-06  Score=54.84  Aligned_cols=39  Identities=21%  Similarity=0.311  Sum_probs=32.4

Q ss_pred             CcceeEEEEecC----HHH----HHHHHh--hcCCceecCeEeEEEccc
Q psy4383           1 MHKGYAFIQFSN----PHD----ARSACL--GEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         1 ~~~Gf~fV~f~~----~~~----a~~Ai~--~l~g~~l~g~~i~v~~~r   39 (89)
                      .++|||||+|.+    +++    |..|+.  .++|..+.|+.|+|.+.+
T Consensus        46 ~slGfgfVef~d~~g~~d~a~kAA~kAi~~~~lng~~I~Gr~irV~ln~   94 (136)
T 2j8a_A           46 LPLHVYLIKYASSDGKINDAAKAAFSAVRKHESSGCFIMGFKFEVILNK   94 (136)
T ss_dssp             CEEEEEEEECC------CCHHHHHHHHHHHTTTTCEEETTEEEEEEECC
T ss_pred             ceeeEEEEEECCCCCCcchHHHHHHHHHHHhhhcCCeecCcEEEEEECc
Confidence            479999999996    444    788988  899999999999999755

>3u1l_A PRE-mRNA-splicing factor CWC2; CSMP, zinc finger; 1.64A {Saccharomyces cerevisiae} PDB: 3u1m_A 3tp2_A

Probab=98.18  E-value=1.1e-06  Score=59.87  Aligned_cols=38  Identities=21%  Similarity=0.251  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee------------cCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV------------LGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l------------~g~~i~v~~~r   39 (89)
                      +||||||+|.+.++|+.|+..|+|..+            .|+.|.|.+.+
T Consensus       178 ~kG~AFV~F~~~~~Ae~A~~am~g~~l~~~~~~e~~~~~~gr~L~V~wA~  227 (240)
T 3u1l_A          178 SKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWAN  227 (240)
T ss_dssp             GGTEEEEEESSHHHHHHHHHHHTTCCCCCTTSTTGGGGGGSCCCEEEECC
T ss_pred             CCCEEEEEeCCHHHHHHHHHHhCCCEEeccccccccccCCCCEEEEEEcc
Confidence            589999999999999999999999999            89999998754

>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=98.16  E-value=2.6e-06  Score=55.68  Aligned_cols=39  Identities=23%  Similarity=0.319  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCe
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY   41 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~   41 (89)
                      ++|||||+|.+.++|+.|+..+ +..+.|+.|.|.+.+-|
T Consensus       149 ~kG~aFVeF~~~e~A~~A~~~~-~~~~~Gr~l~V~~~~~y  187 (193)
T 2voo_A          149 FKGSIFVVFDSIESAKKFVETP-GQKYKETDLLILFKDDY  187 (193)
T ss_dssp             EEEEEEEEESSHHHHHHHHHCT-TCEETTEECEEEETTTC
T ss_pred             cccEEEEEECCHHHHHHHHHhC-CCeECCEEEEEEEhHHH
Confidence            5899999999999999999855 45899999999876643

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

Probab=98.14  E-value=2.5e-06  Score=49.21  Aligned_cols=36  Identities=19%  Similarity=0.172  Sum_probs=32.9

Q ss_pred             ceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           3 KGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         3 ~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      .|.|||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        54 ~~~afV~f~~~~~a~~Ai~~l~g~~~~g~~l~V~~a   89 (96)
T 2e44_A           54 TAVVNVTYSSKDQARQALDKLNGFQLENFTLKVAYI   89 (96)
T ss_dssp             SEEEEEEESSHHHHHHHHHHHTTCBCSSCBCEEEEC
T ss_pred             CCEEEEEECCHHHHHHHHHHhCCCEECCcEEEEEEc
Confidence            356999999999999999999999999999999764

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

Probab=98.13  E-value=1.3e-06  Score=51.00  Aligned_cols=34  Identities=26%  Similarity=0.441  Sum_probs=30.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+.  +|..+.|+.|.|..
T Consensus        49 ~~g~afV~f~~~~~a~~Ai~--~~~~~~g~~l~v~~   82 (102)
T 2xs2_A           49 SKGYGFVSFYNDVDVQKIVE--SQINFHGKKLKLGP   82 (102)
T ss_dssp             EEEEEEEEESSCCCHHHHTT--CCCEETTEECEEEE
T ss_pred             ccceEEEEECCHHHHHHHHh--CCCeECCEEEEEEE
Confidence            57999999999999999998  88899999988764

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

Probab=98.12  E-value=2.2e-06  Score=49.47  Aligned_cols=32  Identities=9%  Similarity=0.243  Sum_probs=30.7

Q ss_pred             eEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           5 YAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         5 f~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ||||+|.+.++|+.|+. |||..+.|+.|.|++
T Consensus        47 ~afV~f~~~~~a~~ai~-l~g~~~~g~~l~V~~   78 (94)
T 2e5g_A           47 FAIVEMGDVGAREAVLS-QSQHSLGGHRLRVRP   78 (94)
T ss_dssp             EEEEEESSHHHHHHHHT-CSCCEETTEECCCBC
T ss_pred             EEEEEECCHHHHHHHHh-cCCeEECCEEEEEEE
Confidence            99999999999999999 999999999999875

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

Probab=98.10  E-value=2.5e-06  Score=51.05  Aligned_cols=32  Identities=22%  Similarity=0.212  Sum_probs=24.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      ++|||||+|.+.++|+.|+..|+  .+.|+.+.+
T Consensus        51 ~~G~aFV~f~~~~~a~~Ai~~~~--~~~G~~~~~   82 (114)
T 2dnl_A           51 PKGYAFLLFQEESSVQALIDACL--EEDGKLYLC   82 (114)
T ss_dssp             TTSEEEECCSSHHHHHHHHHHSE--EETTEEEEE
T ss_pred             cccEEEEEECCHHHHHHHHHhhh--hcCCcEEEe
Confidence            58999999999999999999882  244444433

>2dnr_A Synaptojanin-1; RRM domain, RBD, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}

Probab=98.08  E-value=5.8e-06  Score=48.68  Aligned_cols=35  Identities=17%  Similarity=0.337  Sum_probs=31.9

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +.+||+|.+.++|.+|+. |||..++||.|+|++.+
T Consensus        50 d~~fVtF~d~~sAlaAi~-mnG~~v~Gr~LkV~lkt   84 (91)
T 2dnr_A           50 DKMWVTFLEGSSALNVLS-LNGKELLNRTITIALKS   84 (91)
T ss_dssp             SSEEEEESSHHHHHHGGG-GTTCEETTEEEEEEECC
T ss_pred             CCEEEEECChHHHHHHHh-cCCeEeCCeEEEEEeCC
Confidence            458999999999999998 99999999999998643

>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=98.07  E-value=4.1e-06  Score=47.66  Aligned_cols=35  Identities=20%  Similarity=0.374  Sum_probs=26.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.+.++|++|+..  ...+.|++|.+...
T Consensus        41 ~~g~afV~f~~~~~a~~~~~~--~~~~~g~~l~v~~a   75 (88)
T 1wf0_A           41 FRAFAFVTFADDQIAQSLCGE--DLIIKGISVHISNA   75 (88)
T ss_dssp             CCSCCEEECSCHHHHHHTTTC--EEEETTEEEEEECC
T ss_pred             CCCEEEEEECCHHHHHHHhcC--CceeCCEEEEEEec
Confidence            689999999999999865332  34558898865443

>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=97.88  E-value=1.2e-05  Score=47.73  Aligned_cols=31  Identities=32%  Similarity=0.429  Sum_probs=29.8

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +||+|.+.++|.+|+. |||..+.||.|+|+.
T Consensus        61 ~fVtF~d~~sAl~AI~-ldG~~v~Gr~L~V~~   91 (95)
T 1ufw_A           61 MLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             EEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             EEEEEcChHHHHHHHh-cCCeeeCCeEEEEec
Confidence            8999999999999998 999999999999975

>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=97.86  E-value=2.3e-05  Score=45.00  Aligned_cols=33  Identities=27%  Similarity=0.451  Sum_probs=25.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee--cCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV--LGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l--~g~~i~v~~~   38 (89)
                      +||||||+|.+.++|+.    ++|..+  .|+.+.|...
T Consensus        47 srGfaFV~F~~~~~A~~----~~~~~~~~~g~~v~v~~a   81 (89)
T 3d2w_A           47 FRAFAFVTFADDKVAQS----LCGEDLIIKGISVHISNA   81 (89)
T ss_dssp             CCSEEEEEESCHHHHHH----HTTCEEEETTEEEEEEEC
T ss_pred             CCCEEEEEECCHHHHHH----HcCCCcccCCEEEEEEEc
Confidence            58999999999999883    556554  4888888653

>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=97.63  E-value=3.3e-05  Score=43.80  Aligned_cols=34  Identities=26%  Similarity=0.470  Sum_probs=26.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.++..  ...+.++.|.|.+
T Consensus        41 ~~g~afV~f~~~~~a~~~~~~--~~~~~g~~l~v~~   74 (88)
T 1wf0_A           41 FRAFAFVTFADDQIAQSLCGE--DLIIKGISVHISN   74 (88)
T ss_dssp             CCSCCEEECSCHHHHHHTTTC--EEEETTEEEEEEC
T ss_pred             CCCEEEEEECCHHHHHHHhcC--CceeCCEEEEEEe
Confidence            589999999999999865332  3445888888876

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.00026  Score=43.09  Aligned_cols=44  Identities=16%  Similarity=0.132  Sum_probs=37.8

Q ss_pred             eEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          31 QTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        31 ~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +.|......|=|+|+|.|...|.+|.-+|||.++.||+|+.-++
T Consensus        54 ~KI~L~pDH~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~gTv   97 (117)
T 2l9w_A           54 RKILLVSDFNGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSGTI   97 (117)
T ss_dssp             SEEEEETTTTEEEEECSCHHHHHHHHHHHSSEEETTEEEEEECH
T ss_pred             eEEEEecCCCceEEEEccchhhHHHHhhcCCeeecCeEEEecCH
Confidence            35555566777999999999999999999999999999987665

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=97.21  E-value=0.00071  Score=41.52  Aligned_cols=46  Identities=15%  Similarity=0.164  Sum_probs=35.6

Q ss_pred             cCeEeEEEcccC--eEEEEeCC-HHHHHHHHHhc--CCceecCeEEEEEee
Q psy4383          29 LGQTLGISMHKG--YAFIQFSN-PHDARSACLGE--DGRTVLGQTLVSYKL   74 (89)
Q Consensus        29 ~g~~i~v~~~rG--~afV~F~~-~~~a~~Ai~~l--~g~~l~gr~i~~~~~   74 (89)
                      +|.+..|.+.+|  .|||+|.+ +++|+.|+.+|  +|..|.|..+++-.|
T Consensus        43 ~G~V~~Vd~~~g~~tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL   93 (121)
T 1owx_A           43 HGEIKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVL   93 (121)
T ss_dssp             SCCEEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEEC
T ss_pred             cCCEEEEEEecCCCEEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEEC
Confidence            455666766544  79999999 89999999999  488888977765443

>2l9w_A U4/U6 snRNA-associated-splicing factor PRP24; RRM, U6 snRNP, RNA binding protein; NMR {Saccharomyces cerevisiae}

Probab=95.48  E-value=0.024  Score=34.43  Aligned_cols=33  Identities=18%  Similarity=0.186  Sum_probs=30.4

Q ss_pred             eeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           4 GYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         4 Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      |-|+|+|.+...|-+|.-.|+|.++.|++|+|.
T Consensus        63 ~GAivef~d~~~AgKasLaL~G~ef~gr~Lr~g   95 (117)
T 2l9w_A           63 NGAIIIFRDSKFAAKMLMILNGSQFQGKVIRSG   95 (117)
T ss_dssp             TEEEEECSCHHHHHHHHHHHSSEEETTEEEEEE
T ss_pred             CceEEEEccchhhHHHHhhcCCeeecCeEEEec
Confidence            449999999999999998999999999999885

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=95.45  E-value=0.022  Score=34.00  Aligned_cols=34  Identities=35%  Similarity=0.389  Sum_probs=31.7

Q ss_pred             EEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          42 AFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        42 afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ..|.|.+.++|.+|-..|++..+.|++++++..|
T Consensus        49 irv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YFgq   82 (104)
T 1wey_A           49 VRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             EEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             EEEEeCChHHHHHHHHHhccceecCceeEEEecC
Confidence            6789999999999999999999999999988776

>1owx_A Lupus LA protein, SS-B, LA; RRM, transcription; NMR {Homo sapiens} SCOP: d.58.7.1

Probab=95.25  E-value=0.012  Score=35.91  Aligned_cols=36  Identities=11%  Similarity=0.186  Sum_probs=30.1

Q ss_pred             eEEEEecC-HHHHHHHHhhcC--CceecCeEeEEEcccC
Q psy4383           5 YAFIQFSN-PHDARSACLGED--GRTVLGQTLGISMHKG   40 (89)
Q Consensus         5 f~fV~f~~-~~~a~~Ai~~l~--g~~l~g~~i~v~~~rG   40 (89)
                      .|||.|.+ .++|+.|+.++|  |.++.+..+++.+..|
T Consensus        57 tgfVrf~~~~~~A~~av~~ln~~~~~i~g~~~~~evL~G   95 (121)
T 1owx_A           57 EGIILFKEKAKEALGKAKDANNGNLQLRNKEVTWEVLEG   95 (121)
T ss_dssp             EEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEEEECCH
T ss_pred             EEEEEECCChHHHHHHHHHhhcCCcEEeCcEEEEEECCC
Confidence            69999999 899999999994  7788888877766554

>1wwh_A Nucleoporin 35, nucleoporin; structural genomics, MPPN, riken structural genomics/proteomics initiative, RSGI, protein transport; 2.70A {Mus musculus} SCOP: d.58.7.1

Probab=94.32  E-value=0.15  Score=31.10  Aligned_cols=44  Identities=23%  Similarity=0.258  Sum_probs=32.9

Q ss_pred             cCeEeEEEc--ccCeEEEEeCCHHHHHHHHHhcCCceecC-eEEEEEe
Q psy4383          29 LGQTLGISM--HKGYAFIQFSNPHDARSACLGEDGRTVLG-QTLVSYK   73 (89)
Q Consensus        29 ~g~~i~v~~--~rG~afV~F~~~~~a~~Ai~~l~g~~l~g-r~i~~~~   73 (89)
                      .|.++....  ...+-.|+|+++.+|++||. .||..++| -.|-+++
T Consensus        47 ~G~Iv~~~~~~~~NWihI~Y~s~~~A~rAL~-kNG~ii~g~~mIGV~p   93 (119)
T 1wwh_A           47 YGNILKHVMSNTGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKP   93 (119)
T ss_dssp             TSCEEEEEECSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEE
T ss_pred             hCcEEEeccCCCCCeEEEEeCCHHHHHHHHH-hCCeEecCCEEEEEEE
Confidence            344444444  45789999999999999999 79999986 4454443

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=93.69  E-value=0.14  Score=31.78  Aligned_cols=32  Identities=31%  Similarity=0.429  Sum_probs=28.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ..++--|+|+++.+|.+||. -||..++|..|=
T Consensus        61 g~NWikItYds~~~A~rAL~-~NG~ii~G~mIG   92 (132)
T 3p3d_A           61 GNSWTKITYDNPASAVDALL-ENGAVFNGVLLG   92 (132)
T ss_dssp             ETTEEEEEBSSHHHHHHHHT-TTTCEETTEECE
T ss_pred             CCcEEEEEcCCHHHHHHHHH-hCCeEeCcEEEE
Confidence            35788999999999999999 999999997543

>1wey_A Calcipressin 1; structural genomics, RRM domain, riken structural genomics/proteomics initiative, RSGI, RNA binding protein; NMR {Mus musculus} SCOP: d.58.7.1

Probab=91.89  E-value=0.14  Score=30.48  Aligned_cols=32  Identities=31%  Similarity=0.405  Sum_probs=29.3

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .-|.|.++++|.+|-..|++..+.|+.++|-+
T Consensus        49 irv~F~~~~~A~~AR~~Lh~~~f~g~~~r~YF   80 (104)
T 1wey_A           49 VRINFSNPLSAADARLRLHKTEFLGKEMKLYF   80 (104)
T ss_dssp             EEEECSSTTHHHHHHHTSTTSEETTEECEEEC
T ss_pred             EEEEeCChHHHHHHHHHhccceecCceeEEEe
Confidence            46899999999999999999999999998854

>3p3d_A Nucleoporin 53; structural genomics, PSI-2, protein structure initiative, NE structural genomix research consortium, nysgxrc; 2.35A {Pichia guilliermondii}

Probab=87.85  E-value=0.67  Score=28.66  Aligned_cols=29  Identities=38%  Similarity=0.578  Sum_probs=25.4

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      --|.|.+..+|++|+. .||+++.|..|-|
T Consensus        65 ikItYds~~~A~rAL~-~NG~ii~G~mIGV   93 (132)
T 3p3d_A           65 TKITYDNPASAVDALL-ENGAVFNGVLLGV   93 (132)
T ss_dssp             EEEEBSSHHHHHHHHT-TTTCEETTEECEE
T ss_pred             EEEEcCCHHHHHHHHH-hCCeEeCcEEEEE
Confidence            4799999999999998 9999999986644

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

Probab=86.94  E-value=1.9  Score=25.59  Aligned_cols=45  Identities=18%  Similarity=0.152  Sum_probs=33.9

Q ss_pred             ecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          28 VLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        28 l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      -.|....|+...+-|+|+|.+.+.|++-|+ ..-+.|.+..|.+..
T Consensus        36 GGG~V~~v~~~~~~AvItF~d~~va~rVL~-k~~H~L~~~~LsV~P   80 (104)
T 2dhx_A           36 GGGPVLSWQRLGCGGVLTFREPADAERVLA-QADHELHGAQLSLRP   80 (104)
T ss_dssp             CCCCEEEEEEETTEEEEEESSHHHHHHHHT-CSCCBSSSSBCEEEE
T ss_pred             CCceeeEEEEcCCcEEEEEcChHHHHHHhc-CCcceecCeEEEEEc
Confidence            345555666555789999999999999988 456778888887644

---

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	89
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	1e-06
d2dita1	99	d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Huma	3e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	1e-06
d2f9da1	114	d.58.7.1 (A:12-125) Pre-mRNA branch site protein p	5e-06
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	3e-05
d1wf2a_	98	d.58.7.1 (A:) Heterogeneous nuclear ribonucleoprot	2e-04
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.002
d2u2fa_	85	d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit	0.002
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	0.003
d1weya_	104	d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus)	0.004
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	0.004
d2cqga1	90	d.58.7.1 (A:96-185) TAR DNA-binding protein 43, TD	0.004

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.7 bits (95), Expect = 1e-06
 Identities = 15/66 (22%), Positives = 24/66 (36%), Gaps = 10/66 (15%)

Query: 21 LGEDGRTVLGQTLGIS-------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK 73
          + ED R    +   I           G A + F +P +A       DGR   G+ +    
Sbjct: 32 IREDLRVECSKFGQIRKLLLFDRHPDGVASVSFRDPEEADYCIQTLDGRWFGGRQI---T 88

Query: 74 LQYYNG 79
           Q ++G
Sbjct: 89 AQAWDG 94

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]} Length = 99

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.5 bits (92), Expect = 3e-06
 Identities = 10/40 (25%), Positives = 15/40 (37%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG 40
             G A + F +P +A       DGR   G+ +      G
Sbjct: 55 HPDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDG 94

>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 = 40.8 bits (95), Expect = 1e-06
 Identities = 9/39 (23%), Positives = 19/39 (48%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK 39
            +G A++ + +  DA++AC    G  V  + L +  + 
Sbjct: 44 ETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYYN 82

>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 = 39.2 bits (91), Expect = 5e-06
 Identities = 11/37 (29%), Positives = 19/37 (51%), Gaps = 1/37 (2%)

Query: 37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL-VSY 72
            +G A++ + +  DA++AC    G  V  + L V Y
Sbjct: 44 ETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLY 80

>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 = 36.8 bits (85), Expect = 3e-05
 Identities = 21/40 (52%), Positives = 30/40 (75%)

Query: 30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          G+ +G S+HKG+AF+Q+ N  +AR+A  GEDGR + GQ L
Sbjct: 41 GKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVL 80

>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 = 34.8 bits (80), Expect = 2e-04
 Identities = 19/37 (51%), Positives = 28/37 (75%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM 37
          +HKG+AF+Q+ N  +AR+A  GEDGR + GQ L I++
Sbjct: 48 VHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINL 84

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 32.3 bits (73), Expect = 0.002
 Identities = 12/55 (21%), Positives = 25/55 (45%), Gaps = 10/55 (18%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSA 55
          + KGYAF ++ + +    A  G +G  +  + L          +Q ++   A++A
Sbjct: 41 LSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL---------LVQRASV-GAKNA 85

>d2u2fa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]} Length = 85

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 31.9 bits (72), Expect = 0.002
 Identities = 9/33 (27%), Positives = 17/33 (51%)

Query: 37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTL 69
          + KGYAF ++ + +    A  G +G  +  + L
Sbjct: 41 LSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKL 73

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 32.1 bits (72), Expect = 0.003
 Identities = 12/41 (29%), Positives = 14/41 (34%)

Query: 35 ISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ 75
                   I FSNP  A  A L       LG+ +  Y  Q
Sbjct: 42 YFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ 82

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]} Length = 104

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 31.3 bits (70), Expect = 0.004
 Identities = 10/39 (25%), Positives = 14/39 (35%)

Query: 1  MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK 39
                 I FSNP  A  A L       LG+ + +   +
Sbjct: 44 KSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ 82

>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 = 31.1 bits (70), Expect = 0.004
 Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 3/31 (9%)

Query: 1  MHKGYAFIQFSNPHDARSACLGE---DGRTV 28
            KG+ F++F+               DGR  
Sbjct: 48 HSKGFGFVRFTEYETQVKVMSQRHMIDGRWC 78

>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 = 31.1 bits (70), Expect = 0.004
 Identities = 7/31 (22%), Positives = 11/31 (35%), Gaps = 3/31 (9%)

Query: 37 MHKGYAFIQFSNPHDARSACLGE---DGRTV 64
            KG+ F++F+               DGR  
Sbjct: 48 HSKGFGFVRFTEYETQVKVMSQRHMIDGRWC 78

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	89
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	99.44
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	99.34
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	99.23
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.13
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	99.1
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	99.1
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	99.09
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.08
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	99.07
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	99.07
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	99.07
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	99.06
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.06
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	99.06
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	99.04
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	99.04
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	99.02
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	99.02
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	99.02
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	99.02
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	99.01
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	99.01
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	99.01
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	99.01
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	99.01
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	99.0
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	99.0
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	99.0
d1h2vz_	93	CBP20, 20KDa nuclear cap-binding protein {Human (H	98.99
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.99
d2cpfa1	85	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.99
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	98.99
d1wf2a_	98	Heterogeneous nuclear ribonucleoproteins C1/C2 {Hu	98.98
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.98
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	98.98
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	98.98
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	98.97
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.96
d1cvja1	80	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.96
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.96
d2ghpa1	81	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.95
d1rk8a_	88	RNA-binding protein 8 {Fruit fly (Drosophila melan	98.95
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.95
d1b7fa1	82	Sex-lethal protein {Drosophila melanogaster [TaxId	98.95
d1no8a_	78	Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 1	98.94
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.94
d1x5ta1	83	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.94
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.94
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	98.93
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.93
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.92
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.92
d2cq0a1	90	Eukaryotic translation initiation factor 3 subunit	98.92
d1fxla1	82	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.92
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.91
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.91
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.91
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.91
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	98.91
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	98.91
d1cvja2	89	Poly(A)-binding protein {Human (Homo sapiens) [Tax	98.91
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	98.9
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.89
d2cpia1	89	E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musc	98.88
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.88
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.88
d2cpza1	102	CUG triplet repeat RNA-binding protein 1 {Human (H	98.88
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.88
d1wg1a_	88	Probable RNA-binding protein KIAA1579 {Human (Homo	98.88
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	98.87
d2cpda1	86	APOBEC1 stimulating protein {Human (Homo sapiens)	98.87
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.87
d1wi6a1	75	Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (M	98.87
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.87
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	98.87
d2cqpa1	86	RNA-binding protein 12 {Mouse (Mus musculus) [TaxI	98.87
d2cpea1	101	RNA-binding protein EWS {Human (Homo sapiens) [Tax	98.86
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	98.86
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.85
d2cqca1	83	Arginine/serine-rich splicing factor 10 {Human (Ho	98.84
d1x5ua1	93	Splicing factor 3B subunit 4 {Human (Homo sapiens)	98.84
d2cpha1	94	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.83
d1x4ga1	96	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.83
d1whwa_	99	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.83
d2cqba1	89	Peptidyl-prolyl cis-trans isomerase E, N-terminal	98.83
d2cqha1	80	IGF-II mRNA-binding protein 2 isoform A {Human (Ho	98.83
d1x4aa1	95	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.82
d2ghpa3	86	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.82
d2cq3a1	93	RNA-binding protein 9 {Human (Homo sapiens) [TaxId	98.82
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.82
d1u6fa1	139	RNA-binding protein UBP1 {Trypanosoma cruzi [TaxId	98.82
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	98.81
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.81
d1fjeb1	91	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.8
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.8
U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}" target="_blank" href="http://scop.mrc-lmb.cam.ac.uk/scop/search.cgi?sid=d1jmta_">d1jmta_	104	U2	98.8
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	98.8
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	98.8
d2f9da1	114	Pre-mRNA branch site protein p14 {Human (Homo sapi	98.8
d2bz2a1	79	Negative elongation factor E, NELF-E {Human (Homo	98.79
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	98.79
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.78
d2adca1	109	Polypyrimidine tract-binding protein {Human (Homo	98.77
d1nu4a_	91	Splicesomal U1A protein {Human (Homo sapiens) [Tax	98.77
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	98.76
d2cqia1	90	Nucleolysin TIAR {Human (Homo sapiens) [TaxId: 960	98.76
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.76
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.76
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.76
d1x5sa1	90	Cold-inducible RNA-binding protein {Human (Homo sa	98.76
d2cpxa1	102	RNA-binding protein 41, RBM41 {Human (Homo sapiens	98.75
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.75
d1fjca_	96	Nucleolin {Golden hamster (Mesocricetus auratus) [	98.75
d2adca2	88	Polypyrimidine tract-binding protein {Human (Homo	98.73
d1weya_	104	Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090	98.73
d2dita1	99	HIV Tat-specific factor 1 {Human (Homo sapiens) [T	98.73
d1b7fa2	85	Sex-lethal protein {Drosophila melanogaster [TaxId	98.73
d1p1ta_	104	Cleavage stimulation factor, 64 kda subunit {Human	98.72
d2u2fa_	85	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.72
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.69
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.69
d2cq4a1	101	RNA binding protein 23 {Human (Homo sapiens) [TaxI	98.69
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	98.68
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.68
d1whxa_	111	Probable RNA-binding protein 19, Rbm19 {Mouse (Mus	98.67
d1fxla2	85	Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9	98.66
d2cpja1	86	Non-POU domain-containing octamer-binding protein,	98.66
d1x5oa1	101	RNA-binding motif, single-stranded-interacting pro	98.64
d1l3ka2	79	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.64
d1zh5a2	85	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.63
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	98.63
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.63
d2msta_	75	Neural RNA-binding protein Musashi-1 {Mouse (Mus m	98.62
d2b0ga1	83	Splicesomal U1A protein {Drosophila melanogaster [	98.61
d2cqda1	103	RNA-binding region containing protein 1 {Human (Ho	98.61
d1hd0a_	75	Heterogeneous nuclear ribonucleoprotein d0 {Human	98.6
d2cpya1	103	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.6
d1u2fa_	90	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.59
d1uawa_	77	Musashi-1 {Mouse (Mus musculus) [TaxId: 10090]}	98.59
d1x4ea1	72	RNA-binding motif, single-stranded-interacting pro	98.59
d1x4ha1	98	RNA-binding protein 28 {Mouse (Mus musculus) [TaxI	98.58
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.58
d1weza_	102	Heterogeneous nuclear ribonucleoprotein H' {Human	98.58
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.57
d3begb1	87	Splicing factor, arginine/serine-rich 1, SFRS1 {Hu	98.56
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	98.56
d1l3ka1	84	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.55
d1x4ba1	103	Heterogeneous nuclear ribonucleoproteins A2/B1 {Hu	98.55
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.54
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.54
d1wi8a_	104	Eukaryotic translation initiation factor 4B {Human	98.53
d1wg4a_	98	Splicing factor, arginine/serine-rich 9 (SFRS9) {M	98.53
d2ghpa2	75	U4/U6 snRNA-associated-splicing factor PRP24 {Bake	98.53
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.52
d2cqga1	90	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.47
d2disa1	96	Hypothetical protein FLJ20273 {Human (Homo sapiens	98.47
d2adba1	108	Polypyrimidine tract-binding protein {Human (Homo	98.45
d1wg5a_	104	Heterogeneous nuclear ribonucleoprotein H' {Human	98.41
d1o0pa_	104	Splicing factor U2AF 65 KDa subunit {Human (Homo s	98.4
d2cq1a1	88	Polypyrimidine tract-binding protein 2, PTBP2 {Hum	98.39
d1x0fa1	75	Nuclear ribonucleoprotein D0 (AUF1) {Human (Homo s	98.36
d1whya_	97	Putative RNA-binding protein 15B, Rbm15b {Mouse (M	98.34
d1x4fa1	99	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.31
d1wwha1	81	Nucleoporin 35 {Mouse (Mus musculus) [TaxId: 10090	98.3
d1wela1	112	RNA-binding protein 12 {Human (Homo sapiens) [TaxI	98.29
d1wf0a_	88	TAR DNA-binding protein 43, TDP-43 {Human (Homo sa	98.25
d1x4da1	89	Matrin 3 {Mouse (Mus musculus) [TaxId: 10090]}	98.24
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	98.2
d1wexa_	104	Heterogeneous nuclear ribonucleoprotein L-like {Mo	98.17
d2cq2a1	101	Alkylation repair AlkB homolog 8, ALKBH8 {Human (H	98.09
d1u1qa_	183	Nuclear ribonucleoprotein A1 (RNP A1, UP1) {Human	98.06
d1owxa_	113	Lupus LA protein {Human (Homo sapiens) [TaxId: 960	97.57
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	96.88
d1ufwa_	95	Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]	94.71
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	94.32
d2dgxa1	73	Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 960	94.19

>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=99.44  E-value=3.2e-13  Score=85.40  Aligned_cols=70  Identities=19%  Similarity=0.388  Sum_probs=58.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc--------------------------------------------
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM--------------------------------------------   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~--------------------------------------------   37 (89)
                      ++|||||+|.+.++|+.|+. +++..+.++.+.+..                                            
T Consensus        47 ~~g~afv~f~~~~~a~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~V~~lp~~~te~~L~~~f~~~G~v~  125 (183)
T d1u1qa_          47 SRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIE  125 (183)
T ss_dssp             EEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEECCCTTGGGSTTTTCCCSEEEEECCCTTCCHHHHHHHHGGGSCEE
T ss_pred             ccCceecccCCHHHHHHHHH-hcCCcccccchhhhhhhhcccccccccccccceeEEccCCCcCCHHHHhhhhccCCcee
Confidence            57999999999999999998 556666666555431                                            


Q ss_pred             ------------ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 ------------HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ------------~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                                  ++|||||+|.++++|++||. +++..+.|++|.+..
T Consensus       126 ~~~i~~~~~~~~~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~  172 (183)
T d1u1qa_         126 VIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRK  172 (183)
T ss_dssp             EEEEEECTTTCCEEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEE
T ss_pred             eeeeecccccCccceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEe
Confidence                        67899999999999999997 899999999997653

>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=99.34  E-value=1.6e-12  Score=76.04  Aligned_cols=44  Identities=48%  Similarity=0.826  Sum_probs=40.0

Q ss_pred             cCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          29 LGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        29 ~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +|.+..+.++||||||+|++.++|++||+.|||..+.|++|.+.
T Consensus        40 ~G~i~~~~i~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~   83 (98)
T d1wf2a_          40 YGKIVGCSVHKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDIN   83 (98)
T ss_dssp             SSCEEEEEEETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEE
T ss_pred             cCCEEEEEEeCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            56677888899999999999999999999999999999999643

>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=99.23  E-value=2.5e-11  Score=69.46  Aligned_cols=68  Identities=16%  Similarity=0.120  Sum_probs=51.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeeeecceeccCCCCC
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQYYNGCRYVSPTPT   88 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~~~~~~~~~~~~~   88 (89)
                      ++....+++-.|    -+.+.+..++|||||+|.+.++|++||..|||..+.|++|.   +++.+...-.++.|.
T Consensus        19 ~~~l~~lF~~~G----~~~~~~~~~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~---V~~a~~~~~~~~~ps   86 (88)
T d1wg1a_          19 CQEVHDLLKDYD----LKYCYVDRNKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLI---VQLQPTDALLCSGPS   86 (88)
T ss_dssp             HHHHHHHTCSSC----CCCEEEEGGGTEEEECCSCHHHHHHHHHHHTTEEETTEEEE---EEECCCCCCCSCCCT
T ss_pred             hHHHHHHHHhcC----ceeeeeeccCCceEEEECCHHHHHHHHHHhCCCEECCEEEE---EEEcCCCCCCCCCCC
Confidence            333444444444    24456778999999999999999999999999999999996   456666666777665

>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=99.13  E-value=6.3e-11  Score=66.99  Aligned_cols=61  Identities=18%  Similarity=0.294  Sum_probs=46.8

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEEE------cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGIS------MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v~------~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ..++....++.-.|.+...+.+.-.      .+||||||+|.++++|++||+.|||..+.|++|.+.
T Consensus        10 ~t~~~l~~~F~~~G~v~~v~i~~~~~~~~~~~~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~   76 (85)
T d2cpfa1          10 TTEETLKGVFSKVGAIKSCTISKKKNKAGVLLSMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVR   76 (85)
T ss_dssp             CCHHHHHHHHHTTSCEEEEEEEEEECTTCCEEEEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEE
T ss_pred             CCHHHHHHHHHHhCCccccceecccccccccccceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            3345555666667776665554432      368999999999999999999999999999999653

>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=99.10  E-value=1.4e-10  Score=64.77  Aligned_cols=36  Identities=22%  Similarity=0.181  Sum_probs=33.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.++++|++||+.|||..+.|++|.+..
T Consensus        40 ~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~   75 (78)
T d1no8a_          40 SLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL   75 (78)
T ss_dssp             SCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            689999999999999999999999999999997543

>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=99.10  E-value=1.5e-10  Score=64.94  Aligned_cols=59  Identities=22%  Similarity=0.200  Sum_probs=43.0

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.-.   .++|||||+|.++++|++||+.|||..+.|++|.+.
T Consensus        16 ~~~l~~~F~~~G~v~~~~i~~~~~~g~~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~   77 (82)
T d1b7fa1          16 DRELYALFRAIGPINTCRIMRDYKTGYSYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVS   77 (82)
T ss_dssp             HHHHHHHHHTTSCEEEEECCEETTTTEECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHHHHHHHHhCCcceeeeeeecccCCccccceEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            33344555556654443333221   368999999999999999999999999999999643

>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=99.09  E-value=6.6e-11  Score=70.16  Aligned_cols=62  Identities=19%  Similarity=0.225  Sum_probs=46.1

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ..++....++.-.|.+..-+...-..++|||||+|.+.++|..||..|||..|.|++|.+..
T Consensus        19 ~te~~l~~~F~~~G~v~~i~~~~~~~~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~   80 (114)
T d2f9da1          19 ITAEEMYDIFGKYGPIRQIRVGNTPETRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLY   80 (114)
T ss_dssp             CCHHHHHHHHHTTSCEEEEEEECSTTTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             CCHHHHHHHHhhcCCeEeecccccCCcCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            34455566666667655433322223689999999999999999999999999999997543

>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=99.08  E-value=9.1e-11  Score=66.03  Aligned_cols=61  Identities=16%  Similarity=0.193  Sum_probs=44.4

Q ss_pred             HHHHHHHhhcCCceecCeEe-EE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTL-GI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i-~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.......+ .-   ..++|||||+|.+.++|++||+.|||..+.|++|.+...
T Consensus        12 e~~l~~~F~~~G~i~~~~~i~~~~~~g~~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~a   76 (83)
T d1x5ta1          12 EKLLYDTFSAFGVILQTPKIMRDPDTGNSKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSYA   76 (83)
T ss_dssp             HHHHHHHHHTTSCBSSCCEECCCTTTCSCCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEES
T ss_pred             HHHHHHHHHHhCceeeeEEEEeeccccccCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEEe
Confidence            44444555556665443222 11   136899999999999999999999999999999975443

>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=99.07  E-value=1.5e-10  Score=65.21  Aligned_cols=62  Identities=18%  Similarity=0.224  Sum_probs=45.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +...++....+++-.|.+..-+.+.-   ..++|||||+|.+.++|++||.+|||..+.||+|++
T Consensus        19 ~~~te~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          19 LYTTERDLREVFSKYGPIADVSIVYDQQSRRSRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             SSCCHHHHHHHHHTTSCEEEEEEEECSSSSSEEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             CCCCHHHHHHHHHHhCCCccccccccccccccccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            33444555555556676544433321   136899999999999999999999999999999974

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.07  E-value=1e-10  Score=69.00  Aligned_cols=34  Identities=24%  Similarity=0.400  Sum_probs=32.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.+.++|++|+..|||++++||+|.+
T Consensus        67 ~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v  100 (104)
T d1jmta_          67 LVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHA  100 (104)
T ss_dssp             SEEEEEEEESCHHHHHHHHHHHTTCEETTEECCE
T ss_pred             EeeEEEEEEechhHHHHHHHHHCCCEECCEEEEE
Confidence            6899999999999999999999999999999953

>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=99.07  E-value=1.9e-10  Score=65.84  Aligned_cols=34  Identities=24%  Similarity=0.267  Sum_probs=31.6

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.++++|++||++|||..+.||+|++
T Consensus        55 ~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkv   88 (89)
T d2cpia1          55 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKA   88 (89)
T ss_dssp             CCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             cceEEEEecccchhHHHHHHHhCCCEECCEEEEE
Confidence            3489999999999999999999999999999964

>d1weya_ d.58.7.1 (A:) Calcipressin-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Calcipressin-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.06  E-value=3.6e-10  Score=66.56  Aligned_cols=57  Identities=21%  Similarity=0.111  Sum_probs=44.7

Q ss_pred             HHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          15 DARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +....++.-.|..+.-+   +..++|||||+|.+.++|++||.+|||..+.|++|.+...
T Consensus        25 ~~l~~lF~~~G~i~~~~---~~k~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a   81 (104)
T d1weya_          25 AKFESLFRTYDKDTTFQ---YFKSFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFA   81 (104)
T ss_dssp             HHHHHHHHTTCSSCEEE---EETTTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECC
T ss_pred             HHHHHHhcccccceEEE---EecCCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeec
Confidence            34455555566655433   3358899999999999999999999999999999976554

>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=99.06  E-value=9.1e-11  Score=65.81  Aligned_cols=59  Identities=17%  Similarity=0.175  Sum_probs=42.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+...+.+.-   ..++|||||+|.++++|+.||+.|||..+.||+|++.
T Consensus        14 e~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~   75 (80)
T d1cvja1          14 EAMLYEKFSPAGPILSIRVCRDMITRRSLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIM   75 (80)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEE
T ss_pred             HHHHHHHHHHhCCEeEEEEEecccccCCCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3444444444554443333321   1268999999999999999999999999999999753

>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=99.06  E-value=9.2e-11  Score=68.14  Aligned_cols=66  Identities=20%  Similarity=0.189  Sum_probs=46.0

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeeee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQY   76 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~~   76 (89)
                      ...++....++...|.+..-+.+.-   ..++|||||+|.+.++|++||+.|||..+.||+|.+.....
T Consensus        19 ~~t~~~l~~~F~~~g~v~~v~i~~d~~tg~~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a~~   87 (99)
T d1whwa_          19 TSSEEDLEKLFSAYGPLSELHYPIDSLTKKPKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPSTI   87 (99)
T ss_dssp             TCCHHHHHHHHHTTSCEEEEECCCCTTTCCCCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEECCC
T ss_pred             cCCHHHHHHHHHhcCCceeeeecccccccccCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECCC
Confidence            3344445555545554332222111   12689999999999999999999999999999998766543

>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=99.04  E-value=7.9e-11  Score=67.27  Aligned_cols=61  Identities=16%  Similarity=0.213  Sum_probs=43.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+...+.+.. .-++|||||+|.++++|++||+.|||..+.|++|.+...
T Consensus        22 ~~~l~~~F~~~G~v~~~~i~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a   83 (89)
T d1cvja2          22 NKALYDTFSAFGNILSCKVVCDENGSKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   83 (89)
T ss_dssp             HHHHHHHHHTTSCEEEEEECCBTTBCCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEEC
T ss_pred             HHHHHHHHHhcCCceEEEEEeecCCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            3444444545555433332221 126899999999999999999999999999999975443

>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=99.04  E-value=1.1e-10  Score=67.38  Aligned_cols=60  Identities=22%  Similarity=0.198  Sum_probs=42.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+...-..++|||||+|.++++|+.||+.|||..+.|++|.+-.
T Consensus        28 ~~~l~~~F~~~G~v~~~~~~~~~~~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~   87 (95)
T d1x4aa1          28 TKDIEDVFYKYGAIRDIDLKNRRGGPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEF   87 (95)
T ss_dssp             HHHHHHHHGGGSCEEEEEECCSSSSSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             HHHHHHHHhcCCceEEEEecccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEe
Confidence            344445554555443322221224789999999999999999999999999999997543

>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=99.02  E-value=1.8e-10  Score=64.51  Aligned_cols=35  Identities=29%  Similarity=0.455  Sum_probs=31.8

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .++|||||+|.++++|++||+.|||..+.|++|.+
T Consensus        41 ~~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V   75 (81)
T d2ghpa1          41 TSRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVT   75 (81)
T ss_dssp             --CCEEEEECSSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             cccceeEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            48999999999999999999999999999999964

>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=99.02  E-value=2.5e-10  Score=65.03  Aligned_cols=58  Identities=21%  Similarity=0.247  Sum_probs=42.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|++|+..|||..+.|++|.+
T Consensus        21 ~~~l~~~F~~~G~i~~v~i~~d~~tg~~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V   81 (88)
T d1rk8a_          21 EDEIQEKFCDYGEIKNIHLNLDRRTGFSKGYALVEYETHKQALAAKEALNGAEIMGQTIQV   81 (88)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTSSEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             HHHHHHHHHHcCCcccccccccccccccccceeEEECCHHHHHHHHHHcCCCEECCEEEEE
Confidence            3344444445565444433322   136899999999999999999999999999999964

>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=99.02  E-value=5.2e-10  Score=62.08  Aligned_cols=41  Identities=20%  Similarity=0.125  Sum_probs=37.0

Q ss_pred             eEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          31 QTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        31 ~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ..+.+..++|||||+|.+.++|++|+..|||..+.|++|.+
T Consensus        25 ~~~~~~~~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V   65 (75)
T d1wi6a1          25 KYCFVDKYKGTAFVTLLNGEQAEAAINTFHQSRLRERELSV   65 (75)
T ss_dssp             EEEEEETTTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEE
T ss_pred             cceeecccceeEEEEECCHHHHHHHHHHhCCccCCCCEEEE
Confidence            44566789999999999999999999999999999999963

>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=99.02  E-value=2.3e-10  Score=65.87  Aligned_cols=59  Identities=12%  Similarity=0.095  Sum_probs=42.2

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .++....++.-.|.+..-+.+.-   ..++|||||+|.+.++|+.||+.|||..++|++|.+
T Consensus        20 te~~l~~~F~~~G~i~~v~i~~~~~~~~~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   81 (93)
T d1h2vz_          20 TEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYYSRADAENAMRYINGTRLDDRIIRT   81 (93)
T ss_dssp             CHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHTTTSEETTEECEE
T ss_pred             CHHHHHHHHHHHCCcceeccccccccccccceEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            34445555555554333222221   126899999999999999999999999999999964

>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=99.01  E-value=5e-10  Score=62.62  Aligned_cols=58  Identities=19%  Similarity=0.276  Sum_probs=42.7

Q ss_pred             HHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          15 DARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        15 ~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +....+..-.|....-+.+.-   ..++|||||+|.++++|++|++.|||..+.|++|.+.
T Consensus        17 ~~l~~~f~~~G~v~~v~i~~~~~~~~~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~   77 (82)
T d1fxla1          17 EEFRSLFGSIGEIESCKLVRDKITGQSLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVS   77 (82)
T ss_dssp             HHHHHHHHTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             HHHHHHHHHhCCcccccceeeccCCCceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            334444445665544443321   2478999999999999999999999999999999754

>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=99.01  E-value=2.4e-10  Score=65.84  Aligned_cols=59  Identities=20%  Similarity=0.189  Sum_probs=42.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+...+.+.-   ..++|||||+|.+.++|++||+.|||..+.|++|.+.
T Consensus        23 ~~~l~~~F~~~G~v~~v~~~~d~~tg~~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~   84 (93)
T d1x5ua1          23 EPLLWELFLQAGPVVNTHMPKDRVTGQHQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVN   84 (93)
T ss_dssp             HHHHHHHHHTTSCEEEEECCBCSSSCSBCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEE
T ss_pred             HHHHHHHHHHhCCccccceeecccccccccceEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            3444444545555443322221   1378999999999999999999999999999999753

>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=99.01  E-value=5.5e-10  Score=63.88  Aligned_cols=42  Identities=26%  Similarity=0.359  Sum_probs=36.1

Q ss_pred             CeEeEEEc-----ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          30 GQTLGISM-----HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        30 g~~i~v~~-----~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      |..+.|.+     ++|||||+|.+.++|.+|+++|||..+.|++|.+
T Consensus        32 G~i~~i~~~~~~~~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v   78 (91)
T d1nu4a_          32 GQILDILVSRSLKMRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRI   78 (91)
T ss_dssp             SCEEEEECCHHHHHTTCEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             ccccceEEeeeccCCCceEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            44445544     6899999999999999999999999999999964

>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=99.01  E-value=5.2e-10  Score=64.29  Aligned_cols=61  Identities=21%  Similarity=0.257  Sum_probs=43.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEE-EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI-SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v-~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+..-+.+.. ..++|||||+|.++++|++||..|||..++|++|.+...
T Consensus        25 ~~~L~~~F~~~G~v~~v~~~~~~~~~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A   86 (93)
T d2cq3a1          25 DPDLRQMFGQFGKILDVEIIFNERGSKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNA   86 (93)
T ss_dssp             HHHHHHHGGGTSCEEEEEEECCTTTTCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             HHHHHHHHhhcceeeeccccccccCCcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEec
Confidence            4444455545555433222211 126899999999999999999999999999999975443

>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=99.01  E-value=6.1e-10  Score=62.41  Aligned_cols=57  Identities=23%  Similarity=0.380  Sum_probs=44.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCc-eecCeEEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGR-TVLGQTLVSY   72 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~-~l~gr~i~~~   72 (89)
                      .++....++.-.|.....+.+   .++|||||+|.++++|++||+.|||. .+.|++|.+.
T Consensus        14 te~~L~~~F~~~G~i~~~~~~---~~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~   71 (80)
T d2cqha1          14 TADDLRQLFGDRKLPLAGQVL---LKSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVD   71 (80)
T ss_dssp             CHHHHHHHHHHTTCCCSSCEE---EETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CHHHHHHHHHHhCcEEEeEEe---cccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEE
Confidence            344455555566766555443   47999999999999999999999996 6999999643

>d2cqpa1 d.58.7.1 (A:917-1002) RNA-binding protein 12 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 12
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.00  E-value=2.7e-10  Score=64.40  Aligned_cols=36  Identities=19%  Similarity=0.325  Sum_probs=33.4

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .++|+|||+|.++++|++||+.|||..+.||+|.+.
T Consensus        49 ~~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~   84 (86)
T d2cqpa1          49 MPTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLV   84 (86)
T ss_dssp             CEEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEE
T ss_pred             CcceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEE
Confidence            378999999999999999999999999999999753

>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=99.00  E-value=1.5e-10  Score=67.69  Aligned_cols=62  Identities=16%  Similarity=0.156  Sum_probs=45.3

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ...++....++.-.|.....+.+...   .++|||||+|.++++|+.||..|||..+.|++|.+.
T Consensus        29 ~~te~~l~~~F~~~G~i~~~~~~~~~~~g~~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~   93 (102)
T d2cpza1          29 EFGDQDLLQMFMPFGNVVSAKVFIDKQTNLSKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQ   93 (102)
T ss_dssp             SCCHHHHHHHHGGGSCCSEEEEEECSSSCSEEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEE
T ss_pred             CCCHHHHHHHHHhhccccccceeeecccCCCccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEE
Confidence            33444455555555654444433321   378999999999999999999999999999999643

>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=99.00  E-value=2.2e-10  Score=64.82  Aligned_cols=42  Identities=29%  Similarity=0.457  Sum_probs=37.7

Q ss_pred             CeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          30 GQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        30 g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +..+.+..++|||||+|.++++|.+||..|||..|.|++|.+
T Consensus        35 i~~~~~~~~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V   76 (86)
T d2cpda1          35 GAVERVKKIRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEV   76 (86)
T ss_dssp             TCEEEEEECSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEE
T ss_pred             eeeEEEccccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEE
Confidence            345667779999999999999999999999999999999964

>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=98.99  E-value=3.1e-10  Score=65.32  Aligned_cols=39  Identities=18%  Similarity=0.329  Sum_probs=36.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+|
T Consensus        48 ~kg~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V~~a~~   86 (93)
T d1h2vz_          48 ACGFCFVEYYSRADAENAMRYINGTRLDDRIIRTDWDAG   86 (93)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTSEETTEECEEEEESC
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcCC
Confidence            579999999999999999999999999999999998765

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=2.9e-10  Score=64.85  Aligned_cols=61  Identities=21%  Similarity=0.193  Sum_probs=43.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|....-+.+.-   ..++|||||+|.++++|++||..|||..++|++|.+...
T Consensus        19 e~~l~~~F~~~G~i~~v~i~~d~~~~~~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1          19 DKVLHAAFIPFGDITDIQIPLDYETEKHRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             HHHHHHHHTTTSCCCCEECCCCSSSCCCSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             HHHHHHHHhhCCeEEecccccccccccccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            3334444445554333222211   247999999999999999999999999999999976543

>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=98.99  E-value=3.4e-10  Score=63.86  Aligned_cols=37  Identities=27%  Similarity=0.565  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.
T Consensus        42 ~kG~afV~f~~~~~A~~A~~~~~~~~~~g~~i~V~~a   78 (85)
T d2cpfa1          42 SMGFGFVEYKKPEQAQKALKQLQGHTVDGHKLEVRIS   78 (85)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHSTTCEETTEECEEECS
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            5899999999999999999999999999999999874

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.99  E-value=5.9e-10  Score=63.62  Aligned_cols=34  Identities=35%  Similarity=0.402  Sum_probs=32.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++|||||+|.+.++|++||++|||..+.|++|.+
T Consensus        49 ~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v   82 (90)
T d2cq0a1          49 SKGFAFISFHRREDAARAIAGVSGFGYDHLILNV   82 (90)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTCEETTEECEE
T ss_pred             cccceeEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            7899999999999999999999999999999964

>d1wf2a_ d.58.7.1 (A:) Heterogeneous nuclear ribonucleoproteins C1/C2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Heterogeneous nuclear ribonucleoproteins C1/C2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.98  E-value=3.2e-10  Score=65.96  Aligned_cols=38  Identities=50%  Similarity=0.904  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      +||||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        49 ~rg~aFV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   86 (98)
T d1wf2a_          49 HKGFAFVQYVNERNARAAVAGEDGRMIAGQVLDINLAA   86 (98)
T ss_dssp             ETEEEEEEESSHHHHHHHHHTTTTCEETTEECEEEETT
T ss_pred             eCCeEEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            68999999999999999999999999999999998743

>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=98.98  E-value=6.3e-10  Score=64.42  Aligned_cols=55  Identities=22%  Similarity=0.387  Sum_probs=41.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|....   +++...||||||+|.++++|++||..|||..|+|++|++
T Consensus        32 e~~L~~~F~~fG~i~~---v~i~~~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v   86 (96)
T d1x4ga1          32 DQLMRQTFSPFGQIME---IRVFPEKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKC   86 (96)
T ss_dssp             HHHHHHHHHHHSCEEE---EEEETTTTEEEEEESSHHHHHHHHHHHTTCEETTEECEE
T ss_pred             HHHHHHHHHHhCCceE---EEEEecceEEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            3334444444444322   234458999999999999999999999999999999964

>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=98.98  E-value=4.5e-10  Score=68.60  Aligned_cols=61  Identities=18%  Similarity=0.220  Sum_probs=45.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++....++.-.|.+...+.+.-.   .++|||||+|.+.++|++||+.|||..|.||+|.+...
T Consensus        56 e~~l~~~F~~~G~i~~v~i~~d~~t~~~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~a  119 (139)
T d1u6fa1          56 EVQLRQLFERYGPIESVKIVCDRETRQSRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVALA  119 (139)
T ss_dssp             HHHHHHHHHHHSCEEEEEEEEETTTTEEEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEES
T ss_pred             HHHHHHHHHhhccccccccccccccccccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            44445555556655444443321   36899999999999999999999999999999976544

>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=98.98  E-value=2.4e-10  Score=65.15  Aligned_cols=37  Identities=27%  Similarity=0.582  Sum_probs=34.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++||..|||..+.|++|.+..+
T Consensus        46 ~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~a   82 (90)
T d1x5sa1          46 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQA   82 (90)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEEE
T ss_pred             ccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEEc
Confidence            7899999999999999999999999999999976554

>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=98.97  E-value=7.7e-10  Score=61.78  Aligned_cols=55  Identities=16%  Similarity=0.196  Sum_probs=42.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|....   +.+..++|||||+|.++++|++|+..|||..+.|++|.+
T Consensus        17 e~~L~~~F~~~G~I~~---v~~~~~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V   71 (79)
T d2bz2a1          17 PTLLRGAFSPFGNIID---LSMDPPRNCAFVTYEKMESADQAVAELNGTQVESVQLKV   71 (79)
T ss_dssp             HHHHHHHHSTTCCCSC---EEEETTTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEE
T ss_pred             HHHHHHHHhccCccce---eeeccCCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEE
Confidence            3444455555565432   344568999999999999999999999999999999964

>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=98.96  E-value=6.7e-10  Score=62.96  Aligned_cols=34  Identities=18%  Similarity=0.187  Sum_probs=31.4

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||+ |||..+.|++|.+.
T Consensus        47 ~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~   80 (86)
T d2ghpa3          47 NNCCAFMVFENKDSAERALQ-MNRSLLGNREISVS   80 (86)
T ss_dssp             CCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEE
T ss_pred             cceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEE
Confidence            68999999999999999996 99999999999643

>d1cvja1 d.58.7.1 (A:11-90) Poly(A)-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Poly(A)-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=4.4e-10  Score=62.91  Aligned_cols=38  Identities=26%  Similarity=0.429  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.++++|+.|+..|||..+.|++|+|++.+
T Consensus        41 ~~g~aFV~f~~~~~a~~ai~~l~g~~~~gr~i~v~~a~   78 (80)
T d1cvja1          41 SLGYAYVNFQQPADAERALDTMNFDVIKGKPVRIMWSQ   78 (80)
T ss_dssp             EEEEEEEEESSHHHHHHHHTTSTTCEETTEECEEEECC
T ss_pred             CCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEeC
Confidence            57999999999999999999999999999999998754

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.96  E-value=5.6e-10  Score=65.07  Aligned_cols=34  Identities=26%  Similarity=0.411  Sum_probs=32.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++||+||+|.+.++|.+|+..|||++++||+|.+
T Consensus        56 ~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v   89 (99)
T d2dita1          56 PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITA   89 (99)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEE
T ss_pred             CccEEEEEECCHHHHHHHHHHhCCcEECCEEEEE
Confidence            5799999999999999999999999999999963

>d2ghpa1 d.58.7.1 (A:116-196) U4/U6 snRNA-associated-splicing factor PRP24 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: U4/U6 snRNA-associated-splicing factor PRP24
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.95  E-value=4.2e-10  Score=62.92  Aligned_cols=38  Identities=24%  Similarity=0.368  Sum_probs=35.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++++
T Consensus        42 ~~g~afV~f~~~e~A~~Ai~~l~g~~~~g~~i~V~~a~   79 (81)
T d2ghpa1          42 SRRFAYIDVTSKEDARYCVEKLNGLKIEGYTLVTKVSN   79 (81)
T ss_dssp             -CCEEEEECSSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccceeEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcc
Confidence            68999999999999999999999999999999998754

>d1rk8a_ d.58.7.1 (A:) RNA-binding protein 8 {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 8
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=98.95  E-value=4.8e-10  Score=63.84  Aligned_cols=37  Identities=27%  Similarity=0.519  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.
T Consensus        48 ~~g~afV~f~~~~~A~~A~~~lng~~l~g~~l~V~~a   84 (88)
T d1rk8a_          48 SKGYALVEYETHKQALAAKEALNGAEIMGQTIQVDWC   84 (88)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEES
T ss_pred             cccceeEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            6899999999999999999999999999999999863

>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=98.95  E-value=6.9e-10  Score=64.51  Aligned_cols=58  Identities=10%  Similarity=0.130  Sum_probs=43.6

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++....++.-.|.+...+.    .++|||||+|.+.++|++||+.|||..+.|+.|.+..+.
T Consensus        29 ~~~L~~~F~~~G~v~~~~i----~~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~~~   86 (98)
T d1wg4a_          29 WQDLKDHMREAGDVCYADV----QKDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSYIR   86 (98)
T ss_dssp             HHHHHHHHTTSSCEEEEEE----ETTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEEEE
T ss_pred             HHHHHHHHHhhcccccccc----cccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEEEe
Confidence            3444455555565433222    268999999999999999999999999999999766554

>d1b7fa1 d.58.7.1 (A:123-204) Sex-lethal protein {Drosophila melanogaster [TaxId: 7227]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Sex-lethal protein
species: Drosophila melanogaster [TaxId: 7227]

Probab=98.95  E-value=5.4e-10  Score=62.52  Aligned_cols=38  Identities=32%  Similarity=0.483  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|+|++.+
T Consensus        43 ~~g~afV~f~~~~~A~~ai~~lng~~~~g~~l~v~~a~   80 (82)
T d1b7fa1          43 SYGYAFVDFTSEMDSQRAIKVLNGITVRNKRLKVSYAR   80 (82)
T ss_dssp             ECSEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ccccceEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            57999999999999999999999999999999998755

>d1no8a_ d.58.7.1 (A:) Nuclear factor Aly {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nuclear factor Aly
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.94  E-value=5.7e-10  Score=62.19  Aligned_cols=36  Identities=25%  Similarity=0.321  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++
T Consensus        40 ~~g~afV~f~~~~~A~~Ai~~l~g~~l~g~~l~V~~   75 (78)
T d1no8a_          40 SLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQL   75 (78)
T ss_dssp             SCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEE
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            689999999999999999999999999999999975

>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=98.94  E-value=7e-10  Score=63.90  Aligned_cols=59  Identities=19%  Similarity=0.258  Sum_probs=42.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEE----EcccCeEEEEeCCHHHHHHHHHhc-CCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI----SMHKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v----~~~rG~afV~F~~~~~a~~Ai~~l-~g~~l~gr~i~~~   72 (89)
                      ++....++.-.|.+..-+.+.-    ..++|||||+|.++++|++||..| ||..+.|++|.+.
T Consensus        22 e~~l~~~F~~~G~i~~v~i~~~~~~~g~~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~   85 (94)
T d2cpha1          22 QREIRELFSTFGELKTVRLPKKMTGTGAHRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLE   85 (94)
T ss_dssp             HHHHHHHHHTTSCEEEEECCCCCSSSCSSCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEE
T ss_pred             HHHHHHHHHHhCCceEEEEEeccccCCCcccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEE
Confidence            4444555555565433332221    136899999999999999999999 9999999999643

>d1x5ta1 d.58.7.1 (A:8-90) Splicing factor 3B subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor 3B subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=5.7e-10  Score=62.65  Aligned_cols=36  Identities=28%  Similarity=0.493  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|++|+|++
T Consensus        40 ~~g~afV~f~~~~~a~~Ai~~~~g~~~~gr~l~v~~   75 (83)
T d1x5ta1          40 SKGYAFINFASFDASDAAIEAMNGQYLCNRPITVSY   75 (83)
T ss_dssp             CCSEEEEEBSSHHHHHHHHHTTTTCEETTEECEEEE
T ss_pred             cCceEEEEECCHHHHHHHHHhCCCcEECCEEEEEEE
Confidence            589999999999999999999999999999999986

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.94  E-value=5.6e-10  Score=64.59  Aligned_cols=36  Identities=28%  Similarity=0.353  Sum_probs=33.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.++++|++||+.|||..++||+|.+..
T Consensus        57 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~   92 (101)
T d2cpea1          57 PKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSL   92 (101)
T ss_dssp             BCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEEC
T ss_pred             ccceeeEEecCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            679999999999999999999999999999997543

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.93  E-value=6.4e-10  Score=65.13  Aligned_cols=58  Identities=17%  Similarity=0.123  Sum_probs=43.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++...|.+..-+.+.  -.+|||||+|+++++|++||+.|||..|.|+.|.+..
T Consensus        17 e~~L~~~F~~fG~I~~v~i~~--~~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~   74 (109)
T d2adca1          17 PQSLFILFGVYGDVQRVKILF--NKKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITL   74 (109)
T ss_dssp             HHHHHHHHHHHTCEEEEEECC--TTSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEEC
T ss_pred             HHHHHHHHhhccccceEEEEe--cccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            344555555556544443322  2579999999999999999999999999999996543

>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=98.93  E-value=5e-10  Score=63.44  Aligned_cols=61  Identities=20%  Similarity=0.223  Sum_probs=44.2

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++-...++.-.|.+..-+.+..   ..++|||||+|.++++|+.|+..|||..+.|++|.+...
T Consensus        15 e~~l~~~F~~~G~v~~v~i~~d~~tg~~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A   78 (85)
T d2u2fa_          15 DDQVKELLTSFGPLKAFNLVKDSATGLSKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRA   78 (85)
T ss_dssp             SHHHHHHHTSSSCEEEEEEECCCSSSCCCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEEC
T ss_pred             HHHHHHHHHhcCccceEEeeccccccccceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            3344445555665444333321   136899999999999999999999999999999975444

>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=98.92  E-value=7.6e-10  Score=62.58  Aligned_cols=63  Identities=11%  Similarity=0.216  Sum_probs=46.8

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +...++....++...|.+...+.+.-   ..++|||||+|.++++|++||. +++..|.||.|.+..
T Consensus        16 ~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~   81 (84)
T d1l3ka1          16 FETTDESLRSHFEQWGTLTDCVVMRDPNTKRSRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKR   81 (84)
T ss_dssp             TTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEE
T ss_pred             CCCCHHHHHHHHHhhccccceeecccccCCCcccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEe
Confidence            34445555666666676655544432   2379999999999999999997 799999999998754

>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=98.92  E-value=1.3e-09  Score=60.54  Aligned_cols=63  Identities=14%  Similarity=0.218  Sum_probs=44.5

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +...++.....++-.|.....+.+...   .++|||||+|.++++|++|+. |||..|+||+|.+..
T Consensus        12 ~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~~   77 (79)
T d1l3ka2          12 EDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRK   77 (79)
T ss_dssp             TTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEEE
T ss_pred             CcCCHHHHHHHHHHhccccccccccCCCCcccccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEE
Confidence            334455555555556655444333221   378999999999999999996 999999999997654

>d2cq0a1 d.58.7.1 (A:231-320) Eukaryotic translation initiation factor 3 subunit 4 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Eukaryotic translation initiation factor 3 subunit 4
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=8.2e-10  Score=63.02  Aligned_cols=38  Identities=34%  Similarity=0.433  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        49 ~rg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~v~~ak   86 (90)
T d2cq0a1          49 SKGFAFISFHRREDAARAIAGVSGFGYDHLILNVEWAK   86 (90)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTCEETTEECEEEESS
T ss_pred             cccceeEEECCHHHHHHHHHHhCCCEECCEEEEEEeee
Confidence            68999999999999999999999999999999998754

>d1fxla1 d.58.7.1 (A:37-118) Hu antigen D (Hud) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Hu antigen D (Hud)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.92  E-value=7.8e-10  Score=61.80  Aligned_cols=38  Identities=26%  Similarity=0.503  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+
T Consensus        43 ~~g~afv~f~~~~~a~~a~~~l~g~~~~g~~l~v~~Ak   80 (82)
T d1fxla1          43 SLGYGFVNYIDPKDAEKAINTLNGLRLQTKTIKVSYAR   80 (82)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             ceeeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEee
Confidence            57999999999999999999999999999999998654

>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=98.91  E-value=3.3e-10  Score=64.44  Aligned_cols=59  Identities=14%  Similarity=0.115  Sum_probs=43.7

Q ss_pred             cCHHHHHHHHhhcCCceecCeEeEEEc-ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          11 SNPHDARSACLGEDGRTVLGQTLGISM-HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        11 ~~~~~a~~Ai~~l~g~~l~g~~i~v~~-~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ...++....++.-.|.+     ..+.+ .+|||||+|.+.++|++||..|||..+.|+.|.+..+
T Consensus        11 ~~~~~~l~~~F~~~G~v-----~~~~i~~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~~   70 (87)
T d3begb1          11 SGSWQDLKDHMREAGDV-----CYADVYRDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAYI   70 (87)
T ss_dssp             SCCTTHHHHHHGGGSCE-----EEEEECTTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCBC
T ss_pred             cCCHHHHHHHHhhhccc-----ccccccccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeEE
Confidence            33344455555555554     33333 6799999999999999999999999999999865444

>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=98.91  E-value=2.1e-10  Score=64.07  Aligned_cols=60  Identities=10%  Similarity=0.180  Sum_probs=43.9

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      .++.....+.-.|....-+.+..   ..+||||||+|.++++|++||+ +|++.++||+|.+..
T Consensus        13 te~~l~~~F~~~G~i~~v~i~~d~~tg~~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~   75 (77)
T d1uawa_          13 TQEGLREYFGQFGEVKECLVMRDPLTKRSRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKV   75 (77)
T ss_dssp             CSHHHHHHHTTTSCCCCEEEECCCCSSSCSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEE
T ss_pred             CHHHHHHHHHHhCCcceeeeecccCCCCccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEE
Confidence            34444555556665544444332   2389999999999999999997 799999999997653

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=98.91  E-value=6e-10  Score=64.29  Aligned_cols=37  Identities=27%  Similarity=0.458  Sum_probs=33.9

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      .++|||||+|.+.++|++||..|||..+.|++|.+..
T Consensus        51 ~~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~   87 (96)
T d1fjca_          51 KSKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYY   87 (96)
T ss_dssp             EEEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEE
T ss_pred             ccccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            3689999999999999999999999999999997543

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.91  E-value=1.2e-09  Score=64.02  Aligned_cols=59  Identities=14%  Similarity=-0.050  Sum_probs=44.0

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++...|.+..   +.+..++|||||+|.+.++|++||+.|||..+.|++|.+-..
T Consensus        23 t~~~L~~~F~~fG~I~~---v~l~~~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a   81 (111)
T d1whxa_          23 LAAEIQETFSRFGSLGR---VLLPEGGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWA   81 (111)
T ss_dssp             CHHHHHHHHHTTSCEEE---EECCSSSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEE
T ss_pred             CHHHHHhhhhccCCccE---EEeeccCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEEC
Confidence            34445556555555432   233347899999999999999999999999999999965433

>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=98.91  E-value=4.1e-10  Score=65.90  Aligned_cols=61  Identities=15%  Similarity=0.169  Sum_probs=42.8

Q ss_pred             CHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          12 NPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        12 ~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ..++....++.-.|.+...+.+..   ..++|||||+|.+.++|++||. |||..|.|++|.+..
T Consensus        30 ~te~~l~~~F~~~G~V~~v~i~~d~~tg~~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~   93 (101)
T d2cq4a1          30 IRPRDLEDFFSAVGKVRDVRIISDRNSRRSKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQA   93 (101)
T ss_dssp             CCHHHHHHHHTTTSCEEEEEECCSCCSSSCCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEE
T ss_pred             CCHHHHHHHHcCCCeEEEEEeeecCCCccccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEE
Confidence            334444455544554443333321   1379999999999999999995 999999999997543

>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=98.91  E-value=3.1e-10  Score=62.96  Aligned_cols=62  Identities=10%  Similarity=0.153  Sum_probs=43.4

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +...++.....+.-.|.....+.+..   ..++|||||+|.++++|++||+ +++..|+|++|.+.
T Consensus         9 ~~~te~~l~~~F~~~G~i~~~~i~~d~~t~~~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~   73 (75)
T d1hd0a_           9 WDTTKKDLKDYFSKFGEVVDCTLKLDPITGRSRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPK   73 (75)
T ss_dssp             TTCCHHHHHHHHHTTSCEEEEECCCBTTTTBCCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEEC
T ss_pred             CcCCHHHHHHHHHhhccccccccccCCCCCCcCceEEEEECCHHHHHHHHh-cCCCEECCCEEEee
Confidence            33444555555555555433332221   1278999999999999999997 89999999999764

>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=98.91  E-value=5.7e-10  Score=63.59  Aligned_cols=37  Identities=22%  Similarity=0.356  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+.
T Consensus        47 ~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~i~V~~a   83 (89)
T d1cvja2          47 SKGYGFVHFETQEAAERAIEKMNGMLLNDRKVFVGRF   83 (89)
T ss_dssp             CCSCEEEEESCHHHHHHHTTSSSEEEETTEEEEEEEC
T ss_pred             CcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            5799999999999999999999999999999999764

>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=98.90  E-value=1.1e-09  Score=61.74  Aligned_cols=60  Identities=22%  Similarity=0.282  Sum_probs=43.1

Q ss_pred             HHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecC--eEEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLVSY   72 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~g--r~i~~~   72 (89)
                      .++....+++-.|....-+.+.-   ..++|||||+|.++++|++||+.|||..+.|  ++|.+.
T Consensus        19 te~~l~~~F~~~G~i~~~~~~~d~~~g~~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~   83 (85)
T d1b7fa2          19 TDDQLDTIFGKYGSIVQKNILRDKLTGRPRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVR   83 (85)
T ss_dssp             CHHHHHHHHTSSSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEE
T ss_pred             CHHHHHHHHHhhCCEeeeeeecccccccCceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEE
Confidence            34445555555665544443332   1378999999999999999999999999987  778643

>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=98.89  E-value=2e-10  Score=63.00  Aligned_cols=33  Identities=30%  Similarity=0.479  Sum_probs=31.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      ++|||||+|.++++|++||..|||..+.||.|+
T Consensus        39 ~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1          39 CKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             ccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            789999999999999999999999999999773

>d2cpia1 d.58.7.1 (A:101-189) E3 ubiquitin protein ligase CNOT4 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: E3 ubiquitin protein ligase CNOT4
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.88  E-value=1.4e-09  Score=62.01  Aligned_cols=35  Identities=26%  Similarity=0.268  Sum_probs=32.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|+|+
T Consensus        55 ~~g~aFV~f~~~~~A~~Ai~~lng~~~~gr~lkvS   89 (89)
T d2cpia1          55 PSASAYVTYIRSEDALRAIQCVNNVVVDGRTLKAS   89 (89)
T ss_dssp             CCEEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             cceEEEEecccchhHHHHHHHhCCCEECCEEEEEC
Confidence            35999999999999999999999999999999984

>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=98.88  E-value=3e-09  Score=60.58  Aligned_cols=35  Identities=29%  Similarity=0.552  Sum_probs=32.7

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .+|||||+|.+.++|+.|+..|||..+.|++|.+.
T Consensus        47 ~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~   81 (90)
T d2cqia1          47 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVN   81 (90)
T ss_dssp             SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEE
T ss_pred             cceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEE
Confidence            68999999999999999999999999999999743

>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=98.88  E-value=1e-09  Score=62.94  Aligned_cols=35  Identities=17%  Similarity=0.367  Sum_probs=32.4

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      .++|||||+|.+.++|++||+ |||..+.|++|.+-
T Consensus        52 ~~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~   86 (91)
T d1fjeb1          52 TNRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLE   86 (91)
T ss_dssp             TTTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEE
T ss_pred             CccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEE
Confidence            589999999999999999996 99999999999754

>d2cpza1 d.58.7.1 (A:383-484) CUG triplet repeat RNA-binding protein 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: CUG triplet repeat RNA-binding protein 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=1.1e-09  Score=63.89  Aligned_cols=38  Identities=21%  Similarity=0.439  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        59 ~kG~afV~f~~~~~A~~Ai~~lng~~~~g~~i~V~~a~   96 (102)
T d2cpza1          59 SKCFGFVSYDNPVSAQAAIQSMNGFQIGMKRLKVQLKR   96 (102)
T ss_dssp             EEEEEEEECSSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             CccceEEEeCCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            57999999999999999999999999999999998744

>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=98.88  E-value=9e-10  Score=60.50  Aligned_cols=63  Identities=11%  Similarity=0.165  Sum_probs=44.2

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +...++....++.-.|.......+.-   ..++|||||+|.+.++|++||+ |||+.++||+|.+..
T Consensus         9 ~~~te~~l~~~F~~~G~i~~~~~~~~~~~~~~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~   74 (75)
T d2msta_           9 VNTTVEDVKHYFEQFGKVDDAMLMFDKTTNRHRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             SSCCHHHHHHHHHTTSCCSEECCBCCTTCTTSCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEE
T ss_pred             CCCCHHHHHHHHHHhCCcceeeeeeeccccccCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEE
Confidence            33444555555555665433222211   1378999999999999999997 999999999998643

>d1wg1a_ d.58.7.1 (A:) Probable RNA-binding protein KIAA1579 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein KIAA1579
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.88  E-value=8.6e-10  Score=62.85  Aligned_cols=38  Identities=21%  Similarity=0.228  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        39 ~kg~afV~f~~~~~A~~Ai~~ln~~~~~G~~l~V~~a~   76 (88)
T d1wg1a_          39 NKRTAFVTLLNGEQAQNAIQMFHQYSFRGKDLIVQLQP   76 (88)
T ss_dssp             GGTEEEECCSCHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            68999999999999999999999999999999998754

>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=98.87  E-value=9.9e-10  Score=64.21  Aligned_cols=64  Identities=13%  Similarity=0.204  Sum_probs=45.6

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      +...++....++.-.|.+...+.+.-   ..++|||||+|.++++|++||+.+|+ .+.||+|.+...
T Consensus        20 ~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~a   86 (103)
T d2cqda1          20 YHTTDASLRKYFEGFGDIEEAVVITDRQTGKSRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNLA   86 (103)
T ss_dssp             SSCCHHHHHHHHHTTSCEEEEEESCCSSSCCCCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEES
T ss_pred             CcCcHHHHHHHHhhcccccceeccccccccccCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEEc
Confidence            34445555666666665544433322   13799999999999999999999886 799999976433

>d2cpda1 d.58.7.1 (A:223-308) APOBEC1 stimulating protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: APOBEC1 stimulating protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=1.6e-09  Score=61.15  Aligned_cols=38  Identities=32%  Similarity=0.571  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|||..+.|+.|.|++.+
T Consensus        43 ~rg~afV~f~~~~~A~~Ai~~l~~~~i~g~~i~V~~ak   80 (86)
T d2cpda1          43 IRDYAFVHFSNREDAVEAMKALNGKVLDGSPIEVTLAK   80 (86)
T ss_dssp             CSSEEEEEESSHHHHHHHHHHHSSEEETTEEEEEECCC
T ss_pred             ccEEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEecc
Confidence            68999999999999999999999999999999998754

>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=98.87  E-value=1.5e-09  Score=63.12  Aligned_cols=37  Identities=24%  Similarity=0.292  Sum_probs=34.1

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEeee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKLQ   75 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~~   75 (89)
                      ++|||||+|.++++|++||. |||..|+||.|.+..+.
T Consensus        49 ~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~~~   85 (103)
T d2cpya1          49 GLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHVVT   85 (103)
T ss_dssp             CSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEEEC
T ss_pred             cCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEECC
Confidence            79999999999999999996 99999999999887653

>d1wi6a1 d.58.7.1 (A:69-143) Ribonucleoprotein PTB-binding 1, Raver-1 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Ribonucleoprotein PTB-binding 1, Raver-1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.87  E-value=1.2e-09  Score=60.60  Aligned_cols=38  Identities=21%  Similarity=0.257  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|+|++.+
T Consensus        32 ~~g~afv~f~~~~~A~~Ai~~ln~~~~~g~~l~V~~a~   69 (75)
T d1wi6a1          32 YKGTAFVTLLNGEQAEAAINTFHQSRLRERELSVQLQP   69 (75)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTEESSSCEEEEEECC
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCccCCCCEEEEEEeC
Confidence            68999999999999999999999999999999998754

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.87  E-value=1.8e-09  Score=63.23  Aligned_cols=37  Identities=24%  Similarity=0.384  Sum_probs=33.2

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ..|++||+|.+.++|.+|+..|||++++||+|.+..+
T Consensus        57 ~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f~   93 (104)
T d1o0pa_          57 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKYC   93 (104)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEEE
T ss_pred             CceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEEc
Confidence            3589999999999999999999999999999975443

>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=98.87  E-value=1e-09  Score=62.25  Aligned_cols=39  Identities=26%  Similarity=0.307  Sum_probs=34.7

Q ss_pred             eEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          33 LGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        33 i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      +.+..++|||||+|++.++|++|++.|||..+.|++|.+
T Consensus        38 i~~~~~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V   76 (86)
T d2cpja1          38 VFIHKDKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRV   76 (86)
T ss_dssp             EEEETTTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEE
T ss_pred             eeeecccceEEEEECCHHHHHHHHHHhCCCEECCEEEEE
Confidence            344458999999999999999999999999999999964

>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=98.87  E-value=1.6e-09  Score=61.11  Aligned_cols=36  Identities=17%  Similarity=0.362  Sum_probs=34.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+
T Consensus        50 ~~G~afV~f~~~e~a~~Ai~~l~~~~l~gr~i~v~l   85 (86)
T d2cqpa1          50 PTGEAMVAFESRDEATAAVIDLNDRPIGSRKVKLVL   85 (86)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHTTTCEETTEECEEEE
T ss_pred             cceEEEEEEcCcHHHHHHHHHcCCCEECCEEEEEEE
Confidence            589999999999999999999999999999999864

>d2cpea1 d.58.7.1 (A:353-453) RNA-binding protein EWS {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein EWS
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.86  E-value=1.5e-09  Score=62.66  Aligned_cols=38  Identities=29%  Similarity=0.471  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++.+
T Consensus        57 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~gr~i~V~~a~   94 (101)
T d2cpea1          57 PKGDATVSYEDPPTAKAAVEWFDGKDFQGSKLKVSLAR   94 (101)
T ss_dssp             BCSEEEEEBSSHHHHHHHHHHHTTCEETTEECEEECSS
T ss_pred             ccceeeEEecCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            57999999999999999999999999999999998754

>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=98.86  E-value=1.7e-09  Score=63.00  Aligned_cols=60  Identities=23%  Similarity=0.266  Sum_probs=43.0

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++....++.-.|.+..-+.+.-.   .++|||||+|.+.++|++||+.|||..+.|++|.+..
T Consensus        22 e~~l~~~f~~~G~i~~v~i~~~~~tg~~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~   84 (104)
T d1p1ta_          22 EEQLKDIFSEVGPVVSFRLVYDRETGKPKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDN   84 (104)
T ss_dssp             HHHHHHHHHTTSCCSEEEEEEETTTTEEEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEE
T ss_pred             HHHHHHhhhccccccccccccccceeccCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            33344445455654433332221   2689999999999999999999999999999997543

>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=98.85  E-value=3.7e-09  Score=58.49  Aligned_cols=65  Identities=14%  Similarity=0.068  Sum_probs=44.8

Q ss_pred             EecCHHHHHHHHhhcCCceecCeEeEEE-cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383           9 QFSNPHDARSACLGEDGRTVLGQTLGIS-MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus         9 ~f~~~~~a~~Ai~~l~g~~l~g~~i~v~-~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .+...++....++.-.|.+..-+.+... -.+|||||+|+++++|++||. |||+.|+|++|.+..+
T Consensus         9 p~~~t~~~l~~~F~~~G~I~~v~~~~~~~~~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~~~   74 (75)
T d2ghpa2           9 PKSYNQNKVYKYFKHCGPIIHVDVADSLKKNFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVSHL   74 (75)
T ss_dssp             CTTCCHHHHHHHHGGGSCEEEEEEEECTTSSSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEEEC
T ss_pred             CCCCCHHHHHHHHhcCCceEEEEEEeeccccceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEEEC
Confidence            3444455555666555554332222111 246799999999999999996 9999999999987654

>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=98.84  E-value=1.7e-09  Score=60.64  Aligned_cols=34  Identities=29%  Similarity=0.569  Sum_probs=32.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGI   35 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v   35 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|
T Consensus        50 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~gr~i~V   83 (83)
T d2cqca1          50 SRGFAFVYFENVDDAKEAKERANGMELDGRRIRV   83 (83)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTEEETTEEEEE
T ss_pred             cccceEEEECCHHHHHHHHHHcCCCEECCEEeEC
Confidence            5899999999999999999999999999999986

>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=98.84  E-value=1.3e-09  Score=62.65  Aligned_cols=38  Identities=26%  Similarity=0.440  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        50 ~kg~afV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~A~   87 (93)
T d1x5ua1          50 HQGYGFVEFLSEEDADYAIKIMDMIKLYGKPIRVNKAS   87 (93)
T ss_dssp             BCSCEEEEESSHHHHHHHHHHSSSCBCSSCBCEEEETT
T ss_pred             cccceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            68999999999999999999999999999999998643

>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=98.83  E-value=1.2e-09  Score=62.84  Aligned_cols=38  Identities=24%  Similarity=0.499  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhc-CCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE-DGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l-~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..| ||..+.|++|.|++.+
T Consensus        50 ~rg~afV~f~~~~~A~~Ai~~l~~~~~~~Gr~l~V~~A~   88 (94)
T d2cpha1          50 HRGFGFVDFITKQDAKKAFNALCHSTHLYGRRLVLEWAD   88 (94)
T ss_dssp             SCSEEEEEESSHHHHHHHHHHHHTCCBSSSCBCEEEECC
T ss_pred             cccEEEEEECCHHHHHHHHHHccCCcEECCEEEEEEEcC
Confidence            6899999999999999999998 8999999999998754

>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=98.83  E-value=2.5e-09  Score=61.81  Aligned_cols=38  Identities=32%  Similarity=0.537  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      .||||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        53 ~kg~afV~f~~~~~A~~Ai~~l~~~~i~g~~l~v~~ak   90 (96)
T d1x4ga1          53 EKGYSFVRFSTHESAAHAIVSVNGTTIEGHVVKCYWGK   90 (96)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             cceEEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEcC
Confidence            58999999999999999999999999999999998754

>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=98.83  E-value=1.9e-09  Score=62.40  Aligned_cols=37  Identities=32%  Similarity=0.501  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+.
T Consensus        49 ~~g~afV~f~~~~~a~~A~~~l~g~~~~gr~i~V~~a   85 (99)
T d1whwa_          49 PKGFAFVTFMFPEHAVKAYAEVDGQVFQGRMLHVLPS   85 (99)
T ss_dssp             CCSEEEEEESSHHHHHHHHHHTTTEESSSCEEEEEEC
T ss_pred             cCcceEEEECCHHHHHHHHHHcCCCEECCEEEEEEEC
Confidence            6899999999999999999999999999999999863

>d2cqba1 d.58.7.1 (A:1-89) Peptidyl-prolyl cis-trans isomerase E, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Peptidyl-prolyl cis-trans isomerase E, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=1.7e-09  Score=61.55  Aligned_cols=37  Identities=27%  Similarity=0.596  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.
T Consensus        46 ~kg~afV~f~~~~~A~~ai~~l~~~~i~g~~l~v~~a   82 (89)
T d2cqba1          46 HRGFAFVEFELAEDAAAAIDNMNESELFGRTIRVNLA   82 (89)
T ss_dssp             CSSEEEECCSSHHHHHHHHHHHTTEEETTEEEEEEEC
T ss_pred             ccceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            6899999999999999999999999999999999764

>d2cqha1 d.58.7.1 (A:2-81) IGF-II mRNA-binding protein 2 isoform A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: IGF-II mRNA-binding protein 2 isoform A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=1.5e-09  Score=60.79  Aligned_cols=37  Identities=22%  Similarity=0.440  Sum_probs=34.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCc-eecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGR-TVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~-~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||. .+.|++|.|++.
T Consensus        36 ~rg~aFV~f~~~~~A~~Ai~~lng~~~~~G~~i~V~~a   73 (80)
T d2cqha1          36 KSGYAFVDYPDQNWAIRAIETLSGKVELHGKIMEVDYS   73 (80)
T ss_dssp             ETTEEEECCSCHHHHHHHHHHHTTTCEETTEECEEEEC
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCeEECCEEEEEEEc
Confidence            5899999999999999999999996 599999999864

>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=98.82  E-value=2.7e-09  Score=61.31  Aligned_cols=38  Identities=32%  Similarity=0.608  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        52 ~~g~afV~f~~~e~a~~Ai~~l~g~~~~g~~l~V~~a~   89 (95)
T d1x4aa1          52 GPPFAFVEFEDPRDAEDAVYGRDGYDYDGYRLRVEFPR   89 (95)
T ss_dssp             SSCCEEEEESCHHHHHHHHHHHTTCEETTEECEEECCC
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEecc
Confidence            57999999999999999999999999999999998854

>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=98.82  E-value=3.3e-09  Score=59.97  Aligned_cols=37  Identities=19%  Similarity=0.281  Sum_probs=34.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|++++
T Consensus        47 ~kg~afV~f~~~~~a~~Al~-~n~~~~~gr~l~V~~a~   83 (86)
T d2ghpa3          47 NNCCAFMVFENKDSAERALQ-MNRSLLGNREISVSLAD   83 (86)
T ss_dssp             CCEEEEEEESSHHHHHHHGG-GTTEEETTEEEEEEECC
T ss_pred             cceeeeEEECCHHHHHHHHh-cCCCEECCEEEEEEEcC
Confidence            68999999999999999995 99999999999998653

>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=98.82  E-value=2.8e-09  Score=61.09  Aligned_cols=38  Identities=29%  Similarity=0.481  Sum_probs=35.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        50 ~kg~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~A~   87 (93)
T d2cq3a1          50 SKGFGFVTFENSADADRAREKLHGTVVEGRKIEVNNAT   87 (93)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHTTCEETTEECEEEECC
T ss_pred             CcceeEEEECCHHHHHHHHHHcCCCEECCEEEEEEecC
Confidence            58999999999999999999999999999999998643

>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=98.82  E-value=2.8e-09  Score=60.15  Aligned_cols=58  Identities=21%  Similarity=0.356  Sum_probs=42.4

Q ss_pred             HHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCe--EEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQ--TLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr--~i~~   71 (89)
                      ++....+++-.|.+..-+.+.-   ..++|||||+|.++++|++|++.|||..+.|+  +|.+
T Consensus        20 e~~L~~~F~~~G~v~~v~i~~d~~~g~~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V   82 (85)
T d1fxla2          20 QKELEQLFSQYGRIITSRILVDQVTGVSRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITV   82 (85)
T ss_dssp             HHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEE
T ss_pred             HHHHHHHHHHhCCccccccccccccccCCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEE
Confidence            3444455555666555544432   13789999999999999999999999999985  4643

>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=98.82  E-value=1.5e-09  Score=66.24  Aligned_cols=36  Identities=28%  Similarity=0.635  Sum_probs=34.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|.+
T Consensus        83 ~rg~afV~f~~~~~A~~Ai~~lng~~~~gr~l~V~~  118 (139)
T d1u6fa1          83 SRGYGFVKFQSGSSAQQAIAGLNGFNILNKRLKVAL  118 (139)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTTEECSSCEEEEEE
T ss_pred             ccceeeEEECCHHHHHHHHHHhCCCEECCEEEEEEE
Confidence            589999999999999999999999999999999986

>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=98.81  E-value=9.2e-10  Score=64.09  Aligned_cols=58  Identities=14%  Similarity=0.148  Sum_probs=41.1

Q ss_pred             HHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      ++....++.-.|.+...+.+..  ..++|||||+|.+.++|++||+.|||..|.||++.+
T Consensus        32 e~~L~~~F~~~G~i~~~~~~~~~~~~~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v   91 (101)
T d1x5oa1          32 EQELENMLKPFGQVISTRILRDSSGTSRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVS   91 (101)
T ss_dssp             HHHHHHTTTTTSCEEEEEEEECSSSCEEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSC
T ss_pred             HHHHHHHHhhcccccceeeecccccccccceeEEeCCHHHHHHHHHHhCCCEECCcCCcc
Confidence            3334444444555433322221  126899999999999999999999999999998854

>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=98.81  E-value=1e-09  Score=63.96  Aligned_cols=35  Identities=20%  Similarity=0.219  Sum_probs=31.8

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      ++|||||+|.++++|++||+ ||+..|.||.|.+..
T Consensus        54 ~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~   88 (102)
T d1weza_          54 VTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFL   88 (102)
T ss_dssp             EEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEE
T ss_pred             ceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEE
Confidence            68999999999999999986 999999999997643

>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=98.80  E-value=3e-09  Score=60.93  Aligned_cols=38  Identities=21%  Similarity=0.481  Sum_probs=35.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|.+.++
T Consensus        53 ~kg~afv~F~~~e~a~~Al~-~~g~~~~g~~i~V~~ak~   90 (91)
T d1fjeb1          53 NRKFGYVDFESAEDLEKALE-LTGLKVFGNEIKLEKPKG   90 (91)
T ss_dssp             TTTEEEEEESSHHHHHHHHH-GGGEEETTEEEEEECCCC
T ss_pred             ccEEeEEeeCCHHHHHHHHh-cCCcEECCEEEEEEecCC
Confidence            68999999999999999995 999999999999987653

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=1.7e-09  Score=62.64  Aligned_cols=35  Identities=34%  Similarity=0.391  Sum_probs=32.8

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      .++|||||+|.+.++|++||+.|||..+.|++|.+
T Consensus        58 ~~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V   92 (102)
T d2cpxa1          58 RMRGQAFITFPNKEIAWQALHLVNGYKLYGKILVI   92 (102)
T ss_dssp             SSCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEE
T ss_pred             cccccceEEeccHHHHHHHHHHhCCCEECCEEEEE
Confidence            37899999999999999999999999999999964

>d1jmta_ d.58.7.3 (A:) U2AF35 (35 KDa subunit) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Splicing factor U2AF subunits
domain: U2AF35 (35 KDa subunit)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=2.5e-09  Score=62.81  Aligned_cols=36  Identities=22%  Similarity=0.394  Sum_probs=34.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|..|+..|||+.+.|++|.|++
T Consensus        67 ~~G~~fV~f~~~~~A~~Ai~~lng~~~~gr~i~v~~  102 (104)
T d1jmta_          67 LVGNVYVKFRREEDAEKAVIDLNNRWFNGQPIHAEL  102 (104)
T ss_dssp             SEEEEEEEESCHHHHHHHHHHHTTCEETTEECCEEE
T ss_pred             EeeEEEEEEechhHHHHHHHHHCCCEECCEEEEEEE
Confidence            689999999999999999999999999999999865

>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=98.80  E-value=3.1e-09  Score=62.26  Aligned_cols=63  Identities=13%  Similarity=0.241  Sum_probs=45.8

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEe
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYK   73 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~   73 (89)
                      +...++....++.-.|.+...+.+.-   ..++|||||+|.+.++|++||+ ++|..|.|++|.+..
T Consensus        30 ~~~te~~L~~~F~~~G~i~~~~i~~d~~~~~~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~   95 (103)
T d1x4ba1          30 FETTEESLRNYYEQWGKLTDCVVMRDPASKRSRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKR   95 (103)
T ss_dssp             TCCCHHHHHHHHTSSCCCSEEEEECCTTTSSCCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEEC
T ss_pred             CcCCHHHHHHHHHhhCcccceeecccccCCCccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEE
Confidence            34445555666656666554443322   1379999999999999999996 899999999997644

>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=98.80  E-value=4.2e-09  Score=59.62  Aligned_cols=58  Identities=16%  Similarity=0.183  Sum_probs=41.8

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCcee-cCeEEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTV-LGQTLVS   71 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l-~gr~i~~   71 (89)
                      .++....++.-.|....... ...-++|||||+|+++++|.+|+..|||..+ +|++|.+
T Consensus        23 te~~l~~~F~~~G~v~~~~~-~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v   81 (88)
T d2adca2          23 SEEDLKVLFSSNGGVVKGFK-FFQKDRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRV   81 (88)
T ss_dssp             CHHHHHHHHHTTSCCEEEEE-ECSSSTTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEE
T ss_pred             CHHHHHHHhhccCCEEEEEE-eeecccceeEEEECCHHHHHHHHHhccCCEecCCCEEEE
Confidence            34445555656665443221 1223689999999999999999999999998 5898863

>d2f9da1 d.58.7.1 (A:12-125) Pre-mRNA branch site protein p14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Pre-mRNA branch site protein p14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.80  E-value=3e-09  Score=62.74  Aligned_cols=37  Identities=24%  Similarity=0.389  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|..|+..|||..+.|+.|.|.+.
T Consensus        45 ~kG~afV~f~~~~~A~~Ai~~l~g~~~~gr~l~V~~a   81 (114)
T d2f9da1          45 TRGTAYVVYEDIFDAKNACDHLSGFNVCNRYLVVLYY   81 (114)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHTTCEETTEECEEEEC
T ss_pred             cCCeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEc
Confidence            5899999999999999999999999999999999864

>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=98.79  E-value=1.8e-09  Score=60.19  Aligned_cols=38  Identities=18%  Similarity=0.334  Sum_probs=35.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.+
T Consensus        38 ~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~V~~a~   75 (79)
T d2bz2a1          38 PRNCAFVTYEKMESADQAVAELNGTQVESVQLKVNIAR   75 (79)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHTTCBCSSCBCEEEECC
T ss_pred             CCCEEEEEEcccHHHHHHHHHhCCCEECCEEEEEEEec
Confidence            57999999999999999999999999999999998754

>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=98.79  E-value=4.7e-09  Score=61.60  Aligned_cols=62  Identities=21%  Similarity=0.219  Sum_probs=46.5

Q ss_pred             EecCHHHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceec--CeEEEE
Q psy4383           9 QFSNPHDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVL--GQTLVS   71 (89)
Q Consensus         9 ~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~--gr~i~~   71 (89)
                      .+.-.++....++.-.|.+..-+.+ ..-++|||||+|.++++|++||..|||..|.  +++|.+
T Consensus        16 ~~~vte~~L~~~F~~~G~i~~~~i~-~~~~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v   79 (108)
T d2adba1          16 FYPVTLDVLHQIFSKFGTVLKIITF-TKNNQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRI   79 (108)
T ss_dssp             CSTTHHHHHHHHHTTTSCEEEEEEE-EETTEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEE
T ss_pred             CCCCCHHHHHHHHccCCcEEEEEEE-eeCCCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEE
Confidence            3455667777777777775444332 2347899999999999999999999999994  666754

>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=98.78  E-value=6.5e-09  Score=60.41  Aligned_cols=36  Identities=14%  Similarity=0.199  Sum_probs=31.5

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++|+ +|||..|+||+|++...
T Consensus        56 ~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a   91 (104)
T d1wi8a_          56 LKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             BCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             cceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEEC
Confidence            6899999999999998776 59999999999976544

>d2adca1 d.58.7.1 (A:335-443) Polypyrimidine tract-binding protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Polypyrimidine tract-binding protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=2.5e-09  Score=62.53  Aligned_cols=38  Identities=24%  Similarity=0.395  Sum_probs=35.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|++++
T Consensus        39 ~kg~afV~f~~~~~A~~ai~~lng~~l~g~~l~v~~s~   76 (109)
T d2adca1          39 KKENALVQMADGNQAQLAMSHLNGHKLHGKPIRITLSK   76 (109)
T ss_dssp             TSCCEEEEESCHHHHHHHHHHHTTCBCSSSBCEEECCS
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            47999999999999999999999999999999999865

>d1nu4a_ d.58.7.1 (A:) Splicesomal U1A protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicesomal U1A protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.77  E-value=3.5e-09  Score=60.43  Aligned_cols=38  Identities=24%  Similarity=0.335  Sum_probs=35.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+
T Consensus        45 ~~g~afV~F~~~~~A~~A~~~~~~~~~~g~~l~v~~ak   82 (91)
T d1nu4a_          45 MRGQAFVIFKEVSSATNALRSMQGFPFYDKPMRIQYAK   82 (91)
T ss_dssp             HTTCEEEEESSHHHHHHHHHHHTTCEETTEECEEEECS
T ss_pred             CCCceEEEECCHHHHHHHHHHhCCCEECCEEEEEEEeC
Confidence            47999999999999999999999999999999998765

>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=98.76  E-value=8.8e-09  Score=58.97  Aligned_cols=35  Identities=29%  Similarity=0.364  Sum_probs=31.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcC------CceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGED------GRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~------g~~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|++||+.||      |..+.||+|.+-
T Consensus        49 ~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~   89 (98)
T d1x4ha1          49 SKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVD   89 (98)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEE
T ss_pred             ccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEE
Confidence            78999999999999999999886      678899998643

>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=98.76  E-value=5.9e-09  Score=59.31  Aligned_cols=38  Identities=26%  Similarity=0.555  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|+|..+.|+.|+|++.+
T Consensus        47 ~~~~afV~f~~~~~A~~A~~~l~~~~~~g~~i~v~~a~   84 (90)
T d2cqia1          47 NDPYCFVEFYEHRDAAAALAAMNGRKILGKEVKVNWAT   84 (90)
T ss_dssp             SCCEEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECC
T ss_pred             cceeeEEEECCHHHHHHHHHHcCCCEECCEEEEEEEcC
Confidence            47999999999999999999999999999999998743

>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=98.76  E-value=9e-09  Score=57.98  Aligned_cols=40  Identities=25%  Similarity=0.360  Sum_probs=33.0

Q ss_pred             cCeEeEEEc--ccCeEEEEeCCHHHHHHHHHhcCCceecCeEE
Q psy4383          29 LGQTLGISM--HKGYAFIQFSNPHDARSACLGEDGRTVLGQTL   69 (89)
Q Consensus        29 ~g~~i~v~~--~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i   69 (89)
                      +|..+.+.+  ++||+||+|.++++|++||+ +||..++|+.+
T Consensus        27 ~G~I~~~~~~~~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~   68 (81)
T d1wwha1          27 YGNILKHVMSNTGNWMHIRYQSKLQARKALS-KDGRIFGESIM   68 (81)
T ss_dssp             TSCEEEEEECSSSSEEEEEESSHHHHHHHHT-TTTCEETTTEE
T ss_pred             hhhhheEEecCCCCEEEEEEcccHHHHHHHh-cCCCeECCcEE
Confidence            344455543  68999999999999999996 99999999865

>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=98.76  E-value=3.5e-10  Score=64.50  Aligned_cols=36  Identities=28%  Similarity=0.420  Sum_probs=32.6

Q ss_pred             EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          36 SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        36 ~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ..++|||||+|.++++|++|++ |||..+.|++|.+.
T Consensus        45 ~~~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~   80 (90)
T d1u2fa_          45 NQDKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIR   80 (90)
T ss_dssp             ETTTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCB
T ss_pred             CCCceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEEC
Confidence            3589999999999999999995 99999999999763

>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=98.76  E-value=2.9e-09  Score=59.12  Aligned_cols=34  Identities=15%  Similarity=0.183  Sum_probs=30.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++|||||+|.+.++|++||+ +++..++|+.|.+.
T Consensus        40 ~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk   73 (75)
T d1x0fa1          40 RRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIK   73 (75)
T ss_dssp             TTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEE
T ss_pred             cccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEE
Confidence            79999999999999999997 68889999988754

>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=98.76  E-value=2.2e-09  Score=60.99  Aligned_cols=36  Identities=28%  Similarity=0.663  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.++++|+.|+..|||..+.|++|.|++
T Consensus        46 ~~g~afV~f~~~~~a~~Ai~~l~~~~~~g~~l~V~~   81 (90)
T d1x5sa1          46 SRGFGFVTFENIDDAKDAMMAMNGKSVDGRQIRVDQ   81 (90)
T ss_dssp             CCSEEEEECSSHHHHHHHHHHHTTCCTTSCCCEEEE
T ss_pred             ccceEEEEECCHHHHHHHHHHcCCCEECCEEEEEEE
Confidence            689999999999999999999999999999999976

>d2cpxa1 d.58.7.1 (A:291-392) RNA-binding protein 41, RBM41 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: RNA-binding protein 41, RBM41
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.75  E-value=3.3e-09  Score=61.36  Aligned_cols=38  Identities=34%  Similarity=0.399  Sum_probs=35.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.+
T Consensus        59 ~~g~~fV~f~~~~~A~~Ai~~l~g~~~~g~~l~V~~ak   96 (102)
T d2cpxa1          59 MRGQAFITFPNKEIAWQALHLVNGYKLYGKILVIEFGK   96 (102)
T ss_dssp             SCSEEEEECSSHHHHHHHHHHSTTCBCSSCBCEEEECC
T ss_pred             ccccceEEeccHHHHHHHHHHhCCCEECCEEEEEEeCC
Confidence            57999999999999999999999999999999998754

>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=98.75  E-value=8.9e-09  Score=58.13  Aligned_cols=58  Identities=19%  Similarity=0.206  Sum_probs=41.5

Q ss_pred             HHHHHHHhhcCCceecCeEeEE--EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGI--SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v--~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      ++.......-.|.+..-+...-  ..++|||||+|.++++|++||+ ++|..+.|+.|.+.
T Consensus        20 e~~l~~~F~~~G~v~~v~l~~~~~~~~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~   79 (85)
T d1zh5a2          20 LDDIKEWLEDKGQVLNIQMRRTLHKAFKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLIL   79 (85)
T ss_dssp             HHHHHHHHTTSCCEEEEEEEECTTCCEEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEE
T ss_pred             HHHHHHHHHHhcccccceeeeeccCCcceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEE
Confidence            4444555555665544332211  1368999999999999999996 89999999999753

>d1fjca_ d.58.7.1 (A:) Nucleolin {Golden hamster (Mesocricetus auratus) [TaxId: 10036]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Nucleolin
species: Golden hamster (Mesocricetus auratus) [TaxId: 10036]

Probab=98.75  E-value=4.7e-09  Score=60.39  Aligned_cols=37  Identities=24%  Similarity=0.454  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|.+.
T Consensus        52 ~~~~afV~f~~~~~A~~A~~~l~~~~~~gr~i~V~~a   88 (96)
T d1fjca_          52 SKGIAYIEFKSEADAEKNLEEKQGAEIDGRSVSLYYT   88 (96)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHTTEEEETTEEEEEEEC
T ss_pred             cccEEEEEeCCHHHHHHHHHHcCCCEECCEEEEEEEe
Confidence            5899999999999999999999999999999999873

>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=98.73  E-value=3.3e-09  Score=60.03  Aligned_cols=38  Identities=21%  Similarity=0.294  Sum_probs=34.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee-cCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV-LGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l-~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|+|..+ .|++|+|+++|
T Consensus        47 ~~~~afV~f~~~~~A~~A~~~l~~~~i~~g~~l~v~~sk   85 (88)
T d2adca2          47 DRKMALIQMGSVEEAVQALIDLHNHDLGENHHLRVSFSK   85 (88)
T ss_dssp             STTCEEEEESSHHHHHHHHHHHTTCBSSSSCBCEEEECS
T ss_pred             ccceeEEEECCHHHHHHHHHhccCCEecCCCEEEEEeCC
Confidence            478999999999999999999999988 58999998866

>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=98.73  E-value=4.6e-09  Score=61.63  Aligned_cols=38  Identities=26%  Similarity=0.292  Sum_probs=35.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|||..+.|++|+|.+.+
T Consensus        45 ~~~~afV~f~~~~~A~~Ai~~lng~~~~g~~l~v~~a~   82 (104)
T d1weya_          45 SFKRVRINFSNPLSAADARLRLHKTEFLGKEMKLYFAQ   82 (104)
T ss_dssp             TTTEEEEECSSTTHHHHHHHTSTTSEETTEECEEECCC
T ss_pred             CCCEEEEEECCHHHHHHHHHHhcccccCCCEeEEeecc
Confidence            57999999999999999999999999999999998743

>d2dita1 d.58.7.1 (A:8-106) HIV Tat-specific factor 1 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: HIV Tat-specific factor 1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.73  E-value=8.4e-09  Score=59.89  Aligned_cols=39  Identities=26%  Similarity=0.383  Sum_probs=35.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++||+||+|.+.++|..|+..|||+.+.|++|.|.+-.|
T Consensus        56 ~~G~~fV~f~~~e~A~~A~~~lng~~~~gr~i~v~~~~g   94 (99)
T d2dita1          56 PDGVASVSFRDPEEADYCIQTLDGRWFGGRQITAQAWDG   94 (99)
T ss_dssp             TTCEEEEECSCHHHHHHHHHHSTTCEETTEECEEEECCS
T ss_pred             CccEEEEEECCHHHHHHHHHHhCCcEECCEEEEEEEeCC
Confidence            479999999999999999999999999999999986443

>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=98.73  E-value=3.4e-09  Score=59.69  Aligned_cols=36  Identities=22%  Similarity=0.427  Sum_probs=32.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC--eEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g--~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|  ++|.|++
T Consensus        47 ~~g~afV~f~~~~~A~~Ai~~l~g~~~~g~~~~l~V~~   84 (85)
T d1b7fa2          47 PRGVAFVRYNKREEAQEAISALNNVIPEGGSQPLSVRL   84 (85)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CceeEEEEECCHHHHHHHHHHHCCCEeCCCCeEEEEEE
Confidence            68999999999999999999999999977  8888864

>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=98.72  E-value=3.4e-09  Score=61.71  Aligned_cols=38  Identities=29%  Similarity=0.483  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++..
T Consensus        49 ~~g~afV~f~~~~~a~~ai~~l~~~~~~g~~i~V~~a~   86 (104)
T d1p1ta_          49 PKGYGFCEYQDQETALSAMRNLNGREFSGRALRVDNAA   86 (104)
T ss_dssp             EEEEEEEECSCHHHHHHHHHHSSSBSCSSSCBEEEETT
T ss_pred             cCCceEEEECCHHHHHHHHHHcCCCEECCEEEEEEECC
Confidence            57999999999999999999999999999999998754

>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=98.72  E-value=3.1e-09  Score=60.04  Aligned_cols=38  Identities=24%  Similarity=0.357  Sum_probs=35.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.++++|+.|+..|||..+.|++|.|.+.+
T Consensus        42 ~rg~aFV~f~~~~~A~~a~~~l~~~~l~g~~l~V~~A~   79 (85)
T d2u2fa_          42 SKGYAFCEYVDINVTDQAIAGLNGMQLGDKKLLVQRAS   79 (85)
T ss_dssp             CCCEEEEEESSSHHHHHHHHTSSSCCCSSSCCEEEECC
T ss_pred             cceeEEEEECCHHHHHHHHHHhCCCEECCEEEEEEECC
Confidence            68999999999999999999999999999999998643

>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=98.69  E-value=1.1e-08  Score=59.52  Aligned_cols=36  Identities=22%  Similarity=0.270  Sum_probs=32.3

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      ++|||||+|.++++|++|++ +|+..|.||.|.+...
T Consensus        56 ~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~   91 (104)
T d1wg5a_          56 STGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKS   91 (104)
T ss_dssp             BCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEE
T ss_pred             cceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEEC
Confidence            78999999999999999996 9999999999975543

>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=98.69  E-value=2.2e-08  Score=58.30  Aligned_cols=64  Identities=19%  Similarity=0.366  Sum_probs=42.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceec---CeEEEEEeeeeeccee
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVL---GQTLVSYKLQYYNGCR   81 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~---gr~i~~~~~~~~~~~~   81 (89)
                      ++....++.-.|...   .+.+...+|||||+|.+.++|++|+.+|||..+.   ++++. +.+.|-....
T Consensus        34 e~~L~~~F~~~G~i~---~i~~~~~k~~aFV~f~~~e~A~~A~~~lng~~i~~~~~~~i~-~~~~~~~~~~  100 (101)
T d2cq2a1          34 RNQLLPVLEKCGLVD---ALLMPPNKPYSFARYRTTEESKRAYVTLNGKEVVDDLGQKIT-LYLNFVEKVQ  100 (101)
T ss_dssp             HHHHHHHHHHHSCEE---EEECCTTCSCEEEEESSHHHHHHHHHHTTTCEEECTTSCEEE-CEEEEESCCC
T ss_pred             HHHHHHHHHhhCccc---EEeeccCccEEEEEECCHHHHHHHHHHhCCCCCCCCCCcEEE-EEEEeeeecc
Confidence            444445554444432   2344458999999999999999999999999883   35553 3445554443

>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=98.69  E-value=7e-09  Score=60.45  Aligned_cols=35  Identities=23%  Similarity=0.376  Sum_probs=33.0

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|.|++
T Consensus        59 ~kG~afV~F~~~e~a~~A~~-l~g~~~~G~~l~V~~   93 (101)
T d2cq4a1          59 SKGIAYVEFCEIQSVPLAIG-LTGQRLLGVPIIVQA   93 (101)
T ss_dssp             CCCCEEEEESCGGGHHHHHH-HTTEEETTEEEEEEE
T ss_pred             ccceEEEEECCHHHHHHHHH-HCCCEECCEEEEEEE
Confidence            68999999999999999995 999999999999975

>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=98.68  E-value=1.1e-08  Score=57.31  Aligned_cols=33  Identities=15%  Similarity=0.277  Sum_probs=29.9

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCceec-CeEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGRTVL-GQTLV   70 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~~l~-gr~i~   70 (89)
                      .+|||||+|.+.++|+.|+..|||..+. |++|.
T Consensus        44 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~   77 (83)
T d2b0ga1          44 RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMK   77 (83)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCE
T ss_pred             cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEE
Confidence            6799999999999999999999999985 67774

>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=98.68  E-value=1.1e-08  Score=58.44  Aligned_cols=61  Identities=11%  Similarity=0.159  Sum_probs=42.8

Q ss_pred             ecCHHHHHHHHhhcCCceecCeEeEE---EcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEE
Q psy4383          10 FSNPHDARSACLGEDGRTVLGQTLGI---SMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSY   72 (89)
Q Consensus        10 f~~~~~a~~Ai~~l~g~~l~g~~i~v---~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~   72 (89)
                      +...++....++.-.|.+..-+.+.-   ..+||||||+|.++++|++||+.+  ..++|+.|.+.
T Consensus        18 ~~~te~~l~~~F~~~G~i~~v~i~~d~~tg~srG~aFV~f~~~~~a~~al~~~--~~l~Gr~i~v~   81 (90)
T d2cqga1          18 WKTTEQDLKEYFSTFGEVLMVQVKKDLKTGHSKGFGFVRFTEYETQVKVMSQR--HMIDGRWCDCK   81 (90)
T ss_dssp             SSCCHHHHHHHHGGGSCEEEEEEEECSSSCSEEEEEEEEESSHHHHHHHHHSC--EEETTEEEEEE
T ss_pred             CCCCHHHHHHHHHhhcccceeeeccCCCCcccCCEEEEEECCHHHHHHHHhcC--CccCCEEeEEE
Confidence            34445555555555666544443332   247899999999999999999854  48999999654

>d1whxa_ d.58.7.1 (A:) Probable RNA-binding protein 19, Rbm19 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Probable RNA-binding protein 19, Rbm19
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.67  E-value=6e-09  Score=60.94  Aligned_cols=37  Identities=19%  Similarity=0.075  Sum_probs=34.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|++|.|++.
T Consensus        45 ~kg~afV~f~~~~~A~~A~~~lng~~~~gr~l~v~~a   81 (111)
T d1whxa_          45 GGITAIVEFLEPLEARKAFRHLAYSKFHHVPLYLEWA   81 (111)
T ss_dssp             SSSCEEEEESCHHHHHHHHHHHTTCBSSSSBCEEEEE
T ss_pred             cCceEEEEEcCHHHHHHHHHHHcCCccCCCeEEEEEC
Confidence            5799999999999999999999999999999999763

>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=98.66  E-value=7.4e-09  Score=58.35  Aligned_cols=36  Identities=25%  Similarity=0.505  Sum_probs=32.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCe--EeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQ--TLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~--~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+  +|.|.+
T Consensus        47 ~kg~afV~f~~~~~a~~Ai~~lng~~~~G~~~~i~V~~   84 (85)
T d1fxla2          47 SRGVGFIRFDKRIEAEEAIKGLNGQKPSGATEPITVKF   84 (85)
T ss_dssp             EEEEEEEEESSHHHHHHHHHHHTTCCCTTCSSCCEEEE
T ss_pred             CCCeeEEEEcCHHHHHHHHHHhCCCEeCCCCEEEEEEe
Confidence            689999999999999999999999999984  577754

>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=98.66  E-value=5.4e-09  Score=59.18  Aligned_cols=37  Identities=24%  Similarity=0.384  Sum_probs=34.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|+|++.
T Consensus        43 ~k~~afV~f~~~~~A~~A~~~l~g~~i~g~~l~V~~A   79 (86)
T d2cpja1          43 DKGFGFIRLETRTLAEIAKVELDNMPLRGKQLRVRFA   79 (86)
T ss_dssp             TTTEEEEECSSSHHHHHHHHHHTTCCBTTBCCEEEES
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEECCEEEEEEEC
Confidence            5799999999999999999999999999999999874

>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=98.64  E-value=2.6e-09  Score=62.10  Aligned_cols=38  Identities=8%  Similarity=0.093  Sum_probs=33.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+++.|.+.+
T Consensus        58 ~~g~afV~f~~~~~A~~Ai~~lng~~i~gr~~~v~~~~   95 (101)
T d1x5oa1          58 SRGVGFARMESTEKCEAVIGHFNGKFIKTPPGVSAPTE   95 (101)
T ss_dssp             EEEEEEEEESCHHHHHHHHHHHBTCCCCCCTTSCCCSS
T ss_pred             cccceeEEeCCHHHHHHHHHHhCCCEECCcCCccCCCC
Confidence            57999999999999999999999999999987765543

>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=98.64  E-value=2.1e-08  Score=55.39  Aligned_cols=34  Identities=21%  Similarity=0.486  Sum_probs=31.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.++++++.|+. ++|..+.|+.|.|+
T Consensus        43 ~~g~afV~f~~~e~~~~al~-~~~~~l~Gr~i~V~   76 (79)
T d1l3ka2          43 KRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVR   76 (79)
T ss_dssp             EEEEEEEEESSHHHHHHHHH-CSCCEETTEECEEE
T ss_pred             cccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEE
Confidence            68999999999999888885 99999999999986

>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=98.63  E-value=2.2e-08  Score=56.48  Aligned_cols=38  Identities=21%  Similarity=0.266  Sum_probs=34.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|+.|.|.+.+-
T Consensus        46 ~kG~afV~f~~~e~a~~al~-~~~~~~~g~~l~v~~~~d   83 (85)
T d1zh5a2          46 FKGSIFVVFDSIESAKKFVE-TPGQKYKETDLLILFKDD   83 (85)
T ss_dssp             EEEEEEEEESCHHHHHHHHT-CCCCEETTEECEEEEGGG
T ss_pred             cceEEEEEEcCHHHHHHHHH-HCCCEECCEEEEEEEcCC
Confidence            57999999999999999996 899999999999987553

>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=98.63  E-value=7.4e-08  Score=55.32  Aligned_cols=54  Identities=22%  Similarity=0.275  Sum_probs=39.8

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCe--EEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQ--TLV   70 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr--~i~   70 (89)
                      ++....+..-.|.+.   .+.+...+|||||+|.+.++|++|++.|||..|.|+  +|.
T Consensus        31 ~~~l~~~f~~~G~i~---~~~~~~~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~   86 (97)
T d1whya_          31 LAALAREFDRFGSIR---TIDHVKGDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLR   86 (97)
T ss_dssp             HHHHHHHHHTTSCEE---EEEECSSSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCE
T ss_pred             HHHHHHHHHhhcccc---eEeeeccccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEE
Confidence            334444544556543   233445789999999999999999999999999875  554

>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=98.63  E-value=1.1e-08  Score=60.47  Aligned_cols=37  Identities=16%  Similarity=0.232  Sum_probs=33.6

Q ss_pred             cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          37 MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        37 ~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++|||||+|.+.++|++||. |||..|+||.|.+..+
T Consensus        58 ~~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~~~   94 (112)
T d1wela1          58 KATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVHPI   94 (112)
T ss_dssp             SEEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEEEE
T ss_pred             ceeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEEEc
Confidence            378999999999999999996 9999999999988665

>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=98.62  E-value=1.5e-08  Score=55.38  Aligned_cols=35  Identities=14%  Similarity=0.359  Sum_probs=32.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +||..+.|++|.|+.
T Consensus        40 ~~~~afV~F~~~~~a~~al~-~~~~~l~gr~i~V~~   74 (75)
T d2msta_          40 HRGFGFVTFESEDIVEKVCE-IHFHEINNKMVECKK   74 (75)
T ss_dssp             SCCEEEEECSCHHHHHHHHH-CSSCCBTTBCCEEEE
T ss_pred             cCceeEEEECCHHHHHHHHh-cCCCEECCeEEEEEE
Confidence            68999999999999999996 999999999999863

>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=98.61  E-value=1.3e-08  Score=57.00  Aligned_cols=38  Identities=18%  Similarity=0.321  Sum_probs=33.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee-cCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV-LGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l-~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|+|..+ .|++|.|+++|
T Consensus        44 ~~g~afV~f~~~~~A~~A~~~l~g~~~~~~~~i~v~~ak   82 (83)
T d2b0ga1          44 RHDIAFVEFTTELQSNAAKEALQGFKITPTHAMKITFAK   82 (83)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHHTTCBSSTTCBCEEEECC
T ss_pred             cceeEEEecCCHHHHHHHHHHhCCcEeCCCcEEEEEEec
Confidence            469999999999999999999999888 46889988754

>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=98.61  E-value=2.5e-08  Score=58.01  Aligned_cols=35  Identities=20%  Similarity=0.550  Sum_probs=32.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..+++ .+.|+.|.|++
T Consensus        51 ~kg~afV~f~~~~~A~~Ai~~~~~-~l~Gr~l~V~~   85 (103)
T d2cqda1          51 SRGYGFVTMADRAAAERACKDPNP-IIDGRKANVNL   85 (103)
T ss_dssp             CCSEEEEEESSHHHHHHHHTCSSC-EETTEECEEEE
T ss_pred             cCCeEEEEECCHHHHHHHHHHCCC-cCCCEEEEEEE
Confidence            689999999999999999998886 79999999976

>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=98.60  E-value=1.7e-08  Score=55.66  Aligned_cols=34  Identities=12%  Similarity=0.364  Sum_probs=31.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.|.|+
T Consensus        40 ~kg~afV~f~~~~~a~~Al~-~~~~~l~Gr~i~V~   73 (75)
T d1hd0a_          40 SRGFGFVLFKESESVDKVMD-QKEHKLNGKVIDPK   73 (75)
T ss_dssp             CCSEEEEEESSHHHHHHHHH-TCCCCBTTBCCEEC
T ss_pred             cCceEEEEECCHHHHHHHHh-cCCCEECCCEEEee
Confidence            68999999999999999997 89999999999884

>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=98.60  E-value=2.5e-08  Score=57.80  Aligned_cols=35  Identities=26%  Similarity=0.330  Sum_probs=32.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +||..+.|+.|.|.+
T Consensus        49 ~~G~afV~F~s~~~a~~Al~-~n~~~i~gr~i~V~~   83 (103)
T d2cpya1          49 GLGQALVQFKNEDDARKSER-LHRKKLNGREAFVHV   83 (103)
T ss_dssp             CSSCEEEECSSHHHHHHHGG-GCSEEETTEEEEEEE
T ss_pred             cCccEEEEECCHHHHHHHHh-cCCCeECCcEEEEEE
Confidence            68999999999999999996 999999999999865

>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=98.59  E-value=1.6e-09  Score=61.62  Aligned_cols=39  Identities=31%  Similarity=0.505  Sum_probs=35.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccCe
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKGY   41 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG~   41 (89)
                      ++|||||+|.+.++|+.|+. |||..+.|+.|+|+..+.|
T Consensus        47 ~kg~afV~f~~~e~a~~a~~-l~g~~~~Gr~l~V~r~k~~   85 (90)
T d1u2fa_          47 DKNFAFLEFRSVDETTQAMA-FDGIIFQGQSLKIRRPHDY   85 (90)
T ss_dssp             TTTEEEEEESSCTTTTTGGG-GSSCCSSSSCCCCBCTTCC
T ss_pred             CceEEEEEeCCHHHHHHHHh-hCCcEECCEEEEECCCCCC
Confidence            68999999999999999985 9999999999999876654

>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=98.59  E-value=8e-09  Score=57.41  Aligned_cols=35  Identities=11%  Similarity=0.334  Sum_probs=32.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      +||||||+|.+.++|+.|+. +++..+.|+.|.|+.
T Consensus        41 ~kG~aFV~f~~~~~a~~al~-~~~~~i~Gr~i~V~~   75 (77)
T d1uawa_          41 SRGFGFVTFMDQAGVDKVLA-QSRHELDSKTIDPKV   75 (77)
T ss_dssp             CSSEEEECCCCTTHHHHHHH-TTTCCCSSCCCEEEE
T ss_pred             ccceEEEEECCHHHHHHHHH-cCCCEECCeEEEEEE
Confidence            78999999999999999997 799999999998863

>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=98.59  E-value=2.8e-09  Score=58.18  Aligned_cols=33  Identities=30%  Similarity=0.485  Sum_probs=30.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLG   34 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~   34 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.++
T Consensus        39 ~~g~afV~f~~~~~A~~Ai~~lng~~~~Gr~~k   71 (72)
T d1x4ea1          39 CKGYGFVDFDSPSAAQKAVTALKASGVQAQMAK   71 (72)
T ss_dssp             CCSEEEEEESCHHHHHHHHHHHHHHTCCEESCC
T ss_pred             ccceeEEEECCHHHHHHHHHHhCCCEECCEECc
Confidence            689999999999999999999999999998763

>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=98.58  E-value=3.3e-08  Score=56.46  Aligned_cols=38  Identities=26%  Similarity=0.408  Sum_probs=33.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcC------CceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGED------GRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~------g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..+|      |..+.|+.|+|++.+
T Consensus        49 ~~g~afV~F~~~~~a~~ai~~l~~~~~~~g~~~~gr~l~v~~a~   92 (98)
T d1x4ha1          49 SKGCAFAQFMTQEAAQKCLAAASLEAEGGGLKLDGRQLKVDLAV   92 (98)
T ss_dssp             BCSEEEEEESSHHHHHHHHHHHCTTTTTCCEESSSCEEEEECCC
T ss_pred             ccceEEEEEcCHHHHHHHHHHcccccccCCcEECCEEEEEEECC
Confidence            68999999999999999999875      678999999998743

>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=98.58  E-value=2.1e-07  Score=53.93  Aligned_cols=60  Identities=17%  Similarity=0.154  Sum_probs=42.4

Q ss_pred             HHHHHHHhhcCCceecCeEeEEEcccCeEEEEeCCHHHHHHHHHhc--CCceecCeEEEEEeeeeecc
Q psy4383          14 HDARSACLGEDGRTVLGQTLGISMHKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLVSYKLQYYNG   79 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l--~g~~l~gr~i~~~~~~~~~~   79 (89)
                      ++-...++.-.|.+.   .+.+...||+|||+|++.++|+.||..|  ++..+.|++|.   ++|...
T Consensus        29 e~~l~~~F~~fG~I~---~~~~~~~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~---v~~s~~   90 (104)
T d1wexa_          29 EADLVEALEKFGTIC---YVMMMPFKRQALVEFENIDSAKECVTFAADVPVYIAGQQAF---FNYSTS   90 (104)
T ss_dssp             HHHHHHHHTTTSCEE---EEEEETTTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCE---EEECSS
T ss_pred             HHHHHHhhhhcccce---EEEEEecceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEE---EEEcCC
Confidence            334445555556543   2334458999999999999999999987  56678899996   455443

>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=98.58  E-value=1e-08  Score=59.59  Aligned_cols=36  Identities=19%  Similarity=0.252  Sum_probs=33.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. ||+..+.||.|.|.++
T Consensus        54 ~~G~afVeF~~~~~a~~Al~-~~~~~i~gR~I~V~~s   89 (102)
T d1weza_          54 VTGEADVEFATHEDAVAAMA-KDKANMQHRYVELFLN   89 (102)
T ss_dssp             EEEEEEEECSSSHHHHHHHT-TSSCCSSSSCCEEEEE
T ss_pred             ceEEEEEEECCHHHHHHHHH-cCCCEECCEEEEEEEc
Confidence            57999999999999999986 8999999999999764

>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=98.57  E-value=3.2e-08  Score=55.99  Aligned_cols=55  Identities=16%  Similarity=0.323  Sum_probs=39.9

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEE---cccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEEEee
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGIS---MHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVSYKL   74 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~---~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~~~~   74 (89)
                      .++....++.-.|.     ...|.   .++|||||+|.++++|++||.  ++..|.|++|.+...
T Consensus        18 te~~L~~~F~~~G~-----v~~v~~~~~~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a   75 (88)
T d1wf0a_          18 TEDELREFFSQYGD-----VMDVFIPKPFRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNA   75 (88)
T ss_dssp             CHHHHHHHSTTTSC-----CCEEECCSSCCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECC
T ss_pred             CHHHHHHHHHHcCC-----ceEEEEeeccCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeC
Confidence            34444455544443     33343   378999999999999999996  889999999976544

>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=98.56  E-value=8.8e-09  Score=58.28  Aligned_cols=36  Identities=14%  Similarity=0.141  Sum_probs=32.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+
T Consensus        34 ~~g~afV~f~~~~~a~~Ai~~l~g~~~~g~~i~v~~   69 (87)
T d3begb1          34 RDGTGVVEFVRKEDMTYAVRKLDNTKFRSHEGETAY   69 (87)
T ss_dssp             TTSEEEEEESSHHHHHHHHHHHTTCBCCCTTSCCCB
T ss_pred             ccceeeEEeCCHHHHHHHHHHhCCCEECCcEeEEeE
Confidence            569999999999999999999999999999887654

>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=98.56  E-value=9.8e-08  Score=53.77  Aligned_cols=38  Identities=13%  Similarity=0.009  Sum_probs=32.6

Q ss_pred             EEEcccCeEEEEeCCHHHHHHHHHhc--CCceecCeEEEE
Q psy4383          34 GISMHKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLVS   71 (89)
Q Consensus        34 ~v~~~rG~afV~F~~~~~a~~Ai~~l--~g~~l~gr~i~~   71 (89)
                      .+..++|||||+|.+.++|++|+..|  ++..+.|++|.+
T Consensus        39 ~~~~~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v   78 (88)
T d2cq1a1          39 LMLKGKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYI   78 (88)
T ss_dssp             EEETTTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             cccccceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEE
Confidence            34457899999999999999999865  678999999963

>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=98.55  E-value=5.2e-08  Score=54.72  Aligned_cols=35  Identities=14%  Similarity=0.338  Sum_probs=32.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.|.|..
T Consensus        47 ~kG~afV~f~~~~~a~~ai~-~~~~~i~Gr~i~V~~   81 (84)
T d1l3ka1          47 SRGFGFVTYATVEEVDAAMN-ARPHKVDGRVVEPKR   81 (84)
T ss_dssp             EEEEEEEEESSHHHHHHHHH-TCSCEETTEECEEEE
T ss_pred             cccEEEEEEcCHHHHHHHHH-hCCCEECCEEEEEEe
Confidence            68999999999999999997 699999999999863

>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=98.55  E-value=4.7e-08  Score=57.02  Aligned_cols=35  Identities=17%  Similarity=0.380  Sum_probs=32.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+. ++|..+.|++|.|+.
T Consensus        61 ~kg~aFV~f~~~~~a~~al~-~~~~~l~G~~i~V~~   95 (103)
T d1x4ba1          61 SRGFGFVTFSSMAEVDAAMA-ARPHSIDGRVVEPKR   95 (103)
T ss_dssp             CCSEEEEECSSHHHHHHHHT-SCSEEETTEEEEEEC
T ss_pred             ccCeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEE
Confidence            68999999999999999996 899999999999975

>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=98.54  E-value=1.5e-07  Score=53.44  Aligned_cols=53  Identities=17%  Similarity=0.057  Sum_probs=39.3

Q ss_pred             HHHHHHHhhcCCceecCeEeEEE--cccCeEEEEeCCHHHHHHHHHhc--CCceecCeEEEE
Q psy4383          14 HDARSACLGEDGRTVLGQTLGIS--MHKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLVS   71 (89)
Q Consensus        14 ~~a~~Ai~~l~g~~l~g~~i~v~--~~rG~afV~F~~~~~a~~Ai~~l--~g~~l~gr~i~~   71 (89)
                      ++-...++.-.|.     ...+.  ..+++|||+|++.++|.+|++.|  ++..+.|++|.+
T Consensus        23 ~~eL~~lF~~fG~-----I~~i~i~~~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V   79 (89)
T d1x4da1          23 RYQLLQLVEPFGV-----ISNHLILNKINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRV   79 (89)
T ss_dssp             HHHHHTTTGGGSC-----EEEEEECSSSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEE
T ss_pred             HHHHHHHHHhhCC-----eEEEEeeccceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEE
Confidence            3434444444454     44444  47899999999999999999965  788999999964

>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=98.54  E-value=3.4e-08  Score=56.60  Aligned_cols=35  Identities=17%  Similarity=0.307  Sum_probs=30.0

Q ss_pred             ccCeEEEEeCCHHHHHHHHHhcCCc--eecCeEEEEE
Q psy4383          38 HKGYAFIQFSNPHDARSACLGEDGR--TVLGQTLVSY   72 (89)
Q Consensus        38 ~rG~afV~F~~~~~a~~Ai~~l~g~--~l~gr~i~~~   72 (89)
                      ++|||||+|.++++|+.||+.|++.  .+.|++|.+.
T Consensus        44 ~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~   80 (96)
T d2disa1          44 NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVD   80 (96)
T ss_dssp             TCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEE
T ss_pred             CCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEE
Confidence            7899999999999999999999654  5579988654

>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=98.53  E-value=4.6e-08  Score=56.66  Aligned_cols=36  Identities=14%  Similarity=0.311  Sum_probs=32.1

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+ +|||..+.|+.|+|++.
T Consensus        56 ~~g~afV~f~~~e~a~~~~-~~~~~~~~gr~l~V~~a   91 (104)
T d1wi8a_          56 LKGFGYAEFEDLDSLLSAL-SLNEESLGNKRIRVDVA   91 (104)
T ss_dssp             BCSCEEEEESSHHHHHHHH-GGGTCEETTEECEEEEC
T ss_pred             cceeeeEEECCHHHHHHHH-HcCCCEECCEEEEEEEC
Confidence            5799999999999998776 59999999999999763

>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=98.53  E-value=1.6e-08  Score=58.51  Aligned_cols=36  Identities=14%  Similarity=0.142  Sum_probs=33.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ++|||||+|.+.++|+.|+..|||..+.|+.|.|.+
T Consensus        49 ~~g~afV~f~~~~~a~~Ai~~lng~~~~g~~i~v~~   84 (98)
T d1wg4a_          49 KDGMGMVEYLRKEDMEYALRKLDDTKFRSHEGETSY   84 (98)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHSSEEEECTTSCEEE
T ss_pred             ccceEEEEECCHHHHHHHHHHhCCCEeCCeEEEEEE
Confidence            579999999999999999999999999999888865

>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=98.53  E-value=8.3e-08  Score=52.83  Aligned_cols=34  Identities=21%  Similarity=0.185  Sum_probs=31.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.++++|+.|+. ||+..+.|+.|.|.
T Consensus        39 ~~~~afV~F~~~~~a~~Al~-~~~~~i~g~~i~V~   72 (75)
T d2ghpa2          39 NFRFARIEFARYDGALAAIT-KTHKVVGQNEIIVS   72 (75)
T ss_dssp             SSEEEEEEESSHHHHHHHHT-TTTCEETTEECEEE
T ss_pred             cceEEEEEEcchHHhHHHHH-hcCcEECCEEEEEE
Confidence            46899999999999999995 99999999999886

>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=98.52  E-value=4.8e-08  Score=56.49  Aligned_cols=38  Identities=18%  Similarity=0.121  Sum_probs=33.0

Q ss_pred             EEcccCeEEEEeCCHHHHHHHHH--hcCCceecCeEEEEE
Q psy4383          35 ISMHKGYAFIQFSNPHDARSACL--GEDGRTVLGQTLVSY   72 (89)
Q Consensus        35 v~~~rG~afV~F~~~~~a~~Ai~--~l~g~~l~gr~i~~~   72 (89)
                      +..++|+|||+|.+.++|.+|++  .+++..+.|++|.+.
T Consensus        51 ~~~~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~   90 (99)
T d1x4fa1          51 LMRMKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVD   90 (99)
T ss_dssp             EETTTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEE
T ss_pred             EeecCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEE
Confidence            33579999999999999999997  588999999999643

>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=98.47  E-value=9.2e-08  Score=54.44  Aligned_cols=35  Identities=14%  Similarity=0.296  Sum_probs=30.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      +||||||+|.+.++|+.|+..+  ..+.|+.|.|.+.
T Consensus        49 srG~aFV~f~~~~~a~~al~~~--~~l~Gr~i~v~~a   83 (90)
T d2cqga1          49 SKGFGFVRFTEYETQVKVMSQR--HMIDGRWCDCKLP   83 (90)
T ss_dssp             EEEEEEEEESSHHHHHHHHHSC--EEETTEEEEEECC
T ss_pred             cCCEEEEEECCHHHHHHHHhcC--CccCCEEeEEEeC
Confidence            6899999999999999999854  4799999999764

>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=98.47  E-value=6.7e-08  Score=55.29  Aligned_cols=38  Identities=16%  Similarity=0.334  Sum_probs=32.8

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCC--ceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDG--RTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g--~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+..|++  ..+.|++|.|.+.+
T Consensus        44 ~rg~aFV~F~~~~~A~~Ai~~l~~~~~~~~g~~i~V~~A~   83 (96)
T d2disa1          44 NRGFAFVEYESHRAAAMARRKLMPGRIQLWGHQIAVDWAE   83 (96)
T ss_dssp             TCCEEEEEESSHHHHHHHHTTTTTCCSCBTTBCCEEEESC
T ss_pred             CCCeEEEEEcCHHHHHHHHHHHcCCCeEECCEEEEEEEcC
Confidence            689999999999999999999864  45679999998753

>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=98.45  E-value=4.8e-08  Score=57.12  Aligned_cols=38  Identities=32%  Similarity=0.454  Sum_probs=32.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceec--CeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVL--GQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~--g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..|||..+.  ++.|.+.+++
T Consensus        44 ~~g~aFV~f~~~e~A~~Ai~~ln~~~l~~~~~~l~v~~s~   83 (108)
T d2adba1          44 NQFQALLQYADPVSAQHAKLSLDGQNIYNACCTLRIDFSK   83 (108)
T ss_dssp             TEEEEEEEESCHHHHHHHHHHHHSCCSSTTCCCCEEEECS
T ss_pred             CCCeEEEEECCHHHHHHHHHHHCCCEeccCCcEEEEEecC
Confidence            5799999999999999999999999984  5667766543

>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=98.41  E-value=9.4e-08  Score=55.46  Aligned_cols=36  Identities=22%  Similarity=0.236  Sum_probs=32.7

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. +|+..+.||.|.|..+
T Consensus        56 ~kG~afV~F~~~e~a~~a~~-~~~~~i~gR~i~V~~~   91 (104)
T d1wg5a_          56 STGEAFVQFASQEIAEKALK-KHKERIGHRYIEIFKS   91 (104)
T ss_dssp             BCSEEEEEESSHHHHHHHHT-TTTCCSSSSCCEEEEE
T ss_pred             cceEEEEEeCCHHHHHHHHh-hCCCEEcceEEEEEEC
Confidence            67999999999999999996 9999999999998753

>d1o0pa_ d.58.7.1 (A:) Splicing factor U2AF 65 KDa subunit {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Splicing factor U2AF 65 KDa subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.40  E-value=9.6e-08  Score=55.62  Aligned_cols=36  Identities=22%  Similarity=0.365  Sum_probs=33.3

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      ..|++||+|.+.++|..|+..|||+.+.||+|.+.+
T Consensus        57 ~~g~vfV~f~~~e~A~~A~~~l~Gr~f~gR~v~v~f   92 (104)
T d1o0pa_          57 GCGKIFVEFTSVFDCQKAMQGLTGRKFANRVVVTKY   92 (104)
T ss_dssp             TCCEEEEEESCHHHHHHHHHHHSSCCSSSSCCEEEE
T ss_pred             CceEEEEEECCHHHHHHHHHHHCCCEECCeEEEEEE
Confidence            358999999999999999999999999999998864

>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=98.39  E-value=2.4e-07  Score=52.06  Aligned_cols=38  Identities=16%  Similarity=0.087  Sum_probs=33.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhc--CCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l--~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|+.|+..+  ++..+.|++|.|++++
T Consensus        43 ~~~~afV~f~~~e~A~~a~~~~~~~~~~~~g~~l~v~~sk   82 (88)
T d2cq1a1          43 GKNQAFLELATEEAAITMVNYYSAVTPHLRNQPIYIQYSN   82 (88)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEECS
T ss_pred             cceEEEEEeCCHHHHHHHHHHHccCCCccCCCEEEEEECC
Confidence            5799999999999999999855  6789999999998754

>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=98.36  E-value=9.7e-08  Score=52.67  Aligned_cols=34  Identities=18%  Similarity=0.272  Sum_probs=30.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.+.|+
T Consensus        40 ~rG~~FV~f~~~~~a~~al~-~~~~~i~g~~i~vk   73 (75)
T d1x0fa1          40 RRGFCFITFKEEEPVKKIME-KKYHNVGLSKCEIK   73 (75)
T ss_dssp             TTCCEEEEESSSHHHHHHTT-CSSCCBTTBCCEEE
T ss_pred             cccEEEEEECCHHHHHHHHh-hCCCEECCEEeEEE
Confidence            68999999999999999997 57788999988875

>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=98.34  E-value=2.1e-07  Score=53.37  Aligned_cols=38  Identities=26%  Similarity=0.496  Sum_probs=33.4

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecC--eEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLG--QTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g--~~i~v~~~r   39 (89)
                      .++||||+|.+.++|+.|+..|||..+.|  ++|+|++.+
T Consensus        52 ~~~~afV~f~~~~~A~~A~~~l~~~~i~g~~~~l~v~~ak   91 (97)
T d1whya_          52 GDSFAYIQYESLDAAQAACAKMRGFPLGGPDRRLRVDFAK   91 (97)
T ss_dssp             SSCCEEEEESSHHHHHHHHHHHTTCBCSSSSCBCEEEECC
T ss_pred             cccEEEeccCCHHHHHHHHHHhCCCEeCCCceEEEEEeCC
Confidence            57999999999999999999999999977  478887654

>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=98.31  E-value=1.8e-07  Score=53.96  Aligned_cols=38  Identities=18%  Similarity=0.226  Sum_probs=34.3

Q ss_pred             cceeEEEEecCHHHHHHHHh--hcCCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACL--GEDGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~--~l~g~~l~g~~i~v~~~r   39 (89)
                      ++|||||+|.+.++|..|+.  .+++..+.|+.|.|++++
T Consensus        54 ~k~~afV~f~~~~~A~~Ai~~~~~~~~~~~gr~l~V~~s~   93 (99)
T d1x4fa1          54 MKSQAFIEMETREDAMAMVDHCLKKALWFQGRCVKVDLSE   93 (99)
T ss_dssp             TTTEEEEECSSHHHHHHHHHHHHHSCCCSSSSCCEEEEEC
T ss_pred             cCCcEEEEecchHHHHHHHHHHhcCCceECCEEEEEEEcC
Confidence            58999999999999999997  678999999999998754

>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=98.30  E-value=4.4e-07  Score=50.80  Aligned_cols=35  Identities=23%  Similarity=0.379  Sum_probs=30.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeE-eEEEc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQT-LGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~-i~v~~   37 (89)
                      ++|||||+|.++++|++|+. +||+.+.|+. |.|..
T Consensus        38 ~~~~~fV~f~~~~~A~~Al~-~nG~~~~g~~~vgV~~   73 (81)
T d1wwha1          38 TGNWMHIRYQSKLQARKALS-KDGRIFGESIMIGVKP   73 (81)
T ss_dssp             SSSEEEEEESSHHHHHHHHT-TTTCEETTTEECEEEE
T ss_pred             CCCEEEEEEcccHHHHHHHh-cCCCeECCcEEEEEEe
Confidence            57999999999999999996 9999999985 45654

>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=98.29  E-value=1.5e-07  Score=55.32  Aligned_cols=34  Identities=18%  Similarity=0.309  Sum_probs=31.2

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEE
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGIS   36 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~   36 (89)
                      ++|||||+|.+.++|+.|+. |||..|.|+.|.|.
T Consensus        59 ~~G~afVeF~~~e~a~~al~-~~~~~i~gR~i~V~   92 (112)
T d1wela1          59 ATGEGFVEFRNEADYKAALC-RHKQYMGNRFIQVH   92 (112)
T ss_dssp             EEEEEEEEBSSSHHHHHHHT-SCSBCSTTSCBEEE
T ss_pred             eeeEEEEEECCHHHHHHHHH-cCCCcCCCEEEEEE
Confidence            57999999999999999996 99999999998874

>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=98.25  E-value=2.9e-07  Score=51.87  Aligned_cols=35  Identities=26%  Similarity=0.482  Sum_probs=31.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+.  ++..+.|+.|.|.+.
T Consensus        41 ~~gfafV~f~~~~~a~~a~~--~~~~i~g~~l~v~~a   75 (88)
T d1wf0a_          41 FRAFAFVTFADDQIAQSLCG--EDLIIKGISVHISNA   75 (88)
T ss_dssp             CCSCCEEECSCHHHHHHTTT--CEEEETTEEEEEECC
T ss_pred             cCceEEEEECCHHHHHHHHh--CCCEECCEEeEEEeC
Confidence            58999999999999999985  788999999999863

>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=98.24  E-value=7.4e-07  Score=50.38  Aligned_cols=38  Identities=21%  Similarity=0.302  Sum_probs=33.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhc--CCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l--~g~~l~g~~i~v~~~r   39 (89)
                      .+++|||+|.+.++|..|+..+  ++..+.|++|.|++++
T Consensus        44 ~k~~afV~f~~~~~A~~A~~~l~~~~~~~~gr~l~V~~s~   83 (89)
T d1x4da1          44 KINEAFIEMATTEDAQAAVDYYTTTPALVFGKPVRVHLSQ   83 (89)
T ss_dssp             SSSCEEEEESSHHHHHHHHHHHHHSCCEETTEECEEEEEC
T ss_pred             cceEEEEEEcchhhHHHHHHHHhhCCCccCCceEEEEECC
Confidence            4689999999999999999854  7889999999998765

>d1owxa_ d.58.7.1 (A:) Lupus LA protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Lupus LA protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.20  E-value=5.2e-07  Score=53.08  Aligned_cols=53  Identities=9%  Similarity=0.038  Sum_probs=38.3

Q ss_pred             HHHHHHHHhhcCCceecCeEeEEE--cccCeEEEEeCCH-HHHHHHHHhcCCceecCeEEE
Q psy4383          13 PHDARSACLGEDGRTVLGQTLGIS--MHKGYAFIQFSNP-HDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        13 ~~~a~~Ai~~l~g~~l~g~~i~v~--~~rG~afV~F~~~-~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .++....++.-.|.     +..|.  ..+|||||+|.++ ++|.+|+..||+..+.++.+.
T Consensus        24 tee~Lk~~F~~fG~-----V~~v~i~~~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~   79 (113)
T d1owxa_          24 CREDLHILFSNHGE-----IKWIDFVRGAKEGIILFKEKAKEALGKAKDANNGNLQLRNKE   79 (113)
T ss_dssp             CHHHHHHHTCSSCC-----EEEEECCTTCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSS
T ss_pred             CHHHHHHHHHhcCC-----hheEEEecCCceEEEEecCcHHHHHHHHHHhcCCceecCceE
Confidence            34445555544444     44444  4689999999885 789999999999999887664

>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=98.17  E-value=7.1e-07  Score=51.64  Aligned_cols=38  Identities=18%  Similarity=0.144  Sum_probs=32.9

Q ss_pred             cceeEEEEecCHHHHHHHHhhc--CCceecCeEeEEEccc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGE--DGRTVLGQTLGISMHK   39 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l--~g~~l~g~~i~v~~~r   39 (89)
                      +||+|||+|.+.++|+.|+..+  ++..+.|++|+|++++
T Consensus        50 ~k~~AfV~f~~~e~A~~ai~~~~~~~~~~~g~~l~v~~s~   89 (104)
T d1wexa_          50 FKRQALVEFENIDSAKECVTFAADVPVYIAGQQAFFNYST   89 (104)
T ss_dssp             TTTEEEEEESSHHHHHHHHHHHHHSCCBSSSSBCEEEECS
T ss_pred             cceeEEEEeCCHHHHHHHHHHHcCCCcEEeeEEEEEEEcC
Confidence            5899999999999999999877  5667889999998743

>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=98.09  E-value=1.7e-06  Score=49.98  Aligned_cols=27  Identities=22%  Similarity=0.571  Sum_probs=25.5

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCcee
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTV   28 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l   28 (89)
                      .+|||||+|.+.++|..|+..|||..+
T Consensus        55 ~k~~aFV~f~~~e~A~~A~~~lng~~i   81 (101)
T d2cq2a1          55 NKPYSFARYRTTEESKRAYVTLNGKEV   81 (101)
T ss_dssp             TCSCEEEEESSHHHHHHHHHHTTTCEE
T ss_pred             CccEEEEEECCHHHHHHHHHHhCCCCC
Confidence            579999999999999999999999887

>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=98.06  E-value=2.6e-06  Score=52.75  Aligned_cols=36  Identities=19%  Similarity=0.439  Sum_probs=32.6

Q ss_pred             cceeEEEEecCHHHHHHHHhhcCCceecCeEeEEEcc
Q psy4383           2 HKGYAFIQFSNPHDARSACLGEDGRTVLGQTLGISMH   38 (89)
Q Consensus         2 ~~Gf~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~   38 (89)
                      ++|||||+|.+.++|+.|+. +++..+.|+.|.|.+.
T Consensus       138 ~~g~~fV~f~~~e~A~~Al~-~~~~~~~G~~i~V~~A  173 (183)
T d1u1qa_         138 KRGFAFVTFDDHDSVDKIVI-QKYHTVNGHNCEVRKA  173 (183)
T ss_dssp             EEEEEEEEESCHHHHHHHHT-SSCEEETTEEEEEEEC
T ss_pred             cceeEEEEECCHHHHHHHHH-hCCCeECCEEEEEEec
Confidence            57999999999999999997 7999999999999753

>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=97.57  E-value=1.2e-05  Score=47.03  Aligned_cols=36  Identities=8%  Similarity=0.079  Sum_probs=30.1

Q ss_pred             cceeEEEEecCH-HHHHHHHhhcCCceecCeEeEEEc
Q psy4383           2 HKGYAFIQFSNP-HDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         2 ~~Gf~fV~f~~~-~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      .+|||||.|.++ ++|..|+..+++..+.++.+.|.+
T Consensus        46 ~kg~gfV~F~~~~~~A~~a~~~~~~~~l~~~~~~v~~   82 (113)
T d1owxa_          46 GAKEGIILFKEKAKEALGKAKDANNGNLQLRNKEVTW   82 (113)
T ss_dssp             TCSEEEEEESSCHHHHHHHHHHTTTSCBCTTSSSEEE
T ss_pred             CCceEEEEecCcHHHHHHHHHHhcCCceecCceEEEE
Confidence            479999999985 789999999999998887665544

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.88  E-value=0.00065  Score=38.52  Aligned_cols=43  Identities=23%  Similarity=0.390  Sum_probs=39.0

Q ss_pred             ecCeEeEEEcccCeEEEEeCCHHHHHHHHHhcCCceecCeEEEE
Q psy4383          28 VLGQTLGISMHKGYAFIQFSNPHDARSACLGEDGRTVLGQTLVS   71 (89)
Q Consensus        28 l~g~~i~v~~~rG~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~~   71 (89)
                      -.|..+-|++-.+--.|+|.+-++|.+|++ ++|.++.|+.|.+
T Consensus        47 ~~GeViLvRFv~d~mwVTF~dG~SAL~al~-l~g~~v~G~~l~I   89 (95)
T d1ufwa_          47 SYGTIVLVRINQGQMLVTFADSHSALSVLD-VDGMKVKGRAVKI   89 (95)
T ss_dssp             HHSCCSEEEEETTEEEEECSCSHHHHHHHH-GGGSEETTEEEEE
T ss_pred             hCCeEEEEEEeCCeEEEEECCcHHHHHHhc-cCCeEEcceEEEE
Confidence            367788899999999999999999999999 9999999999853

>d1ufwa_ d.58.7.1 (A:) Synaptojanin 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Synaptojanin 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.71  E-value=0.015  Score=32.72  Aligned_cols=31  Identities=32%  Similarity=0.429  Sum_probs=28.3

Q ss_pred             EEEEecCHHHHHHHHhhcCCceecCeEeEEEc
Q psy4383           6 AFIQFSNPHDARSACLGEDGRTVLGQTLGISM   37 (89)
Q Consensus         6 ~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~   37 (89)
                      -.|.|.+-+.|.+|+. ++|.+++|+.|.+..
T Consensus        61 mwVTF~dG~SAL~al~-l~g~~v~G~~l~It~   91 (95)
T d1ufwa_          61 MLVTFADSHSALSVLD-VDGMKVKGRAVKISG   91 (95)
T ss_dssp             EEEECSCSHHHHHHHH-GGGSEETTEEEEEEC
T ss_pred             EEEEECCcHHHHHHhc-cCCeEEcceEEEEec
Confidence            4799999999999998 999999999999864

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.32  E-value=0.061  Score=28.72  Aligned_cols=30  Identities=20%  Similarity=0.178  Sum_probs=28.5

Q ss_pred             eEEEEeCCHHHHHHHHHhcCCceecCeEEE
Q psy4383          41 YAFIQFSNPHDARSACLGEDGRTVLGQTLV   70 (89)
Q Consensus        41 ~afV~F~~~~~a~~Ai~~l~g~~l~gr~i~   70 (89)
                      .|-|...+.++|.-|+..|+..+|+++.|.
T Consensus        37 ~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~   66 (73)
T d2dgxa1          37 KAVVQMENLQDAIGAVNSLHRYKIGSKKIL   66 (73)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTEEETTEEEE
T ss_pred             EEEEEcCCHHHHHHHHHHHHHHhcCCeEEE
Confidence            699999999999999999999999999994

>d2dgxa1 d.58.7.1 (A:563-635) Limkain-b1, LKAP {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: Ferredoxin-like
superfamily: RNA-binding domain, RBD
family: Canonical RBD
domain: Limkain-b1, LKAP
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.19  E-value=0.06  Score=28.76  Aligned_cols=36  Identities=22%  Similarity=0.220  Sum_probs=32.8

Q ss_pred             eEEEEecCHHHHHHHHhhcCCceecCeEeEEEcccC
Q psy4383           5 YAFIQFSNPHDARSACLGEDGRTVLGQTLGISMHKG   40 (89)
Q Consensus         5 f~fV~f~~~~~a~~Ai~~l~g~~l~g~~i~v~~~rG   40 (89)
                      .|-|..++..+|..|+..|+...+.+|.|.|.+..|
T Consensus        37 ~A~V~v~~~q~A~~~v~~LhR~KiG~KRI~Vs~~~~   72 (73)
T d2dgxa1          37 KAVVQMENLQDAIGAVNSLHRYKIGSKKILVSLATG   72 (73)
T ss_dssp             CEEEEESSHHHHHHHHHHHTTEEETTEEEEEEECCC
T ss_pred             EEEEEcCCHHHHHHHHHHHHHHhcCCeEEEEEEecC
Confidence            478999999999999999999999999999987655